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GSE137258

GSE GEO
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Inhibition of YTHDF2 triggers proteotoxic cell death in MYC-driven breast cancer

Organism: Homo sapiens
Platform: GPL20301
Samples: 74
Experiment Types:
Expression profiling by high throughput sequencing Other
Submitted: Sep 11 2019
Last Updated: Jul 05 2021
Status: Public on Jul 02 2021
Contact: Gene,,Yeo (UCSD)

Relations

BioProject: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA564948 SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRP221341

Summary

We found in this study through targeted CRISPR-Cas9 screening of RBPs that disrupting YTHDF2-dependent degradation of its target transcripts triggers apoptosis of MYC-dependent cancer cells and tumors. Enhanced CLIP (eCLIP), m6A-sequencing (m6A-seq) and YTHDF2 knockdown followed by RNA-seq analysis of YTHDF2-m6A-mRNA interactions revealed extensive associations with mRNAs encoding MAPK pathway genes that when stabilized, induce epithelial-to-mesenchymal transition and stress-induced apoptosis. scRibo-STAMP profiling of translating mRNAs revealed global alterations in the translatome of single cells in YTHDF2-depleted solid tumors. Thus, our work highlights the therapeutic relevance of RBPs by uncovering the critical role of YTHDF2 in counteracting the global increase of mRNA synthesis in MYC-driven cancers.

Overall Design

We constructed and applied an RBP targeting CRISPR-Cas9 library to MYC-inducible human mammary epithelial cells 8 and 16 days after transduction by sequencing of gDNA in biological duplicate. YTHDF2 binding and m6A profiles were examined using eCLIP-seq and m6A-seq by immunoprecipitating mRNA fragments bound to either endogenous YTHDF2 or m6A antibody in biological duplicates with input controls. In addition, we examined changes in mRNA expression following depletion of YTHDF2 using two independent shRNAs in biological duplicate. Lastly, we identified translational changes in the YTHDF2-depleted solid tumors by directing C-to-U editing of translating transcripts by transducing cells with RPS2-APOBEC1 fusions prior to subcutaneous xenograft.

Analysis (2 steps)

View Data Processing
Processing steps for GSE137258
  1. Library strategy: DNA-seq
  2. CRISPR screening data was aligned and processed using MaGeCK.

Supplementary Files (29)

GSE137258_LM2_1-LM2_2.idr.final.bed.gz Download
GSE137258_LM2_rep1_rep2.bed.gz Download
GSE137258_MCF7_1-MCF7_2.idr.final.bed.gz Download
GSE137258_MCF7_rep1_rep2.bed.gz Download
GSE137258_MDA_1-MDA_2.idr.final.bed.gz Download
GSE137258_MDA_rep1_rep2.bed.gz Download
GSE137258_MYC_HMEC_1-MYC_HMEC_2.idr.final.bed.gz Download
GSE137258_MYC_HMEC_MLE_day16.gene_summary.txt.gz Download
GSE137258_MYC_HMEC_MLE_day8.gene_summary.txt.gz Download
GSE137258_MYC_HMEC_TAM_1-MYC_HMEC_TAM_2.idr.final.bed.gz Download
GSE137258_MYC_HMEC_TAM_rep1_rep2.bed.gz Download
GSE137258_MYC_HMEC_rep1_rep2.bed.gz Download
GSE137258_RAW.tar Download
GSE137258_SKBR3_1-SKBR3_2.idr.final.bed.gz Download
GSE137258_SKBR3_rep1_rep2.bed.gz Download
GSE137258_all.countsummary.txt.gz Download
GSE137258_featurecounts.txt.gz Download
GSE137258_macs2_lm2.bed12.gz Download
GSE137258_macs2_lm2_filtered.bed12.gz Download
GSE137258_macs2_mcf7.bed12.gz Download
GSE137258_macs2_mcf7_filtered.bed12.gz Download
GSE137258_macs2_mda.bed12.gz Download
GSE137258_macs2_mda_filtered.bed12.gz Download
GSE137258_macs2_myc_hmec.bed12.gz Download
GSE137258_macs2_myc_hmec_filtered.bed12.gz Download
GSE137258_macs2_myc_hmec_tam.bed12.gz Download
GSE137258_macs2_myc_hmec_tam_filtered.bed12.gz Download
GSE137258_macs2_skbr3.bed12.gz Download
GSE137258_macs2_skbr3_filtered.bed12.gz Download
GEO Samples (74)
GSM4073974 GSM4073975 GSM4073976 GSM4073977 GSM4073978 GSM4073979 GSM4073980 GSM4073981 GSM4073982 GSM4073983 GSM4073984 GSM4073985 GSM4073986 GSM4073987 GSM4073988 GSM4073989 GSM4073990 GSM4073991 GSM4073992 GSM4073993 GSM4073994 GSM4073995 GSM4073996 GSM4073997 GSM4073998 GSM4073999 GSM4074000 GSM4074001 GSM4074002 GSM4074003 GSM4074004 GSM4074005 GSM4074006 GSM4074007 GSM4074008 GSM4074009 GSM4074010 GSM4074011 GSM4074012 GSM4074013 GSM4074014 GSM4074015 GSM4074016 GSM4074017 GSM4074018 GSM4074019 GSM4074020 GSM4074021 GSM4074022 GSM4074023 GSM4074024 GSM4074025 GSM4074026 GSM4074027 GSM4074028 GSM4074029 GSM4074030 GSM4074031 GSM4074032 GSM4074033 GSM4074034 GSM4074035 GSM4074036 GSM4074037 GSM4074038 GSM4074039 GSM4795202 GSM4795203 GSM4795204 GSM4795205 GSM4795206 GSM4795207 GSM4795208 GSM4795209

SRA Experiments (74) and Runs (74)

