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epigenetics atcc crl 2872 fruit fly s2 akhtar lab  (ATCC)


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    ATCC epigenetics atcc crl 2872 fruit fly s2 akhtar lab
    Epigenetics Atcc Crl 2872 Fruit Fly S2 Akhtar Lab, supplied by ATCC, used in various techniques. Bioz Stars score: 95/100, based on 88 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/epigenetics+atcc+crl+2872+fruit+fly+s2+akhtar+lab/EPC%3B+Epithelial+papilloma%3B+Fathead+minnow/pm41747727-665-182-183
    Average 95 stars, based on 88 article reviews
    epigenetics atcc crl 2872 fruit fly s2 akhtar lab - by Bioz Stars, 2026-10
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    Gene Expression:

    Article Title: Nuclear speckles enable processing of RNA from GC-rich isochores.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER 4-thiouridine Sigma-Aldrich Cat# T4509 MTSEA Biotin-XX Biotium Cat# BOT-90066 uMACS streptavidin MicroBeads Miltenyi Biotec Cat# 130-133-282 RNAse A/T1 mix Thermo Fisher Scientific Cat# EN0551 NIaIII NEB Cat# R0125S T4 ligase NEB Cat# M0202L Concavalin A Sigma-Aldrich Cat# C5275 SNAP-Cell 647-SiR NEB Cat# S9102S Nunc Thermanox Coverslips Thermo Fisher Scientific Cat# 150067 Glutaraldehyde Sigma-Aldrich Cat# 111-30-8 Osmium tetroxide Science Services Cat# E19100 Tannic acid Electron Microscopy Sciences Cat#21700 Uranyl acetate Fluka Cat# 179632 TEM Grids, Formvar/Carbon Film coated, 2x1mm Slot, Cu, 3.05mm Science Services Cat# EFCF2010-Cu-50 Uranyless EM Stain Science Services Cat# DM22409 Lead Citrate Science Services Cat# DM22410 Plastic bottom μ-Slide 8 Well plates ibidi Cat# 80806 Agarose resin Pierce Cat# 26150 Dynabeads Protein G beads Invitrogen Cat# 10003D RNaseI Thermo Fisher Scientific Cat# EN0601 T4 Polynucleotide Kinase NEB Cat# M0201 T4 RNA Ligase 1 NEB Cat# M0204 SuperScript III Invitrogen Cat# 18080093 RNaseH NEB Cat# M0297 CircLigase II Lucigen Cat# 131402 Q5 polymerase NEB Cat# M0491 Geneticin Thermo Fisher Scientific Cat# 10131-027 LysC Roche Cat# 11420429001 Evotip Pure Evosep Cat# EV2011 VECTASHIELD Antifade Mounting Medium VECTASHIELD Cat# H-1000-10 XCP-18-orange Metasystems Cat# D-0318-050-OR XCP19-green Metasystems Cat# D-0319-050-FI Critical commercial assays FuGene HD transfection assay Promega Cat# E2311 Lipofectamine 2000 Thermo Fisher Scientific Cat# 11668019 RNAiMAX Thermo Fisher Scientific Cat# 13778030 Quick-RNA MicroPrep kit Zymo research Cat# R1050 Dynabeads mRNA DIRECT Purification kit Thermo Fisher Scientific Cat# 61012 KAPA RNA HyperPrep kit Roche Cat# KK8544 KAPA RiboErase kit Roche Cat# KK8481 KAPA Stranded RNA-Seq kit Roche Cat# KK8400 PrimeScript RT Takara Cat# RR036A DreamTaq PCR Thermo Fisher Scientific Cat# K1081 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat# E7645S/L ONT native barcoding kit Oxford Nanopore Technologies Cat# SQK-NBD114.24 Spurr low viscosity kit Ted Pella Cat# 18108 (Continued on next page) ll OPEN ACCESS e2 Cell 189, 1–16.e1–e13, April 2, 2026 Please cite