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GSE198419

GSE GEO
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Transcriptome changes in 22Rv1 and MCF7 cells after treatment with NONO ligands and controls

Organism: Homo sapiens
Platform: GPL20301
Samples: 36
Experiment Types:
Expression profiling by high throughput sequencing
Submitted: Mar 11 2022
Last Updated: Jun 20 2023
Status: Public on Mar 21 2023
Contact: Garrett,Lee,Lindsey (Scripps Research)

Relations

SubSeries of: GSE222217 BioProject: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA815049

Summary

RNA-Sequencing to determine transcriptome changes in 22Rv1 and MCF7 cells after treatment with NONO ligands and controls. NONO KO (sgNONO) or control (sgControl) cells were treated.

Overall Design

sgControl or sgNONO 22Rv1 or MCF7 cells were treated in biological triplicate with DMSO (0.04%) or SKBG-1 (R) or SKBG-1 (S) (20µM and 5µM in 22Rv1 and MCF7 cells, respectively) for 4 hours prior to RNA-sequencing.

Analysis (7 steps)

View Data Processing
Processing steps for GSE198419
  1. For differential expression:
  2. Transcript abundance was quantified using Salmon [v1.3.0] with GENCODE v37 annotation.
  3. Gene level quantification was performed using tximeta [v1.8.4].
  4. Differential gene expression was analyzed by DESeq2 [v1.30.1].
  5. For splicing analysis, 22Rv1 data only:
  6. RNA-seq reads were mapped to hg38 using STAR Aligner.
  7. Alternative splicing (AS) analysis was completed using rMATs (v3.2.5).

Supplementary Files (3)

GSE198419_22Rv1_rMATS_result.xlsx Download
GSE198419_22Rv1_raw_gene_counts.csv.gz Download
GSE198419_MCF7_raw_gene_counts.csv.gz Download
GEO Samples (36)
GSM5946440 GSM5946441 GSM5946442 GSM5946443 GSM5946444 GSM5946445 GSM5946446 GSM5946447 GSM5946448 GSM5946449 GSM5946450 GSM5946451 GSM5946452 GSM5946453 GSM5946454 GSM5946455 GSM5946456 GSM5946457 GSM5946458 GSM5946459 GSM5946460 GSM5946461 GSM5946462 GSM5946463 GSM5946464 GSM5946465 GSM5946466 GSM5946467 GSM5946468 GSM5946469 GSM5946470 GSM5946471 GSM5946472 GSM5946473 GSM5946474 GSM5946475

Dataset Citations (1)

Remodeling oncogenic transcriptomes by small molecules targeting NONO.
PMID 36864190 · 2023 · Nature chemical biology
Stefan G Kathman, Seong Joo Koo, Garrett L Lindsey, Hsuan-Lin Her, Steven M Blue, Haoxin Li, Steffen Jaensch, Jarrett R Remsberg, Kay Ahn, Gene W Yeo, Brahma Ghosh, Benjamin F Cravatt

SRA Experiments (36) and Runs (36)