Total: 157838 MB
SRX6830187 SRP221341 OTHER SINGLE
GSM4073974: Plasmid_rep1_CRISPR_RBP; synthetic construct; OTHER
Sample: SRS5372274
BioProject: PRJNA564948
BioSample: SAMN12727109
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: synthetic construct
Sample attributes
source_name: plasmid
cell line: plasmid
Original files (1)
plasmid
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098214 9464501 709837575 248.78 Plasmid_1_S23_L001_R1_001.fastq.gz, SRR10098214, SRR10098214.lite SRA
SRX6830188 SRP221341 OTHER SINGLE
GSM4073975: Plasmid_rep2_CRISPR_RBP; synthetic construct; OTHER
Sample: SRS5372275
BioProject: PRJNA564948
BioSample: SAMN12727108
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: synthetic construct
Sample attributes
source_name: plasmid
cell line: plasmid
Original files (1)
plasmid
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098215 8985455 673909125 235.8 Plasmid_2_S24_L001_R1_001.fastq.gz, SRR10098215, SRR10098215.lite SRA
SRX6830189 SRP221341 OTHER SINGLE
GSM4073976: T0_rep1_CRISPR_RBP; Homo sapiens; OTHER
Sample: SRS5372276
BioProject: PRJNA564948
BioSample: SAMN12727107
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
timepoint: Day 0
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098216 6768109 372245995 132.46 T0_rep1_S66_L005_R1_001.fastq.gz, SRR10098216, SRR10098216.lite SRA
SRX6830190 SRP221341 OTHER SINGLE
GSM4073977: T0_rep2_CRISPR_RBP; Homo sapiens; OTHER
Sample: SRS5372277
BioProject: PRJNA564948
BioSample: SAMN12727106
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
timepoint: Day 0
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098217 6166942 339181810 120.55 T0_rep2_S67_L005_R1_001.fastq.gz, SRR10098217, SRR10098217.lite SRA
SRX6830191 SRP221341 OTHER SINGLE
GSM4073978: T8_Unt_rep1_CRISPR_RBP; Homo sapiens; OTHER
Sample: SRS5372278
BioProject: PRJNA564948
BioSample: SAMN12727105
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
timepoint: Day 8
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098218 7130759 392191745 138.63 T8_Unt_rep1_S68_L005_R1_001.fastq.gz, SRR10098218, SRR10098218.lite SRA
SRX6830192 SRP221341 OTHER SINGLE
GSM4073979: T8_Unt_rep2_CRISPR_RBP; Homo sapiens; OTHER
Sample: SRS5372279
BioProject: PRJNA564948
BioSample: SAMN12727104
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
timepoint: Day 8
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098219 7039336 387163480 138.99 T8_Unt_rep2_S69_L005_R1_001.fastq.gz, SRR10098219, SRR10098219.lite SRA
SRX6830193 SRP221341 OTHER SINGLE
GSM4073980: T8_Tr_rep1_CRISPR_RBP; Homo sapiens; OTHER
Sample: SRS5372280
BioProject: PRJNA564948
BioSample: SAMN12727103
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
timepoint: Day 8
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098220 6661608 366388440 130.18 T8_Tr_rep1_S70_L005_R1_001.fastq.gz, SRR10098220, SRR10098220.lite SRA
SRX6830194 SRP221341 OTHER SINGLE
GSM4073981: T8_Tr_rep2_CRISPR_RBP; Homo sapiens; OTHER
Sample: SRS5372281
BioProject: PRJNA564948
BioSample: SAMN12727102
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
timepoint: Day 8
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098221 6381847 351001585 125.73 T8_Tr_rep2_S71_L005_R1_001.fastq.gz, SRR10098221, SRR10098221.lite SRA
SRX6830195 SRP221341 OTHER SINGLE
GSM4073990: MYC_HMEC_TAM_CLIP_rep1; Homo sapiens; OTHER
Sample: SRS5372282
BioProject: PRJNA564948
BioSample: SAMN12727093
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
antibody: YTHDF2 (Cat#ARP67917_P050)
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098230 27155644 2036673300 699.35 MYC_HMEC_TAM_R1_CLIP_S11_L005_R1_001.fastq.gz, SRR10098230, SRR100982… SRA
SRX6830196 SRP221341 OTHER SINGLE
GSM4073991: MYC_HMEC_TAM_SMINPUT_rep1; Homo sapiens; OTHER
Sample: SRS5372283
BioProject: PRJNA564948
BioSample: SAMN12727092
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098231 27894793 2092109475 702.86 MYC_HMEC_TAM_R1_SMInput_S3_L005_R1_001.fastq.gz, SRR10098231, SRR1009… SRA
SRX6830197 SRP221341 OTHER SINGLE
GSM4073992: MYC_HMEC_TAM_CLIP_rep2; Homo sapiens; OTHER
Sample: SRS5372284
BioProject: PRJNA564948
BioSample: SAMN12727091
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
antibody: YTHDF2 (Cat#ARP67917_P050)
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098232 15892229 1191917175 408.26 MYC_HMEC_TAM_R2_CLIP_S12_L005_R1_001.fastq.gz, SRR10098232, SRR100982… SRA
SRX6830198 SRP221341 OTHER SINGLE
GSM4073993: MYC_HMEC_TAM_SMINPUT_rep2; Homo sapiens; OTHER
Sample: SRS5372285
BioProject: PRJNA564948
BioSample: SAMN12727090
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098233 28385662 2128924650 718.91 MYC_HMEC_TAM_R2_SMInput_S4_L005_R1_001.fastq.gz, SRR10098233, SRR1009… SRA
SRX6830199 SRP221341 OTHER SINGLE
GSM4073994: LM2_CLIP_rep1; Homo sapiens; OTHER
Sample: SRS5372286
BioProject: PRJNA564948
BioSample: SAMN12727089
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231-LM2
cell line: MDA-MB-231-LM2
treatment: None
antibody: YTHDF2 (Cat#ARP67917_P050)
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231-LM2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098234 28224381 2116828575 721.81 LM2_R1_CLIP_S13_L005_R1_001.fastq.gz, SRR10098234, SRR10098234.lite SRA