this article in press as: Małszycki et al., Nuclear speckles enable processing of RNA from GC-rich isochores, Cell (2026), https:// doi.org/10.1016/j.cell.2026.01.011 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER In-Fusion Snap Assembly Master Mix Takara Cat# 638944 Deposited data Pore-C data This study; NCBI Gene Expression Omnibus GEO: GSE264354 RNA sequencing data This study; NCBI Gene Expression Omnibus GEO: GSE264354 FLASH data This study; NCBI Gene Expression Omnibus GEO: GSE264354 SON/SRRM2 KD RNA sequencing data Publicly available dataset from Zhang et al. 16 GEO: GSE242898 TSA sequencing data Publicly available dataset from Zhang et al. 13 4DN: 4DNFI8HIU45G; 4DNFIBY8G6RZ FLASH data Publicly available dataset from Ilık et al. 28 GEO: GSE223253 RNA sequencing data ENCORE Accession numbers are listed in Table S13 All genomes available Publicly available from NCBI’s Eukaryotic Genome Annotation pipeline (ThibaudNissen et al.) 71 https://www.ncbi.nlm.nih.gov/refseq/ annotation_euk/all/ Experimental models: Cell lines Human HCT116 ATCC CCL247 Human Flp-In T-Rex HEK293 Thermo Fisher Scientific R78007 Human HDFa Thermo Fisher Scientific C0135C Mouse FlpIn 3T3 Thermo Fisher Scientific R76107 Chicken DF-1 Mundlos lab, Max Planck Institute for Molecular Genetics ATCC: CRL-3586 Common box turtle TH-1 Heyd lab, Freie Universitä t Berlin ATCC: CCL-50 Fathead minnow EPC Boehm lab, (from J. Swann) Max Planck Institute of Immunobiology and Epigenetics ATCC: CRL-2872 Fruit fly S2 Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Fruit fly Kc Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Fruit fly S2R+ DGRC RRID: CVCL_Z831 Fruit fly OSS Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Chimpanzee fibroblasts Kyoto Univeristy Primate Research Institute (KUPRI) GAIN ID: 0166 Orangutan fibroblasts Kyoto Univeristy Primate Research Institute (KUPRI) GAIN ID: 0091 Rabbit fibroblasts RIKEN BRC SIRC Rat lung fibroblasts RIKEN BRC JTC-19 Eel RIKEN BRC Hepa-E1 Zebrafish RIKEN BRC BRF4 Oligonucleotides RT-PCR primers This study Table S1 HaloTag Promega Table S1 TRA2A silencer select siRNA Thermo Fisher Scientific Cat# s26665 TRA2B silencer select siRNA Thermo Fisher Scientific Cat# s12749 SON silencer select siRNA Thermo Fisher Scientific Cat# s13278 siRNA pool targeting chicken (Gallus gallus) SON siTOOLs BIOTECH siPOOL against NCBI ID 770637 Negative control siRNA siTOOLs BIOTECH siPOOL Neg-C-120 (Continued on next page) ll OPEN ACCESS Cell 189, 1–16.e1–e13, April 2, 2026 e3 Please cite this article in press as: Małszycki et al., Nuclear speckles enable processing of RNA from GC-rich isochores, Cell (2026), https:// doi.org/10.1016/j.cell.2026.01.011 Article .. Human HCT116 (ATCC, CCL247) and derivative cell lines were cultured in HyClone McCoy’s 5A medium (Cytiva, cat. no. SH30200.01) supplemented with 10% fetal bovine serum (FBS; Thermo Fisher Scientific, cat. no. 10270106) and 1% Penicillin/ Streptomycin (Thermo Fisher Scientific, cat. no. 15140148) at 37 ◦ C in the presence of 5% CO 2 .