Total: 277789 MB
SRX14438485 SRP363599 RNA-Seq PAIRED
GSM5946440: Total_RNAseq_22Rv1_sgControl_4hours_DMSO_Replicate1; Homo sapiens; RNA-Seq
Sample: SRS12245593
BioProject: PRJNA815049
BioSample: SAMN26581325
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18301005 94869960 28460988000 10945.29 SK-C1-D1_R1_001.fastq.gz, SK-C1-D1_R2_001.fastq.gz, SRR18301005, SRR1… SRA
SRX14438486 SRP363599 RNA-Seq PAIRED
GSM5946441: Total_RNAseq_22Rv1_sgControl_4hours_DMSO_Replicate2; Homo sapiens; RNA-Seq
Sample: SRS12245592
BioProject: PRJNA815049
BioSample: SAMN26581324
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18301004 95698185 28709455500 11009.16 SK-C1-D2_R1_001.fastq.gz, SK-C1-D2_R2_001.fastq.gz, SRR18301004, SRR1… SRA
SRX14438487 SRP363599 RNA-Seq PAIRED
GSM5946442: Total_RNAseq_22Rv1_sgControl_4hours_DMSO_Replicate3; Homo sapiens; RNA-Seq
Sample: SRS12245594
BioProject: PRJNA815049
BioSample: SAMN26581323
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18301003 92613758 27784127400 10670.18 SK-C1-D3_R1_001.fastq.gz, SK-C1-D3_R2_001.fastq.gz, SRR18301003, SRR1… SRA
SRX14438488 SRP363599 RNA-Seq PAIRED
GSM5946443: Total_RNAseq_22Rv1_sgControl_4hours_SKBG1-R_Replicate1; Homo sapiens; RNA-Seq
Sample: SRS12245595
BioProject: PRJNA815049
BioSample: SAMN26581322
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18301002 74870625 22461187500 8672.89 SK-C1-10R-1_R1_001.fastq.gz, SK-C1-10R-1_R2_001.fastq.gz, SRR18301002… SRA
SRX14438489 SRP363599 RNA-Seq PAIRED
GSM5946448: Total_RNAseq_22Rv1_sgControl_4hours_SKBG1-S_Replicate3; Homo sapiens; RNA-Seq
Sample: SRS12245596
BioProject: PRJNA815049
BioSample: SAMN26581317
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18301001 99256131 29776839300 11461.97 SK-C1-10S-3_R1_001.fastq.gz, SK-C1-10S-3_R2_001.fastq.gz, SRR18301001… SRA
SRX14438490 SRP363599 RNA-Seq PAIRED
GSM5946447: Total_RNAseq_22Rv1_sgControl_4hours_SKBG1-S_Replicate2; Homo sapiens; RNA-Seq
Sample: SRS12245597
BioProject: PRJNA815049
BioSample: SAMN26581318
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18301000 104012908 31203872400 12009.53 SK-C1-10S-2_R1_001.fastq.gz, SK-C1-10S-2_R2_001.fastq.gz, SRR18301000… SRA
SRX14438491 SRP363599 RNA-Seq PAIRED
GSM5946446: Total_RNAseq_22Rv1_sgControl_4hours_SKBG1-S_Replicate1; Homo sapiens; RNA-Seq
Sample: SRS12245598
BioProject: PRJNA815049
BioSample: SAMN26581319
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300999 96272232 28881669600 11069.25 SK-C1-10S-1_R1_001.fastq.gz, SK-C1-10S-1_R2_001.fastq.gz, SRR18300999… SRA
SRX14438492 SRP363599 RNA-Seq PAIRED
GSM5946445: Total_RNAseq_22Rv1_sgControl_4hours_SKBG1-R_Replicate3; Homo sapiens; RNA-Seq
Sample: SRS12245599
BioProject: PRJNA815049
BioSample: SAMN26581320
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300998 104449070 31334721000 12060.06 SK-C1-10R-3_R1_001.fastq.gz, SK-C1-10R-3_R2_001.fastq.gz, SRR18300998… SRA
SRX14438493 SRP363599 RNA-Seq PAIRED
GSM5946444: Total_RNAseq_22Rv1_sgControl_4hours_SKBG1-R_Replicate2; Homo sapiens; RNA-Seq
Sample: SRS12245600
BioProject: PRJNA815049
BioSample: SAMN26581321
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300997 102435122 30730536600 11756.48 SK-C1-10R-2_R1_001.fastq.gz, SK-C1-10R-2_R2_001.fastq.gz, SRR18300997… SRA
SRX14438494 SRP363599 RNA-Seq PAIRED
GSM5946455: Total_RNAseq_22Rv1_sgNONO_4hours_SKBG1-S_Replicate1; Homo sapiens; RNA-Seq
Sample: SRS12245601
BioProject: PRJNA815049
BioSample: SAMN26581310