SRX6830200 SRP221341 OTHER SINGLE
GSM4073995: LM2_SMINPUT_rep1; Homo sapiens; OTHER
Sample: SRS5372287
BioProject: PRJNA564948
BioSample: SAMN12727088
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231-LM2
cell line: MDA-MB-231-LM2
treatment: None
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231-LM2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098235 25892352 1941926400 653.68 LM2_R1_SMInput_S5_L005_R1_001.fastq.gz, SRR10098235, SRR10098235.lite SRA
SRX6830201 SRP221341 OTHER SINGLE
GSM4073996: LM2_CLIP_rep2; Homo sapiens; OTHER
Sample: SRS5372288
BioProject: PRJNA564948
BioSample: SAMN12727087
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231-LM2
cell line: MDA-MB-231-LM2
treatment: None
antibody: YTHDF2 (Cat#ARP67917_P050)
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231-LM2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098236 23784145 1783810875 604.55 LM2_R2_CLIP_S14_L005_R1_001.fastq.gz, SRR10098236, SRR10098236.lite SRA
SRX6830202 SRP221341 OTHER SINGLE
GSM4073997: LM2_SMINPUT_rep2; Homo sapiens; OTHER
Sample: SRS5372289
BioProject: PRJNA564948
BioSample: SAMN12727086
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231-LM2
cell line: MDA-MB-231-LM2
treatment: None
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231-LM2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098237 21938259 1645369425 559.16 LM2_R2_SMInput_S6_L005_R1_001.fastq.gz, SRR10098237, SRR10098237.lite SRA
SRX6830203 SRP221341 OTHER SINGLE
GSM4073998: MDA_CLIP_rep1; Homo sapiens; OTHER
Sample: SRS5372290
BioProject: PRJNA564948
BioSample: SAMN12727085
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231
cell line: MDA-MB-231
treatment: None
antibody: YTHDF2 (Cat#ARP67917_P050)
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098238 16028555 1202141625 411.85 MDA_R1_CLIP_S69_L004_R1_001.fastq.gz, SRR10098238, SRR10098238.lite SRA
SRX6830204 SRP221341 OTHER SINGLE
GSM4073999: MDA_SMINPUT_rep1; Homo sapiens; OTHER
Sample: SRS5372291
BioProject: PRJNA564948
BioSample: SAMN12727084
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231
cell line: MDA-MB-231
treatment: None
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098239 23066214 1729966050 597.75 MDA_R1_SMInput_S65_L004_R1_001.fastq.gz, SRR10098239, SRR10098239.lite SRA
SRX6830205 SRP221341 OTHER SINGLE
GSM4074000: MDA_CLIP_rep2; Homo sapiens; OTHER
Sample: SRS5372292
BioProject: PRJNA564948
BioSample: SAMN12727144
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231
cell line: MDA-MB-231
treatment: None
antibody: YTHDF2 (Cat#ARP67917_P050)
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098240 15864248 1189818600 408.76 MDA_R2_CLIP_S70_L004_R1_001.fastq.gz, SRR10098240, SRR10098240.lite SRA
SRX6830206 SRP221341 OTHER SINGLE
GSM4074001: MDA_SMINPUT_rep2; Homo sapiens; OTHER
Sample: SRS5372293
BioProject: PRJNA564948
BioSample: SAMN12727143
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231
cell line: MDA-MB-231
treatment: None
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098241 20308334 1523125050 528.91 MDA_R2_SMInput_S66_L004_R1_001.fastq.gz, SRR10098241, SRR10098241.lite SRA
SRX6830207 SRP221341 OTHER SINGLE
GSM4074002: MCF7_CLIP_rep1; Homo sapiens; OTHER
Sample: SRS5372294
BioProject: PRJNA564948
BioSample: SAMN12727142
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MCF-7
cell line: MCF-7
treatment: None
antibody: YTHDF2 (Cat#ARP67917_P050)
cell culture: DMEM + 10% FBS
Original files (1)
MCF-7
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098242 17163655 1287274125 454.09 MCF7_R1_CLIP_S71_L004_R1_001.fastq.gz, SRR10098242, SRR10098242.lite SRA
SRX6830208 SRP221341 OTHER SINGLE
GSM4074003: MCF7_SMINPUT_rep1; Homo sapiens; OTHER
Sample: SRS5372295
BioProject: PRJNA564948
BioSample: SAMN12727141
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MCF-7
cell line: MCF-7
treatment: None
cell culture: DMEM + 10% FBS
Original files (1)
MCF-7
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098243 23313477 1748510775 607.23 MCF7_R1_SMInput_S67_L004_R1_001.fastq.gz, SRR10098243, SRR10098243.li… SRA
SRX6830209 SRP221341 OTHER SINGLE
GSM4074004: MCF7_CLIP_rep2; Homo sapiens; OTHER
Sample: SRS5372296
BioProject: PRJNA564948
BioSample: SAMN12727140
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MCF-7
cell line: MCF-7
treatment: None
antibody: YTHDF2 (Cat#ARP67917_P050)
cell culture: DMEM + 10% FBS
Original files (1)
MCF-7
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098244 15364364 1152327300 402.99 MCF7_R2_CLIP_S72_L004_R1_001.fastq.gz, SRR10098244, SRR10098244.lite SRA
SRX6830210 SRP221341 OTHER SINGLE
GSM4074005: MCF7_SMINPUT_rep2; Homo sapiens; OTHER
Sample: SRS5372297
BioProject: PRJNA564948
BioSample: SAMN12727139
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MCF-7
cell line: MCF-7
treatment: None
cell culture: DMEM + 10% FBS
Original files (1)
MCF-7
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098245 16241852 1218138900 420.06 MCF7_R2_SMInput_S68_L004_R1_001.fastq.gz, SRR10098245.lite, SRR100982… SRA
SRX6830211 SRP221341 OTHER SINGLE
GSM4074006: SKBR3_CLIP_rep1; Homo sapiens; OTHER
Sample: SRS5372298
BioProject: PRJNA564948
BioSample: SAMN12727138
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: SKBR3