    RNA Sequencing:

    Article Title: Nuclear speckles enable processing of RNA from GC-rich isochores.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER 4-thiouridine Sigma-Aldrich Cat# T4509 MTSEA Biotin-XX Biotium Cat# BOT-90066 uMACS streptavidin MicroBeads Miltenyi Biotec Cat# 130-133-282 RNAse A/T1 mix Thermo Fisher Scientific Cat# EN0551 NIaIII NEB Cat# R0125S T4 ligase NEB Cat# M0202L Concavalin A Sigma-Aldrich Cat# C5275 SNAP-Cell 647-SiR NEB Cat# S9102S Nunc Thermanox Coverslips Thermo Fisher Scientific Cat# 150067 Glutaraldehyde Sigma-Aldrich Cat# 111-30-8 Osmium tetroxide Science Services Cat# E19100 Tannic acid Electron Microscopy Sciences Cat#21700 Uranyl acetate Fluka Cat# 179632 TEM Grids, Formvar/Carbon Film coated, 2x1mm Slot, Cu, 3.05mm Science Services Cat# EFCF2010-Cu-50 Uranyless EM Stain Science Services Cat# DM22409 Lead Citrate Science Services Cat# DM22410 Plastic bottom μ-Slide 8 Well plates ibidi Cat# 80806 Agarose resin Pierce Cat# 26150 Dynabeads Protein G beads Invitrogen Cat# 10003D RNaseI Thermo Fisher Scientific Cat# EN0601 T4 Polynucleotide Kinase NEB Cat# M0201 T4 RNA Ligase 1 NEB Cat# M0204 SuperScript III Invitrogen Cat# 18080093 RNaseH NEB Cat# M0297 CircLigase II Lucigen Cat# 131402 Q5 polymerase NEB Cat# M0491 Geneticin Thermo Fisher Scientific Cat# 10131-027 LysC Roche Cat# 11420429001 Evotip Pure Evosep Cat# EV2011 VECTASHIELD Antifade Mounting Medium VECTASHIELD Cat# H-1000-10 XCP-18-orange Metasystems Cat# D-0318-050-OR XCP19-green Metasystems Cat# D-0319-050-FI Critical commercial assays FuGene HD transfection assay Promega Cat# E2311 Lipofectamine 2000 Thermo Fisher Scientific Cat# 11668019 RNAiMAX Thermo Fisher Scientific Cat# 13778030 Quick-RNA MicroPrep kit Zymo research Cat# R1050 Dynabeads mRNA DIRECT Purification kit Thermo Fisher Scientific Cat# 61012 KAPA RNA HyperPrep kit Roche Cat# KK8544 KAPA RiboErase kit Roche Cat# KK8481 KAPA Stranded RNA-Seq kit Roche Cat# KK8400 PrimeScript RT Takara Cat# RR036A DreamTaq PCR Thermo Fisher Scientific Cat# K1081 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat# E7645S/L ONT native barcoding kit Oxford Nanopore Technologies Cat# SQK-NBD114.24 Spurr low viscosity kit Ted Pella Cat# 18108 (Continued on next page) ll OPEN ACCESS e2 Cell 189, 1–16.e1–e13, April 2, 2026 Please cite this article in press as: Małszycki et al., Nuclear speckles enable processing of RNA from GC-rich isochores, Cell (2026), https:// doi.org/10.1016/j.cell.2026.01.011 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER In-Fusion Snap Assembly Master Mix Takara Cat# 638944 Deposited data Pore-C data This study; NCBI Gene Expression Omnibus GEO: GSE264354 