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300996 102685174 30805552200 11837.43 SK-KO5-10S-1_R1_001.fastq.gz, SK-KO5-10S-1_R2_001.fastq.gz, SRR183009… SRA
SRX14438495 SRP363599 RNA-Seq PAIRED
GSM5946454: Total_RNAseq_22Rv1_sgNONO_4hours_SKBG1-R_Replicate3; Homo sapiens; RNA-Seq
Sample: SRS12245602
BioProject: PRJNA815049
BioSample: SAMN26581311
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300995 101760032 30528009600 11700.21 SK-KO5-10R-3_R1_001.fastq.gz, SK-KO5-10R-3_R2_001.fastq.gz, SRR183009… SRA
SRX14438496 SRP363599 RNA-Seq PAIRED
GSM5946453: Total_RNAseq_22Rv1_sgNONO_4hours_SKBG1-R_Replicate2; Homo sapiens; RNA-Seq
Sample: SRS12245603
BioProject: PRJNA815049
BioSample: SAMN26581312
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300994 107715219 32314565700 12460.36 SK-KO5-10R-2_R1_001.fastq.gz, SK-KO5-10R-2_R2_001.fastq.gz, SRR183009… SRA
SRX14438497 SRP363599 RNA-Seq PAIRED
GSM5946452: Total_RNAseq_22Rv1_sgNONO_4hours_SKBG1-R_Replicate1; Homo sapiens; RNA-Seq
Sample: SRS12245604
BioProject: PRJNA815049
BioSample: SAMN26581313
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300993 120075720 36022716000 13776.47 SK-KO5-10R-1_R1_001.fastq.gz, SK-KO5-10R-1_R2_001.fastq.gz, SRR183009… SRA
SRX14438498 SRP363599 RNA-Seq PAIRED
GSM5946451: Total_RNAseq_22Rv1_sgNONO_4hours_DMSO_Replicate3; Homo sapiens; RNA-Seq
Sample: SRS12245605
BioProject: PRJNA815049
BioSample: SAMN26581314
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300992 87023019 26106905700 10071.33 SK-KO5-D3_R1_001.fastq.gz, SK-KO5-D3_R2_001.fastq.gz, SRR18300992, SR… SRA
SRX14438499 SRP363599 RNA-Seq PAIRED
GSM5946450: Total_RNAseq_22Rv1_sgNONO_4hours_DMSO_Replicate2; Homo sapiens; RNA-Seq
Sample: SRS12245606
BioProject: PRJNA815049
BioSample: SAMN26581315
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300991 98962814 29688844200 11397.2 SK-KO5-D2_R1_001.fastq.gz, SK-KO5-D2_R2_001.fastq.gz, SRR18300991, SR… SRA
SRX14438500 SRP363599 RNA-Seq PAIRED
GSM5946449: Total_RNAseq_22Rv1_sgNONO_4hours_DMSO_Replicate1; Homo sapiens; RNA-Seq
Sample: SRS12245607
BioProject: PRJNA815049
BioSample: SAMN26581316
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300990 96131222 28839366600 11062.74 SK-KO5-D1_R1_001.fastq.gz, SK-KO5-D1_R2_001.fastq.gz, SRR18300990, SR… SRA
SRX14438501 SRP363599 RNA-Seq PAIRED
GSM5946456: Total_RNAseq_22Rv1_sgNONO_4hours_SKBG1-S_Replicate2; Homo sapiens; RNA-Seq
Sample: SRS12245608
BioProject: PRJNA815049
BioSample: SAMN26581309
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300989 110589010 33176703000 12781.27 SK-KO5-10S-2_R1_001.fastq.gz, SK-KO5-10S-2_R2_001.fastq.gz, SRR183009… SRA
SRX14438502 SRP363599 RNA-Seq PAIRED
GSM5946457: Total_RNAseq_22Rv1_sgNONO_4hours_SKBG1-S_Replicate3; Homo sapiens; RNA-Seq
Sample: SRS12245609
BioProject: PRJNA815049
BioSample: SAMN26581308
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Prostate carcinoma
cell line: 22Rv1
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Prostate carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300988 105134923 31540476900 12090.18 SK-KO5-10S-3_R1_001.fastq.gz, SK-KO5-10S-3_R2_001.fastq.gz, SRR183009… SRA
SRX14438503 SRP363599 RNA-Seq PAIRED
GSM5946458: Total_RNAseq_MCF7_sgControl_4hours_DMSO_Replicate1; Homo sapiens; RNA-Seq
Sample: SRS12245611
BioProject: PRJNA815049
BioSample: SAMN26581307
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300987 23524468 7057340400 2199.83 Ctrl2DMSO1_R1_001.fastq.gz, Ctrl2DMSO1_R2_001.fastq.gz, SRR18300987, … SRA
SRX14438504 SRP363599 RNA-Seq PAIRED