cell line: SKBR3
treatment: None
antibody: YTHDF2 (Cat#ARP67917_P050)
cell culture: McCoy's 5A +10% FBS
Original files (1)
SKBR3
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098246 25611149 1920836175 663.18 SKBR3_R1_CLIP_S15_L005_R1_001.fastq.gz, SRR10098246, SRR10098246.lite SRA
SRX6830212 SRP221341 OTHER SINGLE
GSM4074007: SKBR3_SMINPUT_rep1; Homo sapiens; OTHER
Sample: SRS5372299
BioProject: PRJNA564948
BioSample: SAMN12727137
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: SKBR3
cell line: SKBR3
treatment: None
cell culture: McCoy's 5A +10% FBS
Original files (1)
SKBR3
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098247 16250733 1218804975 415.15 SKBR3_R1_SMInput_S7_L005_R1_001.fastq.gz, SRR10098247.lite, SRR100982… SRA
SRX6830213 SRP221341 OTHER SINGLE
GSM4074008: SKBR3_CLIP_rep2; Homo sapiens; OTHER
Sample: SRS5372300
BioProject: PRJNA564948
BioSample: SAMN12727136
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: SKBR3
cell line: SKBR3
treatment: None
antibody: YTHDF2 (Cat#ARP67917_P050)
cell culture: McCoy's 5A +10% FBS
Original files (1)
SKBR3
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098248 22469823 1685236725 582.74 SKBR3_R2_CLIP_S16_L005_R1_001.fastq.gz, SRR10098248, SRR10098248.lite SRA
SRX6830214 SRP221341 OTHER SINGLE
GSM4074009: SKBR3_SMINPUT_rep2; Homo sapiens; OTHER
Sample: SRS5372301
BioProject: PRJNA564948
BioSample: SAMN12727135
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: SKBR3
cell line: SKBR3
treatment: None
cell culture: McCoy's 5A +10% FBS
Original files (1)
SKBR3
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098249 24662011 1849650825 626.84 SKBR3_R2_SMInput_S8_L005_R1_001.fastq.gz, SRR10098249, SRR10098249.li… SRA
SRX6830215 SRP221341 OTHER SINGLE
GSM4074010: MYC_HMEC_M6A_rep1; Homo sapiens; OTHER
Sample: SRS5372302
BioProject: PRJNA564948
BioSample: SAMN12727134
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
antibody: m6A (Cat#202 011)
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098250 30855827 2314187025 832.64 M6A_MYC_HMEC_R1_S7_L005_R1_001.fastq.gz, SRR10098250, SRR10098250.lite SRA
SRX6830216 SRP221341 OTHER SINGLE
GSM4074011: MYC_HMEC_INPUT_rep1; Homo sapiens; OTHER
Sample: SRS5372303
BioProject: PRJNA564948
BioSample: SAMN12727133
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098251 19579882 1468491150 523.31 Input_MYC_HMEC_2_S2_L005_R1_001.fastq.gz, SRR10098251, SRR10098251.li… SRA
SRX6830217 SRP221341 OTHER SINGLE
GSM4074012: MYC_HMEC_M6A_rep2; Homo sapiens; OTHER
Sample: SRS5372304
BioProject: PRJNA564948
BioSample: SAMN12727132
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
antibody: m6A (Cat#202 011)
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098252 26556400 1991730000 721.51 M6A_MYC_HMEC_R2_S8_L005_R1_001.fastq.gz, SRR10098252, SRR10098252.lite SRA
SRX6830218 SRP221341 OTHER SINGLE
GSM4074013: MYC_HMEC_INPUT_rep2; Homo sapiens; OTHER
Sample: SRS5372305
BioProject: PRJNA564948
BioSample: SAMN12727131
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098253 17270207 1295265525 460.61 Input_MYC_HMEC_R1_S1_L005_R1_001.fastq.gz, SRR10098253, SRR10098253.l… SRA
SRX6830219 SRP221341 OTHER SINGLE
GSM4074014: MYC_HMEC_TAM_M6A_rep1; Homo sapiens; OTHER
Sample: SRS5372306
BioProject: PRJNA564948
BioSample: SAMN12727130
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
antibody: m6A (Cat#202 011)
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098254 39291110 2946833250 1056.42 M6A_MYC_HMEC_TAM_R1_S9_L005_R1_001.fastq.gz, SRR10098254, SRR10098254… SRA
SRX6830220 SRP221341 OTHER SINGLE
GSM4074015: MYC_HMEC_TAM_INPUT_rep1; Homo sapiens; OTHER
Sample: SRS5372307
BioProject: PRJNA564948
BioSample: SAMN12727129
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098255 38884647 2916348525 1029.85 Input_MYC_HMEC_TAM_R1_S3_L005_R1_001.fastq.gz, SRR10098255, SRR100982… SRA
SRX6830221 SRP221341 OTHER SINGLE
GSM4074016: MYC_HMEC_TAM_M6A_rep2; Homo sapiens; OTHER
Sample: SRS5372308
BioProject: PRJNA564948
BioSample: SAMN12727128
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
antibody: m6A (Cat#202 011)
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098256 18971602 1422870150 514.01 M6A_MYC_HMEC_TAM_R2_S10_L005_R1_001.fastq.gz, SRR10098256, SRR1009825… SRA
SRX6830222 SRP221341 OTHER SINGLE
GSM4074017: MYC_HMEC_TAM_INPUT_rep2; Homo sapiens; OTHER
Sample: SRS5372309
BioProject: PRJNA564948
BioSample: SAMN12727127
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098257 19276117 1445708775 511.64 Input_MYC_HMEC_TAM_R2_S4_L005_R1_001.fastq.gz, SRR10098257, SRR100982… SRA
SRX6830223 SRP221341 OTHER SINGLE
GSM4074018: LM2_M6A_rep1; Homo sapiens; OTHER
Sample: SRS5372310
BioProject: PRJNA564948
BioSample: SAMN12727126
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231-LM2
cell line: MDA-MB-231-LM2
treatment: None
antibody: m6A (Cat#202 011)
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231-LM2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098258 34359328 2576949600 920.98 M6A_LM2_R1_S11_L005_R1_001.fastq.gz, SRR10098258, SRR10098258.lite SRA
SRX6830224 SRP221341 OTHER SINGLE
GSM4074019: LM2_INPUT_rep1; Homo sapiens; OTHER
Sample: SRS5372311
BioProject: PRJNA564948