RNA sequencing data This study; NCBI Gene Expression Omnibus GEO: GSE264354 FLASH data This study; NCBI Gene Expression Omnibus GEO: GSE264354 SON/SRRM2 KD RNA sequencing data Publicly available dataset from Zhang et al. 16 GEO: GSE242898 TSA sequencing data Publicly available dataset from Zhang et al. 13 4DN: 4DNFI8HIU45G; 4DNFIBY8G6RZ FLASH data Publicly available dataset from Ilık et al. 28 GEO: GSE223253 RNA sequencing data ENCORE Accession numbers are listed in Table S13 All genomes available Publicly available from NCBI’s Eukaryotic Genome Annotation pipeline (ThibaudNissen et al.) 71 https://www.ncbi.nlm.nih.gov/refseq/ annotation_euk/all/ Experimental models: Cell lines Human HCT116 ATCC CCL247 Human Flp-In T-Rex HEK293 Thermo Fisher Scientific R78007 Human HDFa Thermo Fisher Scientific C0135C Mouse FlpIn 3T3 Thermo Fisher Scientific R76107 Chicken DF-1 Mundlos lab, Max Planck Institute for Molecular Genetics ATCC: CRL-3586 Common box turtle TH-1 Heyd lab, Freie Universitä t Berlin ATCC: CCL-50 Fathead minnow EPC Boehm lab, (from J. Swann) Max Planck Institute of Immunobiology and Epigenetics ATCC: CRL-2872 Fruit fly S2 Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Fruit fly Kc Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Fruit fly S2R+ DGRC RRID: CVCL_Z831 Fruit fly OSS Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Chimpanzee fibroblasts Kyoto Univeristy Primate Research Institute (KUPRI) GAIN ID: 0166 Orangutan fibroblasts Kyoto Univeristy Primate Research Institute (KUPRI) GAIN ID: 0091 Rabbit fibroblasts RIKEN BRC SIRC Rat lung fibroblasts RIKEN BRC JTC-19 Eel RIKEN BRC Hepa-E1 Zebrafish RIKEN BRC BRF4 Oligonucleotides RT-PCR primers This study Table S1 HaloTag Promega Table S1 TRA2A silencer select siRNA Thermo Fisher Scientific Cat# s26665 TRA2B silencer select siRNA Thermo Fisher Scientific Cat# s12749 SON silencer select siRNA Thermo Fisher Scientific Cat# s13278 siRNA pool targeting chicken (Gallus gallus) SON siTOOLs BIOTECH siPOOL against NCBI ID 770637 Negative control siRNA siTOOLs BIOTECH siPOOL Neg-C-120 (Continued on next page) ll OPEN ACCESS Cell 189, 1–16.e1–e13, April 2, 2026 e3 Please cite this article in press as: Małszycki et al., Nuclear speckles enable processing of RNA from GC-rich isochores, Cell (2026), https:// doi.org/10.1016/j.cell.2026.01.011 Article .. Human HCT116 (ATCC, CCL247) and derivative cell lines were cultured in HyClone McCoy’s 5A medium (Cytiva, cat. no. SH30200.01) supplemented with 10% fetal bovine serum (FBS; Thermo Fisher Scientific, cat. no. 10270106) and 1% Penicillin/ Streptomycin (Thermo Fisher Scientific, cat. no. 15140148) at 37 ◦ C in the presence of 5% CO 2 .

