SRX2675843 GSM2551210 SRP102530 SRS2074582 GSM2551210 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551210 GSM2551210 GEO Accession GSM2551210 SRX2675844 GSM2551211 SRP102530 SRS2074583 GSM2551211 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551211 GSM2551211 GEO Accession GSM2551211 SRX2675845 GSM2551212 SRP102530 SRS2074584 GSM2551212 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551212 GSM2551212 GEO Accession GSM2551212 SRX2675847 GSM2551213 SRP102530 SRS2074585 GSM2551213 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551213 GSM2551213 GEO Accession GSM2551213 SRX2675848 GSM2551214 SRP102530 SRS2074586 GSM2551214 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551214 GSM2551214 GEO Accession GSM2551214 SRX2675849 GSM2551215 SRP102530 SRS2074587 GSM2551215 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551215 GSM2551215 GEO Accession GSM2551215 SRX2675850 GSM2551216 SRP102530 SRS2074588 GSM2551216 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551216 GSM2551216 GEO Accession GSM2551216 SRX2675851 GSM2551217 SRP102530 SRS2074589 GSM2551217 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551217 GSM2551217 GEO Accession GSM2551217 SRX2675852 GSM2551218 SRP102530 SRS2074590 GSM2551218 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551218 GSM2551218 GEO Accession GSM2551218 SRX2675853 GSM2551219 SRP102530 SRS2074591 GSM2551219 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551219 GSM2551219 GEO Accession GSM2551219 SRX2675854 GSM2551220 SRP102530 SRS2074592 GSM2551220 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551220 GSM2551220 GEO Accession GSM2551220 SRX2675855 GSM2551221 SRP102530 SRS2074593 GSM2551221 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551221 GSM2551221 GEO Accession GSM2551221 SRX2675856 GSM2551222 SRP102530 SRS2074594 GSM2551222 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551222 GSM2551222 GEO Accession GSM2551222 SRX2675857 GSM2551223 SRP102530 SRS2074595 GSM2551223 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551223 GSM2551223 GEO Accession GSM2551223 SRX2675858 GSM2551224 SRP102530 SRS2074596 GSM2551224 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551224 GSM2551224 GEO Accession GSM2551224 SRX2675859 GSM2551225 SRP102530 SRS2074597 GSM2551225 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551225 GSM2551225 GEO Accession GSM2551225 SRX2675860 GSM2551226 SRP102530 SRS2074598 GSM2551226 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551226 GSM2551226 GEO Accession GSM2551226 SRX2675861 GSM2551227 SRP102530 SRS2074599 GSM2551227 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551227 GSM2551227 GEO Accession GSM2551227 SRX2675862 GSM2551228 SRP102530 SRS2074600 GSM2551228 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551228 GSM2551228 GEO Accession GSM2551228 SRX2675863 GSM2551229 SRP102530 SRS2074601 GSM2551229 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551229 GSM2551229 GEO Accession GSM2551229 SRX2675865 GSM2551230 SRP102530 SRS2074602 GSM2551230 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551230 GSM2551230 GEO Accession GSM2551230 SRX2675866 GSM2551231 SRP102530 SRS2074603 GSM2551231 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551231 GSM2551231 GEO Accession GSM2551231 SRX2675867 GSM2551232 SRP102530 SRS2074604 GSM2551232 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551232 GSM2551232 GEO Accession GSM2551232 SRX2675868 GSM2551233 SRP102530 SRS2074605 GSM2551233 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551233 GSM2551233 GEO Accession GSM2551233 SRX2675869 GSM2551234 SRP102530 SRS2074607 GSM2551234 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551234 GSM2551234 GEO Accession GSM2551234 SRX2675870 GSM2551235 SRP102530 SRS2074606 GSM2551235 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551235 GSM2551235 GEO Accession GSM2551235 SRX2675871 GSM2551236 SRP102530 SRS2074608 GSM2551236 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551236 GSM2551236 GEO Accession GSM2551236 SRX2675872 GSM2551237 SRP102530 SRS2074609 GSM2551237 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551237 GSM2551237 GEO Accession GSM2551237 SRX2675873 GSM2551238 SRP102530 SRS2074610 GSM2551238 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551238 GSM2551238 GEO Accession GSM2551238 SRX2675874 GSM2551239 SRP102530 SRS2074611 GSM2551239 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551239 GSM2551239 GEO Accession GSM2551239 SRX2675875 GSM2551240 SRP102530 SRS2074612 GSM2551240 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551240 GSM2551240 GEO Accession GSM2551240 SRX2675876 GSM2551241 SRP102530 SRS2074614 GSM2551241 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551241 GSM2551241 GEO Accession GSM2551241 SRX2675877 GSM2551242 SRP102530 SRS2074613 GSM2551242 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551242 GSM2551242 GEO Accession GSM2551242 SRX2675878 GSM2551243 SRP102530 SRS2074617 