BioSample: SAMN12727125
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231-LM2
cell line: MDA-MB-231-LM2
treatment: None
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231-LM2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098259 32620079 2446505925 864.38 SRR10098259, SRR10098259.lite, Input_LM2_R1_S5_L005_R1_001.fastq.gz SRA
SRX6830225 SRP221341 OTHER SINGLE
GSM4074020: LM2_M6A_rep2; Homo sapiens; OTHER
Sample: SRS5372312
BioProject: PRJNA564948
BioSample: SAMN12727124
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231-LM2
cell line: MDA-MB-231-LM2
treatment: None
antibody: m6A (Cat#202 011)
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231-LM2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098260 44595136 3344635200 1198.03 M6A_LM2_R2_S12_L005_R1_001.fastq.gz, SRR10098260, SRR10098260.lite SRA
SRX6830226 SRP221341 OTHER SINGLE
GSM4074021: LM2_INPUT_rep2; Homo sapiens; OTHER
Sample: SRS5372313
BioProject: PRJNA564948
BioSample: SAMN12727123
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231-LM2
cell line: MDA-MB-231-LM2
treatment: None
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231-LM2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098261 48923366 3669252450 1287.93 Input_LM2_R2_S6_L005_R1_001.fastq.gz, SRR10098261, SRR10098261.lite SRA
SRX6830227 SRP221341 OTHER SINGLE
GSM4074022: MDA_M6A_rep1; Homo sapiens; OTHER
Sample: SRS5372314
BioProject: PRJNA564948
BioSample: SAMN12727122
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231
cell line: MDA-MB-231
treatment: None
antibody: m6A (Cat#202 011)
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098262 35500967 2662572525 965.45 M6A_MDA_R1_S19_L006_R1_001.fastq.gz, SRR10098262.lite, SRR10098262 SRA
SRX6830228 SRP221341 OTHER SINGLE
GSM4074023: MDA_INPUT_rep1; Homo sapiens; OTHER
Sample: SRS5372315
BioProject: PRJNA564948
BioSample: SAMN12727121
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231
cell line: MDA-MB-231
treatment: None
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098263 18449704 1383727800 495.65 Input_MDA_R1_S13_L006_R1_001.fastq.gz, SRR10098263, SRR10098263.lite SRA
SRX6830229 SRP221341 OTHER SINGLE
GSM4074024: MDA_M6A_rep2; Homo sapiens; OTHER
Sample: SRS5372316
BioProject: PRJNA564948
BioSample: SAMN12727120
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231
cell line: MDA-MB-231
treatment: None
antibody: m6A (Cat#202 011)
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098264 37688665 2826649875 1016.24 SRR10098264, M6A_MDA_R2_S20_L006_R1_001.fastq.gz, SRR10098264.lite SRA
SRX6830230 SRP221341 OTHER SINGLE
GSM4074025: MDA_INPUT_rep2; Homo sapiens; OTHER
Sample: SRS5372317
BioProject: PRJNA564948
BioSample: SAMN12727119
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231
cell line: MDA-MB-231
treatment: None
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098265 24789173 1859187975 661.32 Input_MDA_R2_S14_L006_R1_001.fastq.gz, SRR10098265, SRR10098265.lite SRA
SRX6830231 SRP221341 OTHER SINGLE
GSM4074026: MCF7_M6A_rep1; Homo sapiens; OTHER
Sample: SRS5372318
BioProject: PRJNA564948
BioSample: SAMN12727118
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MCF-7
cell line: MCF-7
treatment: None
antibody: m6A (Cat#202 011)
cell culture: DMEM + 10% FBS
Original files (1)
MCF-7
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098266 35109976 2633248200 938.97 M6A_MCF7_R1_S21_L006_R1_001.fastq.gz, SRR10098266, SRR10098266.lite SRA
SRX6830232 SRP221341 OTHER SINGLE
GSM4074027: MCF7_INPUT_rep1; Homo sapiens; OTHER
Sample: SRS5372319
BioProject: PRJNA564948
BioSample: SAMN12727117
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MCF-7
cell line: MCF-7
treatment: None
cell culture: DMEM + 10% FBS
Original files (1)
MCF-7
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098267 13330837 999812775 357.71 Input_MCF7_R1_S15_L006_R1_001.fastq.gz, SRR10098267, SRR10098267.lite SRA
SRX6830233 SRP221341 OTHER SINGLE
GSM4074028: MCF7_M6A_rep2; Homo sapiens; OTHER
Sample: SRS5372320
BioProject: PRJNA564948
BioSample: SAMN12727116
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MCF-7
cell line: MCF-7
treatment: None
antibody: m6A (Cat#202 011)
cell culture: DMEM + 10% FBS
Original files (1)
MCF-7
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098268 41513160 3113487000 1125.8 M6A_MCF7_R2_S22_L006_R1_001.fastq.gz, SRR10098268, SRR10098268.lite SRA
SRX6830234 SRP221341 OTHER SINGLE
GSM4074029: MCF7_INPUT_rep2; Homo sapiens; OTHER
Sample: SRS5372321
BioProject: PRJNA564948
BioSample: SAMN12727149
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MCF-7
cell line: MCF-7
treatment: None
cell culture: DMEM + 10% FBS
Original files (1)
MCF-7
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098269 31637592 2372819400 844.15 Input_MCF7_R2_S16_L006_R1_001.fastq.gz, SRR10098269, SRR10098269.lite SRA
SRX6830235 SRP221341 OTHER SINGLE
GSM4074030: SKBR3_M6A_rep1; Homo sapiens; OTHER
Sample: SRS5372322
BioProject: PRJNA564948
BioSample: SAMN12727148
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: SKBR3
cell line: SKBR3
treatment: None
antibody: m6A (Cat#202 011)
cell culture: McCoy's 5A +10% FBS
Original files (1)
SKBR3