    Sequencing:

    Article Title: Nuclear speckles enable processing of RNA from GC-rich isochores.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER 4-thiouridine Sigma-Aldrich Cat# T4509 MTSEA Biotin-XX Biotium Cat# BOT-90066 uMACS streptavidin MicroBeads Miltenyi Biotec Cat# 130-133-282 RNAse A/T1 mix Thermo Fisher Scientific Cat# EN0551 NIaIII NEB Cat# R0125S T4 ligase NEB Cat# M0202L Concavalin A Sigma-Aldrich Cat# C5275 SNAP-Cell 647-SiR NEB Cat# S9102S Nunc Thermanox Coverslips Thermo Fisher Scientific Cat# 150067 Glutaraldehyde Sigma-Aldrich Cat# 111-30-8 Osmium tetroxide Science Services Cat# E19100 Tannic acid Electron Microscopy Sciences Cat#21700 Uranyl acetate Fluka Cat# 179632 TEM Grids, Formvar/Carbon Film coated, 2x1mm Slot, Cu, 3.05mm Science Services Cat# EFCF2010-Cu-50 Uranyless EM Stain Science Services Cat# DM22409 Lead Citrate Science Services Cat# DM22410 Plastic bottom μ-Slide 8 Well plates ibidi Cat# 80806 Agarose resin Pierce Cat# 26150 Dynabeads Protein G beads Invitrogen Cat# 10003D RNaseI Thermo Fisher Scientific Cat# EN0601 T4 Polynucleotide Kinase NEB Cat# M0201 T4 RNA Ligase 1 NEB Cat# M0204 SuperScript III Invitrogen Cat# 18080093 RNaseH NEB Cat# M0297 CircLigase II Lucigen Cat# 131402 Q5 polymerase NEB Cat# M0491 Geneticin Thermo Fisher Scientific Cat# 10131-027 LysC Roche Cat# 11420429001 Evotip Pure Evosep Cat# EV2011 VECTASHIELD Antifade Mounting Medium VECTASHIELD Cat# H-1000-10 XCP-18-orange Metasystems Cat# D-0318-050-OR XCP19-green Metasystems Cat# D-0319-050-FI Critical commercial assays FuGene HD transfection assay Promega Cat# E2311 Lipofectamine 2000 Thermo Fisher Scientific Cat# 11668019 RNAiMAX Thermo Fisher Scientific Cat# 13778030 Quick-RNA MicroPrep kit Zymo research Cat# R1050 Dynabeads mRNA DIRECT Purification kit Thermo Fisher Scientific Cat# 61012 KAPA RNA HyperPrep kit Roche Cat# KK8544 KAPA RiboErase kit Roche Cat# KK8481 KAPA Stranded RNA-Seq kit Roche Cat# KK8400 PrimeScript RT Takara Cat# RR036A DreamTaq PCR Thermo Fisher Scientific Cat# K1081 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat# E7645S/L ONT native barcoding kit Oxford Nanopore Technologies Cat# SQK-NBD114.24 Spurr low viscosity kit Ted Pella Cat# 18108 (Continued on next page) ll OPEN ACCESS e2 Cell 189, 1–16.e1–e13, April 2, 2026 Please cite this article in press as: Małszycki et al., Nuclear speckles enable processing of RNA from GC-rich isochores, Cell (2026), https:// doi.org/10.1016/j.cell.2026.01.011 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER In-Fusion Snap Assembly Master Mix Takara Cat# 638944 Deposited data Pore-C data This study; NCBI Gene Expression Omnibus GEO: GSE264354 RNA sequencing data This study; NCBI Gene Expression Omnibus GEO: GSE264354 FLASH data This study; NCBI Gene Expression Omnibus GEO: GSE264354 SON/SRRM2 KD RNA sequencing data Publicly available dataset from Zhang et al. 16 GEO: GSE242898 TSA sequencing data Publicly available dataset from Zhang et al. 13 4DN: 4DNFI8HIU45G; 4DNFIBY8G6RZ FLASH data Publicly available dataset from Ilık et al. 28 GEO: GSE223253 RNA sequencing data ENCORE Accession numbers are listed in Table S13 All genomes available Publicly available from NCBI’s Eukaryotic Genome Annotation pipeline (ThibaudNissen et al.) 71 https://www.ncbi.nlm.nih.gov/refseq/ annotation_euk/all/ Experimental models: Cell lines Human HCT116 ATCC CCL247 Human Flp-In T-Rex HEK293 Thermo Fisher Scientific R78007 Human HDFa Thermo Fisher Scientific C0135C Mouse FlpIn 3T3 Thermo Fisher Scientific R76107 Chicken DF-1 Mundlos lab, Max Planck Institute for Molecular Genetics ATCC: CRL-3586 Common box turtle TH-1 Heyd lab, Freie Universitä t Berlin ATCC: CCL-50 Fathead minnow EPC Boehm lab, (from J. Swann) Max Planck Institute of Immunobiology and Epigenetics ATCC: CRL-2872 Fruit fly S2 Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Fruit fly Kc Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Fruit fly S2R+ DGRC RRID: CVCL_Z831 Fruit fly OSS Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Chimpanzee fibroblasts Kyoto Univeristy Primate Research Institute (KUPRI) GAIN ID: 0166 Orangutan fibroblasts Kyoto Univeristy Primate Research Institute (KUPRI) GAIN ID: 0091 Rabbit fibroblasts RIKEN BRC SIRC Rat lung fibroblasts RIKEN BRC JTC-19 Eel RIKEN BRC Hepa-E1 Zebrafish RIKEN BRC BRF4 Oligonucleotides RT-PCR primers This study Table S1 HaloTag Promega Table S1 TRA2A silencer select siRNA Thermo Fisher Scientific Cat# s26665 TRA2B silencer select siRNA Thermo Fisher Scientific Cat# s12749 SON silencer select siRNA Thermo Fisher Scientific Cat# s13278 siRNA pool targeting chicken (Gallus gallus) SON siTOOLs BIOTECH siPOOL against NCBI ID 770637 Negative control siRNA siTOOLs BIOTECH siPOOL Neg-C-120 (Continued on next page) ll OPEN ACCESS Cell 189, 1–16.e1–e13, April 2, 2026 e3 Please cite this article in press as: Małszycki et al., Nuclear speckles enable processing of RNA from GC-rich isochores, Cell (2026), https:// doi.org/10.1016/j.cell.2026.01.011 Article .. Human HCT116 (ATCC, CCL247) and derivative cell lines were cultured in HyClone McCoy’s 5A medium (Cytiva, cat. no. SH30200.01) supplemented with 10% fetal bovine serum (FBS; Thermo Fisher Scientific, cat. no. 10270106) and 1% Penicillin/ Streptomycin (Thermo Fisher Scientific, cat. no. 15140148) at 37 ◦ C in the presence of 5% CO 2 .

