SRX18373864 GSM6755344_r1 SRP409626 PRJNA905056 SRS15860268 GSM6755344 GSM6755344 OTHER TRANSCRIPTOMIC other For GeoMx DSP sample collections, entire slides were imaged at 20X magnification. ROIs were segmented using CD30 and CD4 markers. CD30+ large cells were defined as HRS cells (CD30+). CD4+ cells within 20μm from CD30+ HRS cell were defined as “contour”. The remaining CD4+ cells were defined as “remainder”. A total of 12 AOIs from 4 ROIs were segmented and exposed to 385 nm light (UV), releasing the indexing oligonucleotides which were collected with a microcapillary and deposited into a 96-well plate for subsequent processing. The indexing oligonucleotides were dried overnight and resuspended in 10 μl of DEPC-treated water. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences. Unique i5 and i7 sample indexes were added. Each PCR reaction used 4 μl of indexing oligonucleotides, 4 μl of indexing PCR primers, 2 μl of Nanostring 5X PCR Master Mix. Thermocycling conditions were 37 °C for 30 min, 50 °C for 10 min, 95 °C for 3 min; 18 cycles of 95 °C for 15 s, 65 °C for 1 min, 68 °C for 30 s; and 68 °C for 5 min. PCR reactions were pooled and purified twice using AMPure XP beads (Beckman Coulter, A63881), according to the manufacturer's protocol. Illumina NovaSeq 6000 SRX18373865 GSM6755345_r1 SRP409626 PRJNA905056 SRS15860269 GSM6755345 GSM6755345 OTHER TRANSCRIPTOMIC other For GeoMx DSP sample collections, entire slides were imaged at 20X magnification. ROIs were segmented using CD30 and CD4 markers. CD30+ large cells were defined as HRS cells (CD30+). CD4+ cells within 20μm from CD30+ HRS cell were defined as “contour”. The remaining CD4+ cells were defined as “remainder”. A total of 12 AOIs from 4 ROIs were segmented and exposed to 385 nm light (UV), releasing the indexing oligonucleotides which were collected with a microcapillary and deposited into a 96-well plate for subsequent processing. The indexing oligonucleotides were dried overnight and resuspended in 10 μl of DEPC-treated water. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences. Unique i5 and i7 sample indexes were added. Each PCR reaction used 4 μl of indexing oligonucleotides, 4 μl of indexing PCR primers, 2 μl of Nanostring 5X PCR Master Mix. Thermocycling conditions were 37 °C for 30 min, 50 °C for 10 min, 95 °C for 3 min; 18 cycles of 95 °C for 15 s, 65 °C for 1 min, 68 °C for 30 s; and 68 °C for 5 min. PCR reactions were pooled and purified twice using AMPure XP beads (Beckman Coulter, A63881), according to the manufacturer's protocol. Illumina NovaSeq 6000 SRX18373866 GSM6755346_r1 SRP409626 PRJNA905056 SRS15860270 GSM6755346 GSM6755346 OTHER TRANSCRIPTOMIC other For GeoMx DSP sample collections, entire slides were imaged at 20X magnification. ROIs were segmented using CD30 and CD4 markers. CD30+ large cells were defined as HRS cells (CD30+). CD4+ cells within 20μm from CD30+ HRS cell were defined as “contour”. The remaining CD4+ cells were defined as “remainder”. A total of 12 AOIs from 4 ROIs were segmented and exposed to 385 nm light (UV), releasing the indexing oligonucleotides which were collected with a microcapillary and deposited into a 96-well plate for subsequent processing. The indexing oligonucleotides were dried overnight and resuspended in 10 μl of DEPC-treated water. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences. Unique i5 and i7 sample indexes were added. Each PCR reaction used 4 μl of indexing oligonucleotides, 4 μl of indexing PCR primers, 2 μl of Nanostring 5X PCR Master Mix. Thermocycling conditions were 37 °C for 30 min, 50 °C for 10 min, 95 °C for 3 min; 18 cycles of 95 °C for 15 s, 65 °C for 1 min, 68 °C for 30 s; and 68 °C for 5 min. PCR reactions were pooled and purified twice using AMPure XP beads (Beckman Coulter, A63881), according to the manufacturer's protocol. Illumina NovaSeq 6000 SRX18373867 GSM6755347_r1 SRP409626 PRJNA905056 SRS15860271 GSM6755347 GSM6755347 OTHER TRANSCRIPTOMIC other For GeoMx DSP sample collections, entire slides were imaged at 20X magnification. ROIs were segmented using CD30 and CD4 markers. CD30+ large cells were defined as HRS cells (CD30+). CD4+ cells within 20μm from CD30+ HRS cell were defined as “contour”. The remaining CD4+ cells were defined as “remainder”. A total of 12 AOIs from 4 ROIs were segmented and exposed to 385 nm light (UV), releasing the indexing oligonucleotides which were collected with a microcapillary and deposited into a 96-well plate for subsequent processing. The indexing oligonucleotides were dried overnight and resuspended in 10 μl of DEPC-treated water. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences. Unique i5 and i7 sample indexes were added. Each PCR reaction used 4 μl of indexing oligonucleotides, 4 μl of indexing PCR primers, 2 μl of Nanostring 5X PCR Master Mix. Thermocycling conditions were 37 °C for 30 min, 50 °C for 10 min, 95 °C for 3 min; 18 cycles of 95 °C for 15 s, 65 °C for 1 min, 68 °C for 30 s; and 68 °C for 5 min. PCR reactions were pooled and purified twice using AMPure XP beads (Beckman Coulter, A63881), according to the manufacturer's protocol. Illumina NovaSeq 6000 SRX18373868 GSM6755348_r1 SRP409626 PRJNA905056 SRS15860272 GSM6755348 GSM6755348 OTHER TRANSCRIPTOMIC other For GeoMx DSP sample collections, entire slides were imaged at 20X magnification. ROIs were segmented using CD30 and CD4 markers. CD30+ large cells were defined as HRS cells (CD30+). CD4+ cells within 20μm from CD30+ HRS cell were defined as “contour”. The remaining CD4+ cells were defined as “remainder”. A total of 12 AOIs from 4 ROIs were segmented and exposed to 385 nm light (UV), releasing the indexing oligonucleotides which were collected with a microcapillary and deposited into a 96-well plate for subsequent processing. The indexing oligonucleotides were dried overnight and resuspended in 10 μl of DEPC-treated water. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences. Unique i5 and i7 sample indexes were added. Each PCR reaction used 4 μl of indexing oligonucleotides, 4 μl of indexing PCR primers, 2 μl of Nanostring 5X PCR Master Mix. Thermocycling conditions were 37 °C for 30 min, 50 °C for 10 min, 95 °C for 3 min; 18 cycles of 95 °C for 15 s, 65 °C for 1 min, 68 °C for 30 s; and 68 °C for 5 min. PCR reactions were pooled and purified twice using AMPure XP beads (Beckman Coulter, A63881), according to the manufacturer's protocol. Illumina NovaSeq 6000 SRX18373869 GSM6755349_r1 SRP409626 PRJNA905056 SRS15860273 GSM6755349 GSM6755349 OTHER TRANSCRIPTOMIC other For GeoMx DSP sample collections, entire slides were imaged at 20X magnification. ROIs were segmented using CD30 and CD4 markers. CD30+ large cells were defined as HRS cells (CD30+). CD4+ cells within 20μm from CD30+ HRS cell were defined as “contour”. The remaining CD4+ cells were defined as “remainder”. A total of 12 AOIs from 4 ROIs were segmented and exposed to 385 nm light (UV), releasing the indexing oligonucleotides which were collected with a microcapillary and deposited into a 96-well plate for subsequent processing. The indexing oligonucleotides were dried overnight and resuspended in 10 μl of DEPC-treated water. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences. Unique i5 and i7 sample indexes were added. Each PCR reaction used 4 μl of indexing oligonucleotides, 4 μl of indexing PCR primers, 2 μl of Nanostring 5X PCR Master Mix. Thermocycling conditions were 37 °C for 30 min, 50 °C for 10 min, 95 °C for 3 min; 18 cycles of 95 °C for 15 s, 65 °C for 1 min, 68 °C for 30 s; and 68 °C for 5 min. PCR reactions were pooled and purified twice using AMPure XP beads (Beckman Coulter, A63881), according to the manufacturer's protocol. Illumina NovaSeq 6000 SRX18373870 GSM6755350_r1 SRP409626 PRJNA905056 SRS15860274 GSM6755350 GSM6755350 OTHER TRANSCRIPTOMIC other For GeoMx DSP sample collections, entire slides were imaged at 20X magnification. ROIs were segmented using CD30 and CD4 markers. CD30+ large cells were defined as HRS cells (CD30+). CD4+ cells within 20μm from CD30+ HRS cell were defined as “contour”. The remaining CD4+ cells were defined as “remainder”. A total of 12 AOIs from 4 ROIs were segmented and exposed to 385 nm light (UV), releasing the indexing oligonucleotides which were collected with a microcapillary and deposited into a 96-well plate for subsequent processing. The indexing oligonucleotides were dried overnight and resuspended in 10 μl of DEPC-treated water. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences. Unique i5 and i7 sample indexes were added. Each PCR reaction used 4 μl of indexing oligonucleotides, 4 μl of indexing PCR primers, 2 μl of Nanostring 5X PCR Master Mix. Thermocycling conditions were 37 °C for 30 min, 50 °C for 10 min, 95 °C for 3 min; 18 cycles of 95 °C for 15 s, 65 °C for 1 min, 68 °C for 30 s; and 68 °C for 5 min. PCR reactions were pooled and purified twice using AMPure XP beads (Beckman Coulter, A63881), according to the manufacturer's protocol. Illumina NovaSeq 6000 SRX18373871 GSM6755351_r1 SRP409626 PRJNA905056 SRS15860275 GSM6755351 GSM6755351 OTHER TRANSCRIPTOMIC other For GeoMx DSP sample collections, entire slides were imaged at 20X magnification. ROIs were segmented using CD30 and CD4 markers. CD30+ large cells were defined as HRS cells (CD30+). CD4+ cells within 20μm from CD30+ HRS cell were defined as “contour”. The remaining CD4+ cells were defined as “remainder”. A total of 12 AOIs from 4 ROIs were segmented and exposed to 385 nm light (UV), releasing the indexing oligonucleotides which were collected with a microcapillary and deposited into a 96-well plate for subsequent processing. The indexing oligonucleotides were dried overnight and resuspended in 10 μl of DEPC-treated water. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences. Unique i5 and i7 sample indexes were added. Each PCR reaction used 4 μl of indexing oligonucleotides, 4 μl of indexing PCR primers, 2 μl of Nanostring 5X PCR Master Mix. Thermocycling conditions were 37 °C for 30 min, 50 °C for 10 min, 95 °C for 3 min; 18 cycles of 95 °C for 15 s, 65 °C for 1 min, 68 °C for 30 s; and 68 °C for 5 min. PCR reactions were pooled and purified twice using AMPure XP beads (Beckman Coulter, A63881), according to the manufacturer's protocol. Illumina NovaSeq 6000 SRX18373872 GSM6755352_r1 SRP409626 PRJNA905056 SRS15860276 GSM6755352 GSM6755352 OTHER TRANSCRIPTOMIC other For GeoMx DSP sample collections, entire slides were imaged at 20X magnification. ROIs were segmented using CD30 and CD4 markers. CD30+ large cells were defined as HRS cells (CD30+). CD4+ cells within 20μm from CD30+ HRS cell were defined as “contour”. The remaining CD4+ cells were defined as “remainder”. A total of 12 AOIs from 4 ROIs were segmented and exposed to 385 nm light (UV), releasing the indexing oligonucleotides which were collected with a microcapillary and deposited into a 96-well plate for subsequent processing. The indexing oligonucleotides were dried overnight and resuspended in 10 μl of DEPC-treated water. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences. Unique i5 and i7 sample indexes were added. Each PCR reaction used 4 μl of indexing oligonucleotides, 4 μl of indexing PCR primers, 2 μl of Nanostring 5X PCR Master Mix. Thermocycling conditions were 37 °C for 30 min, 50 °C for 10 min, 95 °C for 3 min; 18 cycles of 95 °C for 15 s, 65 °C for 1 min, 68 °C for 30 s; and 68 °C for 5 min. PCR reactions were pooled and purified twice using AMPure XP beads (Beckman Coulter, A63881), according to the manufacturer's protocol. Illumina NovaSeq 6000 SRX18373873 GSM6755353_r1 SRP409626 PRJNA905056 SRS15860277 GSM6755353 GSM6755353 OTHER TRANSCRIPTOMIC other For GeoMx DSP sample collections, entire slides were imaged at 20X magnification. ROIs were segmented using CD30 and CD4 markers. CD30+ large cells were defined as HRS cells (CD30+). CD4+ cells within 20μm from CD30+ HRS cell were defined as “contour”. The remaining CD4+ cells were defined as “remainder”. A total of 12 AOIs from 4 ROIs were segmented and exposed to 385 nm light (UV), releasing the indexing oligonucleotides which were collected with a microcapillary and deposited into a 96-well plate for subsequent processing. The indexing oligonucleotides were dried overnight and resuspended in 10 μl of DEPC-treated water. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences. Unique i5 and i7 sample indexes were added. Each PCR reaction used 4 μl of indexing oligonucleotides, 4 μl of indexing PCR primers, 2 μl of Nanostring 5X PCR Master Mix. Thermocycling conditions were 37 °C for 30 min, 50 °C for 10 min, 95 °C for 3 min; 18 cycles of 95 °C for 15 s, 65 °C for 1 min, 68 °C for 30 s; and 68 °C for 5 min. PCR reactions were pooled and purified twice using AMPure XP beads (Beckman Coulter, A63881), according to the manufacturer's protocol. Illumina NovaSeq 6000 SRX18373874 GSM6755354_r1 SRP409626 PRJNA905056 SRS15860278 GSM6755354 GSM6755354 OTHER TRANSCRIPTOMIC other For GeoMx DSP sample collections, entire slides were imaged at 20X magnification. ROIs were segmented using CD30 and CD4 markers. CD30+ large cells were defined as HRS cells (CD30+). CD4+ cells within 20μm from CD30+ HRS cell were defined as “contour”. The remaining CD4+ cells were defined as “remainder”. A total of 12 AOIs from 4 ROIs were segmented and exposed to 385 nm light (UV), releasing the indexing oligonucleotides which were collected with a microcapillary and deposited into a 96-well plate for subsequent processing. The indexing oligonucleotides were dried overnight and resuspended in 10 μl of DEPC-treated water. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences. Unique i5 and i7 sample indexes were added. Each PCR reaction used 4 μl of indexing oligonucleotides, 4 μl of indexing PCR primers, 2 μl of Nanostring 5X PCR Master Mix. Thermocycling conditions were 37 °C for 30 min, 50 °C for 10 min, 95 °C for 3 min; 18 cycles of 95 °C for 15 s, 65 °C for 1  Illumina NovaSeq 6000 SRX18373875 GSM6755355_r1 SRP409626 PRJNA905056 SRS15860279 GSM6755355 GSM6755355 OTHER TRANSCRIPTOMIC other For GeoMx DSP sample collections, entire slides were imaged at 20X magnification. ROIs were segmented using CD30 and CD4 markers. CD30+ large cells were defined as HRS cells (CD30+). CD4+ cells within 20μm from CD30+ HRS cell were defined as “contour”. The remaining CD4+ cells were defined as “remainder”. A total of 12 AOIs from 4 ROIs were segmented and exposed to 385 nm light (UV), releasing the indexing oligonucleotides which were collected with a microcapillary and deposited into a 96-well plate for subsequent processing. The indexing oligonucleotides were dried overnight and resuspended in 10 μl of DEPC-treated water. Sequencing libraries were generated by PCR from the photo-released indexing oligos and AOI-specific Illumina adapter sequences. Unique i5 and i7 sample indexes were added. Each PCR reaction used 4 μl of indexing oligonucleotides, 4 μl of indexing PCR primers, 2 μl of Nanostring 5X PCR Master Mix. Thermocycling conditions were 37 °C for 30 min, 50 °C for 10 min, 95 °C for 3 min; 18 cycles of 95 °C for 15 s, 65 °C for 1 min, 68 °C for 30 s; and 68 °C for 5 min. PCR reactions were pooled and purified twice using AMPure XP beads (Beckman Coulter, A63881), according to the manufacturer's protocol. Illumina NovaSeq 6000