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098270 56438816 4232911200 1558.01 SRR10098270, SRR10098270.lite, M6A_SKBR3_R1_S23_L006_R1_001.fastq.gz SRA
SRX6830236 SRP221341 OTHER SINGLE
GSM4074031: SKBR3_INPUT_rep1; Homo sapiens; OTHER
Sample: SRS5372323
BioProject: PRJNA564948
BioSample: SAMN12727147
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: SKBR3
cell line: SKBR3
treatment: None
cell culture: McCoy's 5A +10% FBS
Original files (1)
SKBR3
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098271 19293328 1446999600 518.21 Input_SKBR3_R1_S17_L006_R1_001.fastq.gz, SRR10098271, SRR10098271.lite SRA
SRX6830237 SRP221341 OTHER SINGLE
GSM4074032: SKBR3_M6A_rep2; Homo sapiens; OTHER
Sample: SRS5372324
BioProject: PRJNA564948
BioSample: SAMN12727146
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: SKBR3
cell line: SKBR3
treatment: None
antibody: m6A (Cat#202 011)
cell culture: McCoy's 5A +10% FBS
Original files (1)
SKBR3
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098272 38439229 2882942175 1039.24 M6A_SKBR3_R2_S24_L006_R1_001.fastq.gz, SRR10098272, SRR10098272.lite SRA
SRX6830238 SRP221341 OTHER SINGLE
GSM4074033: SKBR3_INPUT_rep2; Homo sapiens; OTHER
Sample: SRS5372325
BioProject: PRJNA564948
BioSample: SAMN12727145
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: SKBR3
cell line: SKBR3
treatment: None
cell culture: McCoy's 5A +10% FBS
Original files (1)
SKBR3
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098273 19144819 1435861425 514.3 Input_SKBR3_R2_S18_L006_R1_001.fastq.gz, SRR10098273, SRR10098273.lite SRA
SRX6830239 SRP221341 RNA-Seq SINGLE
GSM4074034: MYC_HMEC_TAM_NTC_rep1; Homo sapiens; RNA-Seq
Sample: SRS5372326
BioProject: PRJNA564948
BioSample: SAMN12727115
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098274 33706798 2528009850 878.42 SRR10098274, MYC_HMEC_TAM_NTC_R1_S7_L007_R1_001.fastq.gz, SRR10098274… SRA
SRX6830240 SRP221341 RNA-Seq SINGLE
GSM4074035: MYC_HMEC_TAM_NTC_rep2; Homo sapiens; RNA-Seq
Sample: SRS5372327
BioProject: PRJNA564948
BioSample: SAMN12727114
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098275 17579965 1318497375 455.86 MYC_HMEC_TAM_NTC_R2_S8_L007_R1_001.fastq.gz, SRR10098275, SRR10098275… SRA
SRX6830241 SRP221341 RNA-Seq SINGLE
GSM4074036: MYC_HMEC_TAM_SHY2_rep1; Homo sapiens; RNA-Seq
Sample: SRS5372328
BioProject: PRJNA564948
BioSample: SAMN12727113
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098276 41848908 3138668100 1091.25 SRR10098276, SRR10098276.lite, MYC_HMEC_TAM_SHY1_R1_S9_L007_R1_001.fa… SRA
SRX6830242 SRP221341 RNA-Seq SINGLE
GSM4074037: MYC_HMEC_TAM_SHY2_rep2; Homo sapiens; RNA-Seq
Sample: SRS5372329
BioProject: PRJNA564948
BioSample: SAMN12727112
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098277 50723242 3804243150 1322.4 SRR10098277, SRR10098277.lite, MYC_HMEC_TAM_SHY1_R2_S10_L007_R1_001.f… SRA
SRX6830243 SRP221341 RNA-Seq SINGLE
GSM4074038: MYC_HMEC_TAM_SHY1_rep1; Homo sapiens; RNA-Seq
Sample: SRS5372330
BioProject: PRJNA564948
BioSample: SAMN12727111
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098278 20910329 1568274675 546.36 SRR10098278, SRR10098278.lite, MYC_HMEC_TAM_R1_SHY2_S11_L007_R1_001.f… SRA
SRX6830244 SRP221341 RNA-Seq SINGLE
GSM4074039: MYC_HMEC_TAM_SHY1_rep2; Homo sapiens; RNA-Seq
Sample: SRS5372331
BioProject: PRJNA564948
BioSample: SAMN12727110
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098279 31169340 2337700500 807.36 MYC_HMEC_TAM_R2_SHY2_S12_L007_R1_001.fastq.gz, SRR10098279, SRR100982… SRA
SRX6830245 SRP221341 OTHER SINGLE
GSM4073982: T16_Unt_rep1_CRISPR_RBP; Homo sapiens; OTHER
Sample: SRS5372332
BioProject: PRJNA564948
BioSample: SAMN12727101
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
timepoint: Day 16
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098222 7063184 388475120 138.56 T16_Unt_rep1_S72_L005_R1_001.fastq.gz, SRR10098222, SRR10098222.lite SRA
SRX6830246 SRP221341 OTHER SINGLE
GSM4073983: T16_Unt_rep2_CRISPR_RBP; Homo sapiens; OTHER
Sample: SRS5372333
BioProject: PRJNA564948
BioSample: SAMN12727100
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
timepoint: Day 16
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098223 6302971 346663405 123.14 SRR10098223.lite, SRR10098223, T16_Unt_rep2_S73_L005_R1_001.fastq.gz SRA
SRX6830247 SRP221341 OTHER SINGLE
GSM4073984: T16_Tr_rep1_CRISPR_RBP; Homo sapiens; OTHER
Sample: SRS5372334
BioProject: PRJNA564948
BioSample: SAMN12727099
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
timepoint: Day 16
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098224 6959260 382759300 136.34 T16_Tr_rep1_S74_L005_R1_001.fastq.gz, SRR10098224, SRR10098224.lite SRA
SRX6830248 SRP221341 OTHER SINGLE
GSM4073985: T16_Tr_rep2_CRISPR_RBP; Homo sapiens; OTHER
Sample: SRS5372335
BioProject: PRJNA564948
BioSample: SAMN12727098
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
timepoint: Day 16
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098225 7115417 391347935 140.11 T16_Tr_rep2_S75_L005_R1_001.fastq.gz, SRR10098225, SRR10098225.lite SRA
SRX6830249 SRP221341 OTHER SINGLE
GSM4073986: MYC_HMEC_CLIP_rep1; Homo sapiens; OTHER
Sample: SRS5372336
BioProject: PRJNA564948
BioSample: SAMN12727097
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
antibody: YTHDF2 (Cat#ARP67917_P050)