    Reverse Transcription Polymerase Chain Reaction:

    Article Title: Nuclear speckles enable processing of RNA from GC-rich isochores.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER 4-thiouridine Sigma-Aldrich Cat# T4509 MTSEA Biotin-XX Biotium Cat# BOT-90066 uMACS streptavidin MicroBeads Miltenyi Biotec Cat# 130-133-282 RNAse A/T1 mix Thermo Fisher Scientific Cat# EN0551 NIaIII NEB Cat# R0125S T4 ligase NEB Cat# M0202L Concavalin A Sigma-Aldrich Cat# C5275 SNAP-Cell 647-SiR NEB Cat# S9102S Nunc Thermanox Coverslips Thermo Fisher Scientific Cat# 150067 Glutaraldehyde Sigma-Aldrich Cat# 111-30-8 Osmium tetroxide Science Services Cat# E19100 Tannic acid Electron Microscopy Sciences Cat#21700 Uranyl acetate Fluka Cat# 179632 TEM Grids, Formvar/Carbon Film coated, 2x1mm Slot, Cu, 3.05mm Science Services Cat# EFCF2010-Cu-50 Uranyless EM Stain Science Services Cat# DM22409 Lead Citrate Science Services Cat# DM22410 Plastic bottom μ-Slide 8 Well plates ibidi Cat# 80806 Agarose resin Pierce Cat# 26150 Dynabeads Protein G beads Invitrogen Cat# 10003D RNaseI Thermo Fisher Scientific Cat# EN0601 T4 Polynucleotide Kinase NEB Cat# M0201 T4 RNA Ligase 1 NEB Cat# M0204 SuperScript III Invitrogen Cat# 18080093 RNaseH NEB Cat# M0297 CircLigase II Lucigen Cat# 131402 Q5 polymerase NEB Cat# M0491 Geneticin Thermo Fisher Scientific Cat# 10131-027 LysC Roche Cat# 11420429001 Evotip Pure Evosep Cat# EV2011 VECTASHIELD Antifade Mounting Medium VECTASHIELD Cat# H-1000-10 XCP-18-orange Metasystems Cat# D-0318-050-OR XCP19-green Metasystems Cat# D-0319-050-FI Critical commercial assays FuGene HD transfection assay Promega Cat# E2311 Lipofectamine 2000 Thermo Fisher Scientific Cat# 11668019 RNAiMAX Thermo Fisher Scientific Cat# 13778030 Quick-RNA MicroPrep kit Zymo research Cat# R1050 Dynabeads mRNA DIRECT Purification kit Thermo Fisher Scientific Cat# 61012 KAPA RNA HyperPrep kit Roche Cat# KK8544 KAPA RiboErase kit Roche Cat# KK8481 KAPA Stranded RNA-Seq kit Roche Cat# KK8400 PrimeScript RT Takara Cat# RR036A DreamTaq PCR Thermo Fisher Scientific Cat# K1081 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat# E7645S/L ONT native barcoding kit Oxford Nanopore Technologies Cat# SQK-NBD114.24 Spurr low viscosity kit Ted Pella Cat# 18108 (Continued on next page) ll OPEN ACCESS e2 Cell 189, 1–16.e1–e13, April 2, 2026 Please cite this article in press as: Małszycki et al., Nuclear speckles enable processing of RNA from GC-rich isochores, Cell (2026), https:// doi.org/10.1016/j.cell.2026.01.011 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER In-Fusion Snap Assembly Master Mix Takara Cat# 638944 Deposited data Pore-C data This study; NCBI Gene Expression Omnibus GEO: GSE264354 RNA sequencing data This study; NCBI Gene Expression Omnibus GEO: GSE264354 FLASH data This study; NCBI Gene Expression Omnibus GEO: GSE264354 SON/SRRM2 KD RNA sequencing data Publicly available dataset from Zhang et al. 16 GEO: GSE242898 TSA sequencing data Publicly available dataset from Zhang et al. 13 4DN: 4DNFI8HIU45G; 4DNFIBY8G6RZ FLASH data Publicly available dataset from Ilık et al. 28 GEO: GSE223253 RNA sequencing data ENCORE Accession numbers are listed in Table S13 All genomes available Publicly available from NCBI’s Eukaryotic Genome Annotation pipeline (ThibaudNissen et al.) 71 https://www.ncbi.nlm.nih.gov/refseq/ annotation_euk/all/ Experimental models: Cell lines Human HCT116 ATCC CCL247 Human Flp-In T-Rex HEK293 Thermo Fisher Scientific R78007 Human HDFa Thermo Fisher Scientific C0135C Mouse FlpIn 3T3 Thermo Fisher Scientific R76107 Chicken DF-1 Mundlos lab, Max Planck