GSM2551243 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551243 GSM2551243 GEO Accession GSM2551243 SRX2675879 GSM2551244 SRP102530 SRS2074616 GSM2551244 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551244 GSM2551244 GEO Accession GSM2551244 SRX2675880 GSM2551245 SRP102530 SRS2074615 GSM2551245 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551245 GSM2551245 GEO Accession GSM2551245 SRX2675881 GSM2551246 SRP102530 SRS2074618 GSM2551246 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551246 GSM2551246 GEO Accession GSM2551246 SRX2675882 GSM2551247 SRP102530 SRS2074621 GSM2551247 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551247 GSM2551247 GEO Accession GSM2551247 SRX2675884 GSM2551248 SRP102530 SRS2074619 GSM2551248 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551248 GSM2551248 GEO Accession GSM2551248 SRX2675885 GSM2551249 SRP102530 SRS2074620 GSM2551249 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551249 GSM2551249 GEO Accession GSM2551249 SRX2675886 GSM2551250 SRP102530 SRS2074624 GSM2551250 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551250 GSM2551250 GEO Accession GSM2551250 SRX2675887 GSM2551251 SRP102530 SRS2074622 GSM2551251 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551251 GSM2551251 GEO Accession GSM2551251 SRX2675888 GSM2551252 SRP102530 SRS2074623 GSM2551252 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551252 GSM2551252 GEO Accession GSM2551252 SRX2675889 GSM2551253 SRP102530 SRS2074625 GSM2551253 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551253 GSM2551253 GEO Accession GSM2551253 SRX2675890 GSM2551254 SRP102530 SRS2074626 GSM2551254 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551254 GSM2551254 GEO Accession GSM2551254 SRX2675891 GSM2551255 SRP102530 SRS2074629 GSM2551255 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551255 GSM2551255 GEO Accession GSM2551255 SRX2675892 GSM2551256 SRP102530 SRS2074628 GSM2551256 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551256 GSM2551256 GEO Accession GSM2551256 SRX2675893 GSM2551257 SRP102530 SRS2074627 GSM2551257 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551257 GSM2551257 GEO Accession GSM2551257 SRX2675894 GSM2551258 SRP102530 SRS2074630 GSM2551258 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551258 GSM2551258 GEO Accession GSM2551258 SRX2675895 GSM2551259 SRP102530 SRS2074631 GSM2551259 ChIP-Seq GENOMIC ChIP Cells were rapidly harvested by vacuum filtration through a 90 mm diameter 0.45 micron nitrocellulose filter, followed by a 100 ml wash with the cell culture media. The cell paste was scraped off with a pre-chilled spatula and plunged into liquid nitrogen to flash freeze cells. For spike-in normalization, an 8 liter batch of S. pombe was grown in YE (+ Antifoam 204) to a similar absorbance and harvested as described above. 2.5 g S. cerevisiae were combined with 0.25 g S. pombe in a mortar pre-chilled on dry ice and liquid nitrogen. Frozen cells were lysed with a 4.5” OD mortar and large pestle. Cells were ground for 1 min, liquid nitrogen was then added to the cells and ground for 1 min. The grinding and addition of liquid nitrogen was repeated for a total of 6 minutes. The frozen powdered ground cells were transferred to a cold conical tube and stored at -80 deg. DNA isolated from IPs was prepared for sequencing as previously described (Skene and Henikoff, eLIFE 2017), except for the following changes. End Repair and A-tailing was performed in a 20 ml volume containing up to 50 ng DNA and the following final concentrations: 1X T4 DNA ligase buffer (NEB #B0202S), 0.5 mM each dNTP, 0.25 mM ATP, 2.5% PEG 4000, 2.5 U T4 PNK (NEB #M0201S), 0.05 U T4 DNA polymerase (Invitrogen #18005025), and 0.05 U Taq DNA polymerase and reactions were incubated at 12 deg 15 min, 37 deg 15 min, 72 deg 20 min, then put on ice and immediately used in adapter ligation reactions. Adapter Ligation was performed in a 50 ml volume containing 100:1 adapter:insert molar ratios, 1X Rapid DNA ligase buffer (Enzymatics #B101L) and 3000 U DNA ligase (Enzymatics #L6030-HC-L). A single post-ligation cleanup was performed using 0.4X vol AMPure XP reagent (Beckman Coulter #A63881) and DNA eluted in 40 ul 0.1X TE. Library Enrichment was performed in a 25 μl volume containing 16.25 μl DNA from previous step and the following final concentrations: 1X KAPA buffer, 0.3 mM each dNTP, 0.5 mM each P5 and P7 PCR primer, and 0.5 U KAPA HS HIFI polymerase (#KK2502). DNA was amplified with the following program: 98 deg 45 sec, [98 deg 15 sec, ramp to 60 deg @ 1 deg/sec, 60 deg 20 sec, ramp to 98 deg @ 1 deg/sec] 8-10X, 72 deg 1 min. A post-PCR cleanup was performed using 1.4X vol AMPure XP reagent and DNA was eluted into 40 ml 0.1X TE. Libraries were sequenced on the Illumina HiSeq2500 platform using 25 bp paired-ends at the Fred Hutchinson Cancer Research Center Genomics Shared Resources facility. Illumina HiSeq 2500 gds 302551259 GSM2551259 GEO Accession GSM2551259