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098226 20633338 1547500350 531.66 MYC_HMEC_R1_CLIP_S9_L005_R1_001.fastq.gz, SRR10098226, SRR10098226.li… SRA
SRX6830250 SRP221341 OTHER SINGLE
GSM4073987: MYC_HMEC_SMINPUT_rep1; Homo sapiens; OTHER
Sample: SRS5372337
BioProject: PRJNA564948
BioSample: SAMN12727096
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098227 23670932 1775319900 598.35 MYC_HMEC_R1_SMInput_S1_L005_R1_001.fastq.gz, SRR10098227, SRR10098227… SRA
SRX6830251 SRP221341 OTHER SINGLE
GSM4073988: MYC_HMEC_CLIP_rep2; Homo sapiens; OTHER
Sample: SRS5372338
BioProject: PRJNA564948
BioSample: SAMN12727095
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
antibody: YTHDF2 (Cat#ARP67917_P050)
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098228 25677537 1925815275 658.26 MYC_HMEC_R2_CLIP_S10_L005_R1_001.fastq.gz, SRR10098228, SRR10098228.l… SRA
SRX6830252 SRP221341 OTHER SINGLE
GSM4073989: MYC_HMEC_SMINPUT_rep2; Homo sapiens; OTHER
Sample: SRS5372339
BioProject: PRJNA564948
BioSample: SAMN12727094
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell line: MYC-ER HMEC
treatment: None
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR10098229 27380660 2053549500 697.37 MYC_HMEC_R2_SMInput_S2_L005_R1_001.fastq.gz, SRR10098229, SRR10098229… SRA
SRX9149653 SRP221341 RNA-Seq SINGLE
GSM4795202: MYC_HMEC_SHY1_rep1 [RNA-seq]; Homo sapiens; RNA-Seq
Sample: SRS7390442
BioProject: PRJNA564948
BioSample: SAMN16207178
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell type: MYC-ER HMEC
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR12669107 16809787 1260734025 437.59 MYC_HMEC_R1_SHY-1_1_S3_L007_R1_001.fastq.gz, SRR12669107, SRR12669107… SRA
SRX9149654 SRP221341 RNA-Seq SINGLE
GSM4795203: MYC_HMEC_SHY1_rep2 [RNA-seq]; Homo sapiens; RNA-Seq
Sample: SRS7390443
BioProject: PRJNA564948
BioSample: SAMN16207177
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell type: MYC-ER HMEC
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR12669108 27341781 2050633575 708.05 MYC_HMEC_R2_SHY-1_2_S4_L007_R1_001.fastq.gz, SRR12669108, SRR12669108… SRA
SRX9149655 SRP221341 RNA-Seq SINGLE
GSM4795204: MYC_HMEC_SHY2_rep1 [RNA-seq]; Homo sapiens; RNA-Seq
Sample: SRS7390444
BioProject: PRJNA564948
BioSample: SAMN16207176
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell type: MYC-ER HMEC
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR12669109 39123584 2934268800 1017.58 MYC_HMEC_R1_SHY-2_1_S5_L007_R1_001.fastq.gz, SRR12669109, SRR12669109… SRA
SRX9149656 SRP221341 RNA-Seq SINGLE
GSM4795205: MYC_HMEC_SHY2_rep2 [RNA-seq]; Homo sapiens; RNA-Seq
Sample: SRS7390445
BioProject: PRJNA564948
BioSample: SAMN16207175
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: MYC-ER HMEC
cell type: MYC-ER HMEC
cell culture: Medium 171/ MEGS supplement
Original files (1)
MYC-ER HMEC
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR12669110 28502101 2137657575 743.07 MYC_HMEC_R2_SHY-2_2_S6_L007_R1_001.fastq.gz, SRR12669110, SRR12669110… SRA
SRX9149657 SRP221341 RNA-Seq PAIRED
GSM4795206: WT_Control_STAMP [10X]; Homo sapiens; RNA-Seq
Sample: SRS7390446
BioProject: PRJNA564948
BioSample: SAMN16207174
Platform: ILLUMINA
Instrument: Illumina NovaSeq 6000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231-LM2
cell type: MDA-MB-231-LM2
treatment: Doxycycline
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231-LM2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR12669111 260593133 52639812866 19279.76 WT_Control_STAMP_S1_L004_R1_001.fastq.gz, WT_Control_STAMP_S1_L004_R2… SRA
SRX9149658 SRP221341 RNA-Seq PAIRED
GSM4795207: WT_RPS2_STAMP [10X]; Homo sapiens; RNA-Seq
Sample: SRS7390447
BioProject: PRJNA564948
BioSample: SAMN16207173
Platform: ILLUMINA
Instrument: Illumina NovaSeq 6000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231-LM2
cell type: MDA-MB-231-LM2
treatment: Doxycycline
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231-LM2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR12669112 231796631 46822919462 17145.91 WT_RPS2_STAMP_S3_L004_R1_001.fastq.gz, WT_RPS2_STAMP_S3_L004_R2_001.f… SRA
SRX9149659 SRP221341 RNA-Seq PAIRED
GSM4795208: shYTHDF2_Control_STAMP [10X]; Homo sapiens; RNA-Seq
Sample: SRS7390448
BioProject: PRJNA564948
BioSample: SAMN16207172
Platform: ILLUMINA
Instrument: Illumina NovaSeq 6000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231-LM2
cell type: MDA-MB-231-LM2
treatment: Doxycycline
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231-LM2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR12669113 729365242 147331778884 54058.56 shYTHDF2_Control_STAMP_S8_L004_R1_001.fastq.gz, shYTHDF2_Control_STAM… SRA
SRX9149660 SRP221341 RNA-Seq PAIRED
GSM4795209: shYTHDF2_RPS2_STAMP [10X]; Homo sapiens; RNA-Seq
Sample: SRS7390449
BioProject: PRJNA564948
BioSample: SAMN16207171
Platform: ILLUMINA
Instrument: Illumina NovaSeq 6000
Organism: Homo sapiens
Sample attributes
source_name: MDA-MB-231-LM2
cell type: MDA-MB-231-LM2
treatment: Doxycycline
cell culture: DMEM + 10% FBS
Original files (1)
MDA-MB-231-LM2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR12669114 323224531 65291355262 23906.82 shYTHDF2_RPS2_STAMP_S6_L004_R1_001.fastq.gz, shYTHDF2_RPS2_STAMP_S6_L… SRA