Institute for Molecular Genetics ATCC: CRL-3586 Common box turtle TH-1 Heyd lab, Freie Universitä t Berlin ATCC: CCL-50 Fathead minnow EPC Boehm lab, (from J. Swann) Max Planck Institute of Immunobiology and Epigenetics ATCC: CRL-2872 Fruit fly S2 Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Fruit fly Kc Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Fruit fly S2R+ DGRC RRID: CVCL_Z831 Fruit fly OSS Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Chimpanzee fibroblasts Kyoto Univeristy Primate Research Institute (KUPRI) GAIN ID: 0166 Orangutan fibroblasts Kyoto Univeristy Primate Research Institute (KUPRI) GAIN ID: 0091 Rabbit fibroblasts RIKEN BRC SIRC Rat lung fibroblasts RIKEN BRC JTC-19 Eel RIKEN BRC Hepa-E1 Zebrafish RIKEN BRC BRF4 Oligonucleotides RT-PCR primers This study Table S1 HaloTag Promega Table S1 TRA2A silencer select siRNA Thermo Fisher Scientific Cat# s26665 TRA2B silencer select siRNA Thermo Fisher Scientific Cat# s12749 SON silencer select siRNA Thermo Fisher Scientific Cat# s13278 siRNA pool targeting chicken (Gallus gallus) SON siTOOLs BIOTECH siPOOL against NCBI ID 770637 Negative control siRNA siTOOLs BIOTECH siPOOL Neg-C-120 (Continued on next page) ll OPEN ACCESS Cell 189, 1–16.e1–e13, April 2, 2026 e3 Please cite this article in press as: Małszycki et al., Nuclear speckles enable processing of RNA from GC-rich isochores, Cell (2026), https:// doi.org/10.1016/j.cell.2026.01.011 Article .. Human HCT116 (ATCC, CCL247) and derivative cell lines were cultured in HyClone McCoy’s 5A medium (Cytiva, cat. no. SH30200.01) supplemented with 10% fetal bovine serum (FBS; Thermo Fisher Scientific, cat. no. 10270106) and 1% Penicillin/ Streptomycin (Thermo Fisher Scientific, cat. no. 15140148) at 37 ◦ C in the presence of 5% CO 2 .

    Negative Control:

    Article Title: Nuclear speckles enable processing of RNA from GC-rich isochores.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER 4-thiouridine Sigma-Aldrich Cat# T4509 MTSEA Biotin-XX Biotium Cat# BOT-90066 uMACS streptavidin MicroBeads Miltenyi Biotec Cat# 130-133-282 RNAse A/T1 mix Thermo Fisher Scientific Cat# EN0551 NIaIII NEB Cat# R0125S T4 ligase NEB Cat# M0202L Concavalin A Sigma-Aldrich Cat# C5275 SNAP-Cell 647-SiR NEB Cat# S9102S Nunc Thermanox Coverslips Thermo Fisher Scientific Cat# 150067 Glutaraldehyde Sigma-Aldrich Cat# 111-30-8 Osmium tetroxide Science Services Cat# E19100 Tannic acid Electron Microscopy Sciences Cat#21700 Uranyl acetate Fluka Cat# 179632 TEM Grids, Formvar/Carbon Film coated, 2x1mm Slot, Cu, 3.05mm Science Services Cat# EFCF2010-Cu-50 Uranyless EM Stain Science Services Cat# DM22409 Lead Citrate Science Services Cat# DM22410 Plastic bottom μ-Slide 8 Well plates ibidi Cat# 80806 Agarose resin Pierce Cat# 26150 Dynabeads Protein G beads Invitrogen Cat# 10003D RNaseI Thermo Fisher Scientific Cat# EN0601 T4 Polynucleotide Kinase NEB Cat# M0201 T4 RNA Ligase 1 NEB Cat# M0204 SuperScript III Invitrogen Cat# 18080093 RNaseH NEB Cat# M0297 CircLigase II Lucigen Cat# 131402 Q5 polymerase NEB Cat# M0491 Geneticin Thermo Fisher Scientific Cat# 10131-027 LysC Roche Cat# 11420429001 Evotip Pure Evosep Cat# EV2011 VECTASHIELD Antifade Mounting Medium VECTASHIELD Cat# H-1000-10 XCP-18-orange Metasystems Cat# D-0318-050-OR XCP19-green Metasystems Cat# D-0319-050-FI Critical commercial assays FuGene HD transfection assay Promega Cat# E2311 Lipofectamine 2000 Thermo Fisher Scientific Cat# 11668019 RNAiMAX Thermo Fisher Scientific Cat# 13778030 Quick-RNA MicroPrep kit Zymo research Cat# R1050 Dynabeads mRNA DIRECT Purification kit Thermo Fisher Scientific