SRX15048890 GSM6077692_r1 SRP372870 PRJNA833435 SRS12794845 GSM6077692 GSM6077692 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048891 GSM6077693_r1 SRP372870 PRJNA833435 SRS12794846 GSM6077693 GSM6077693 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048892 GSM6077694_r1 SRP372870 PRJNA833435 SRS12794847 GSM6077694 GSM6077694 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048893 GSM6077695_r1 SRP372870 PRJNA833435 SRS12794848 GSM6077695 GSM6077695 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048894 GSM6077696_r1 SRP372870 PRJNA833435 SRS12794850 GSM6077696 GSM6077696 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048895 GSM6077697_r1 SRP372870 PRJNA833435 SRS12794849 GSM6077697 GSM6077697 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048896 GSM6077698_r1 SRP372870 PRJNA833435 SRS12794851 GSM6077698 GSM6077698 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048897 GSM6077699_r1 SRP372870 PRJNA833435 SRS12794852 GSM6077699 GSM6077699 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048898 GSM6077700_r1 SRP372870 PRJNA833435 SRS12794853 GSM6077700 GSM6077700 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048899 GSM6077701_r1 SRP372870 PRJNA833435 SRS12794854 GSM6077701 GSM6077701 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048900 GSM6077703_r1 SRP372870 PRJNA833435 SRS12794855 GSM6077703 GSM6077703 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048901 GSM6077702_r1 SRP372870 PRJNA833435 SRS12794856 GSM6077702 GSM6077702 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048902 GSM6077704_r1 SRP372870 PRJNA833435 SRS12794857 GSM6077704 GSM6077704 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048903 GSM6077705_r1 SRP372870 PRJNA833435 SRS12794858 GSM6077705 GSM6077705 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048904 GSM6077706_r1 SRP372870 PRJNA833435 SRS12794859 GSM6077706 GSM6077706 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500 SRX15048905 GSM6077707_r1 SRP372870 PRJNA833435 SRS12794860 GSM6077707 GSM6077707 OTHER TRANSCRIPTOMIC other eCLIP was performed essentially as described in Van Nostrand et al; 2016. Briefly, 20 cortical organoids per group were UV-cross-linked (400 mJ cm-2, 254 nm) and lysed. Lysates were sonicated and treated with RNase I to fragment RNA. Two percent of each lysate sample was stored for preparation of a parallel SMInput library. The remaining lysates were immunoprecipitated using a rabbit anti-CELF2 antibody (MBL XXXX). Bound RNA fragments in the immunoprecipitates were dephosphorylated and 3'-end ligated to an RNA adaptor. Protein-RNA complexes from SMInputs and immunprecipitates were run on an SDS-polyacrylamide gel and transferred to a nitrocellulose membrane. Membrane region comprising of the exact molecular weight of CELF2 (55 kDa) to 75 kDa above were excised, and RNA was released from the complexes with proteinase K. SMInput samples were dephosphorylated and 3'-end ligated to an RNA adaptor. All RNA samples (immunoprecipitates and SMInputs) were reverse transcribed with AffinityScript (Agilent). cDNAs were 5'-end ligated to a DNA adaptor. cDNA yields were quantified by qPCR, and 100-500 fmal of library was generated with Q5 PCR mix (NEB). Illumina HiSeq 2500