Linked Publications (1)

Inhibition of YTHDF2 triggers proteotoxic cell death in MYC-driven breast cancer.
Molecular cell · 2021

Data Files (74)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
— Input_LM2_R2_S6_L005_R1_001.fastq.gz OTHER 1.3 GB link
— Input_MCF7_R1_S15_L006_R1_001.fastq.gz OTHER 357.7 MB link
— Input_MCF7_R2_S16_L006_R1_001.fastq.gz OTHER 844.1 MB link
— Input_MDA_R1_S13_L006_R1_001.fastq.gz OTHER 495.6 MB link
— Input_MDA_R2_S14_L006_R1_001.fastq.gz OTHER 661.3 MB link
— Input_MYC_HMEC_2_S2_L005_R1_001.fastq.gz OTHER 523.3 MB link
— Input_MYC_HMEC_R1_S1_L005_R1_001.fastq.gz OTHER 460.6 MB link
— Input_MYC_HMEC_TAM_R1_S3_L005_R1_001.fastq.gz OTHER 1.0 GB link
— Input_MYC_HMEC_TAM_R2_S4_L005_R1_001.fastq.gz OTHER 511.6 MB link
— Input_SKBR3_R1_S17_L006_R1_001.fastq.gz OTHER 518.2 MB link
— Input_SKBR3_R2_S18_L006_R1_001.fastq.gz OTHER 514.3 MB link
— LM2_R1_CLIP_S13_L005_R1_001.fastq.gz OTHER 721.8 MB link
— LM2_R1_SMInput_S5_L005_R1_001.fastq.gz OTHER 653.7 MB link
— LM2_R2_CLIP_S14_L005_R1_001.fastq.gz OTHER 604.5 MB link
— LM2_R2_SMInput_S6_L005_R1_001.fastq.gz OTHER 559.2 MB link
— M6A_LM2_R1_S11_L005_R1_001.fastq.gz OTHER 921.0 MB link
— M6A_LM2_R2_S12_L005_R1_001.fastq.gz OTHER 1.2 GB link
— M6A_MCF7_R1_S21_L006_R1_001.fastq.gz OTHER 939.0 MB link
— M6A_MCF7_R2_S22_L006_R1_001.fastq.gz OTHER 1.1 GB link
— M6A_MDA_R1_S19_L006_R1_001.fastq.gz OTHER 965.4 MB link
— M6A_MYC_HMEC_R1_S7_L005_R1_001.fastq.gz OTHER 832.6 MB link
— M6A_MYC_HMEC_R2_S8_L005_R1_001.fastq.gz OTHER 721.5 MB link
— M6A_MYC_HMEC_TAM_R1_S9_L005_R1_001.fastq.gz OTHER 1.0 GB link
— M6A_MYC_HMEC_TAM_R2_S10_L005_R1_001.fastq.gz OTHER 514.0 MB link
— M6A_SKBR3_R2_S24_L006_R1_001.fastq.gz OTHER 1.0 GB link
— MCF7_R1_CLIP_S71_L004_R1_001.fastq.gz OTHER 454.1 MB link
— MCF7_R1_SMInput_S67_L004_R1_001.fastq.gz OTHER 607.2 MB link
— MCF7_R2_CLIP_S72_L004_R1_001.fastq.gz OTHER 403.0 MB link
— MCF7_R2_SMInput_S68_L004_R1_001.fastq.gz OTHER 420.1 MB link
— MDA_R1_CLIP_S69_L004_R1_001.fastq.gz OTHER 411.8 MB link
— MDA_R1_SMInput_S65_L004_R1_001.fastq.gz OTHER 597.8 MB link
— MDA_R2_CLIP_S70_L004_R1_001.fastq.gz OTHER 408.8 MB link
— MDA_R2_SMInput_S66_L004_R1_001.fastq.gz OTHER 528.9 MB link
— MYC_HMEC_R1_CLIP_S9_L005_R1_001.fastq.gz OTHER 531.7 MB link
— MYC_HMEC_R1_SMInput_S1_L005_R1_001.fastq.gz OTHER 598.3 MB link
— MYC_HMEC_R2_CLIP_S10_L005_R1_001.fastq.gz OTHER 658.3 MB link
— MYC_HMEC_R2_SMInput_S2_L005_R1_001.fastq.gz OTHER 697.4 MB link
— MYC_HMEC_TAM_R1_CLIP_S11_L005_R1_001.fastq.gz OTHER 699.3 MB link
— MYC_HMEC_TAM_R1_SMInput_S3_L005_R1_001.fastq.gz OTHER 702.9 MB link
— MYC_HMEC_TAM_R2_CLIP_S12_L005_R1_001.fastq.gz OTHER 408.3 MB link
— MYC_HMEC_TAM_R2_SMInput_S4_L005_R1_001.fastq.gz OTHER 718.9 MB link
— Plasmid_1_S23_L001_R1_001.fastq.gz OTHER 248.8 MB link
— Plasmid_2_S24_L001_R1_001.fastq.gz OTHER 235.8 MB link
— SKBR3_R1_CLIP_S15_L005_R1_001.fastq.gz OTHER 663.2 MB link
— SKBR3_R1_SMInput_S7_L005_R1_001.fastq.gz OTHER 415.1 MB link
— SKBR3_R2_CLIP_S16_L005_R1_001.fastq.gz OTHER 582.7 MB link
— SKBR3_R2_SMInput_S8_L005_R1_001.fastq.gz OTHER 626.8 MB link
— SRR10098223.lite OTHER 123.1 MB link
— SRR10098259 OTHER 864.4 MB link
— SRR10098264 OTHER 1016.2 MB link
— SRR10098270 OTHER 1.5 GB link
— T0_rep1_S66_L005_R1_001.fastq.gz OTHER 132.5 MB link
— T0_rep2_S67_L005_R1_001.fastq.gz OTHER 120.5 MB link
— T16_Tr_rep1_S74_L005_R1_001.fastq.gz OTHER 136.3 MB link
— T16_Tr_rep2_S75_L005_R1_001.fastq.gz OTHER 140.1 MB link
— T16_Unt_rep1_S72_L005_R1_001.fastq.gz OTHER 138.6 MB link
— T8_Tr_rep1_S70_L005_R1_001.fastq.gz OTHER 130.2 MB link
— T8_Tr_rep2_S71_L005_R1_001.fastq.gz OTHER 125.7 MB link
— T8_Unt_rep1_S68_L005_R1_001.fastq.gz OTHER 138.6 MB link
— T8_Unt_rep2_S69_L005_R1_001.fastq.gz OTHER 139.0 MB link
— MYC_HMEC_R1_SHY-1_1_S3_L007_R1_001.fastq.gz RNA-Seq 437.6 MB link
— MYC_HMEC_R1_SHY-2_1_S5_L007_R1_001.fastq.gz RNA-Seq 1017.6 MB link
— MYC_HMEC_R2_SHY-1_2_S4_L007_R1_001.fastq.gz RNA-Seq 708.0 MB link
— MYC_HMEC_R2_SHY-2_2_S6_L007_R1_001.fastq.gz RNA-Seq 743.1 MB link
— MYC_HMEC_TAM_NTC_R2_S8_L007_R1_001.fastq.gz RNA-Seq 455.9 MB link
— MYC_HMEC_TAM_R2_SHY2_S12_L007_R1_001.fastq.gz RNA-Seq 807.4 MB link
— shYTHDF2_Control_STAMP_S8_L004_R1_001.fastq.gz RNA-Seq 52.8 GB link
— shYTHDF2_RPS2_STAMP_S6_L004_R1_001.fastq.gz RNA-Seq 23.3 GB link
— SRR10098274 RNA-Seq 878.4 MB link
— SRR10098276 RNA-Seq 1.1 GB link
— SRR10098277 RNA-Seq 1.3 GB link
— SRR10098278 RNA-Seq 546.4 MB link
— WT_Control_STAMP_S1_L004_R1_001.fastq.gz RNA-Seq 18.8 GB link
— WT_RPS2_STAMP_S3_L004_R1_001.fastq.gz RNA-Seq 16.7 GB link