Cat# 61012 KAPA RNA HyperPrep kit Roche Cat# KK8544 KAPA RiboErase kit Roche Cat# KK8481 KAPA Stranded RNA-Seq kit Roche Cat# KK8400 PrimeScript RT Takara Cat# RR036A DreamTaq PCR Thermo Fisher Scientific Cat# K1081 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat# E7645S/L ONT native barcoding kit Oxford Nanopore Technologies Cat# SQK-NBD114.24 Spurr low viscosity kit Ted Pella Cat# 18108 (Continued on next page) ll OPEN ACCESS e2 Cell 189, 1–16.e1–e13, April 2, 2026 Please cite this article in press as: Małszycki et al., Nuclear speckles enable processing of RNA from GC-rich isochores, Cell (2026), https:// doi.org/10.1016/j.cell.2026.01.011 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER In-Fusion Snap Assembly Master Mix Takara Cat# 638944 Deposited data Pore-C data This study; NCBI Gene Expression Omnibus GEO: GSE264354 RNA sequencing data This study; NCBI Gene Expression Omnibus GEO: GSE264354 FLASH data This study; NCBI Gene Expression Omnibus GEO: GSE264354 SON/SRRM2 KD RNA sequencing data Publicly available dataset from Zhang et al. 16 GEO: GSE242898 TSA sequencing data Publicly available dataset from Zhang et al. 13 4DN: 4DNFI8HIU45G; 4DNFIBY8G6RZ FLASH data Publicly available dataset from Ilık et al. 28 GEO: GSE223253 RNA sequencing data ENCORE Accession numbers are listed in Table S13 All genomes available Publicly available from NCBI’s Eukaryotic Genome Annotation pipeline (ThibaudNissen et al.) 71 https://www.ncbi.nlm.nih.gov/refseq/ annotation_euk/all/ Experimental models: Cell lines Human HCT116 ATCC CCL247 Human Flp-In T-Rex HEK293 Thermo Fisher Scientific R78007 Human HDFa Thermo Fisher Scientific C0135C Mouse FlpIn 3T3 Thermo Fisher Scientific R76107 Chicken DF-1 Mundlos lab, Max Planck Institute for Molecular Genetics ATCC: CRL-3586 Common box turtle TH-1 Heyd lab, Freie Universitä t Berlin ATCC: CCL-50 Fathead minnow EPC Boehm lab, (from J. Swann) Max Planck Institute of Immunobiology and Epigenetics ATCC: CRL-2872 Fruit fly S2 Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Fruit fly Kc Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Fruit fly S2R+ DGRC RRID: CVCL_Z831 Fruit fly OSS Akhtar lab, Max Planck Institute of Immunobiology and Epigenetics N/A Chimpanzee fibroblasts Kyoto Univeristy Primate Research Institute (KUPRI) GAIN ID: 0166 Orangutan fibroblasts Kyoto Univeristy Primate Research Institute (KUPRI) GAIN ID: 0091 Rabbit fibroblasts RIKEN BRC SIRC Rat lung fibroblasts RIKEN BRC JTC-19 Eel RIKEN BRC Hepa-E1 Zebrafish RIKEN BRC BRF4 Oligonucleotides RT-PCR primers This study Table S1 HaloTag Promega Table S1 TRA2A silencer select siRNA Thermo Fisher Scientific Cat# s26665 TRA2B silencer select siRNA Thermo Fisher Scientific Cat# s12749 SON silencer select siRNA Thermo Fisher Scientific Cat# s13278 siRNA pool targeting chicken (Gallus gallus) SON siTOOLs BIOTECH siPOOL against NCBI ID 770637 Negative control siRNA siTOOLs BIOTECH siPOOL Neg-C-120 (Continued on next page) ll OPEN ACCESS Cell 189, 1–16.e1–e13, April 2, 2026 e3 Please cite this article in press as: Małszycki et al., Nuclear speckles enable processing of RNA from GC-rich isochores, Cell (2026), https:// doi.org/10.1016/j.cell.2026.01.011 Article .. Human HCT116 (ATCC, CCL247) and derivative cell lines were cultured in HyClone McCoy’s 5A medium (Cytiva, cat. no. SH30200.01) supplemented with 10% fetal bovine serum (FBS; Thermo Fisher Scientific, cat. no. 10270106) and 1% Penicillin/ Streptomycin (Thermo Fisher Scientific, cat. no. 15140148) at 37 ◦ C in the presence of 5% CO 2 .



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