GSM5946459: Total_RNAseq_MCF7_sgControl_4hours_DMSO_Replicate2; Homo sapiens; RNA-Seq
Sample: SRS12245610
BioProject: PRJNA815049
BioSample: SAMN26581306
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300986 34148494 10244548200 3201.12 Ctrl2DMSO2_R1_001.fastq.gz, Ctrl2DMSO2_R2_001.fastq.gz, SRR18300986, … SRA
SRX14438505 SRP363599 RNA-Seq PAIRED
GSM5946462: Total_RNAseq_MCF7_sgControl_4hours_SKBG1-R_Replicate2; Homo sapiens; RNA-Seq
Sample: SRS12245612
BioProject: PRJNA815049
BioSample: SAMN26581303
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300985 40913039 12273911700 3860.21 Ctrl210R2_R1_001.fastq.gz, Ctrl210R2_R2_001.fastq.gz, SRR18300985, SR… SRA
SRX14438506 SRP363599 RNA-Seq PAIRED
GSM5946463: Total_RNAseq_MCF7_sgControl_4hours_SKBG1-R_Replicate3; Homo sapiens; RNA-Seq
Sample: SRS12245613
BioProject: PRJNA815049
BioSample: SAMN26581302
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300984 38512986 11553895800 3631.58 Ctrl210R3_R1_001.fastq.gz, Ctrl210R3_R2_001.fastq.gz, SRR18300984, SR… SRA
SRX14438507 SRP363599 RNA-Seq PAIRED
GSM5946464: Total_RNAseq_MCF7_sgControl_4hours_SKBG1-S_Replicate1; Homo sapiens; RNA-Seq
Sample: SRS12245614
BioProject: PRJNA815049
BioSample: SAMN26581301
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300983 51017475 15305242500 4841.34 Ctrl210S1_R1_001.fastq.gz, Ctrl210S1_R2_001.fastq.gz, SRR18300983, SR… SRA
SRX14438508 SRP363599 RNA-Seq PAIRED
GSM5946465: Total_RNAseq_MCF7_sgControl_4hours_SKBG1-S_Replicate2; Homo sapiens; RNA-Seq
Sample: SRS12245615
BioProject: PRJNA815049
BioSample: SAMN26581300
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300982 36579439 10973831700 3483.86 Ctrl210S2_R1_001.fastq.gz, Ctrl210S2_R2_001.fastq.gz, SRR18300982, SR… SRA
SRX14438509 SRP363599 RNA-Seq PAIRED
GSM5946466: Total_RNAseq_MCF7_sgControl_4hours_SKBG1-S_Replicate3; Homo sapiens; RNA-Seq
Sample: SRS12245616
BioProject: PRJNA815049
BioSample: SAMN26581299
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300981 42857483 12857244900 4014.65 Ctrl210S3_R1_001.fastq.gz, Ctrl210S3_R2_001.fastq.gz, SRR18300981, SR… SRA
SRX14438510 SRP363599 RNA-Seq PAIRED
GSM5946467: Total_RNAseq_MCF7_sgNONO_4hours_DMSO_Replicate1; Homo sapiens; RNA-Seq
Sample: SRS12245617
BioProject: PRJNA815049
BioSample: SAMN26581298
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300980 69275095 20782528500 6520.98 KO3DMSO1_R1_001.fastq.gz, KO3DMSO1_R2_001.fastq.gz, SRR18300980, SRR1… SRA
SRX14438511 SRP363599 RNA-Seq PAIRED
GSM5946468: Total_RNAseq_MCF7_sgNONO_4hours_DMSO_Replicate2; Homo sapiens; RNA-Seq
Sample: SRS12245618
BioProject: PRJNA815049
BioSample: SAMN26581297
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300979 36165020 10849506000 3318.85 KO3DMSO2_R1_001.fastq.gz, KO3DMSO2_R2_001.fastq.gz, SRR18300979, SRR1… SRA
SRX14438512 SRP363599 RNA-Seq PAIRED
GSM5946469: Total_RNAseq_MCF7_sgNONO_4hours_DMSO_Replicate3; Homo sapiens; RNA-Seq
Sample: SRS12245619
BioProject: PRJNA815049
BioSample: SAMN26581296
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300978 44606114 13381834200 4221.14 KO3DMSO3_R1_001.fastq.gz, KO3DMSO3_R2_001.fastq.gz, SRR18300978, SRR1… SRA
SRX14438513 SRP363599 RNA-Seq PAIRED
GSM5946470: Total_RNAseq_MCF7_sgNONO_4hours_SKBG1-R_Replicate1; Homo sapiens; RNA-Seq
Sample: SRS12245620
BioProject: PRJNA815049
BioSample: SAMN26581295
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300977 45803547 13741064100 4334.15 KO310R1_R1_001.fastq.gz, KO310R1_R2_001.fastq.gz, SRR18300977, SRR183… SRA
SRX14438514 SRP363599 RNA-Seq PAIRED
GSM5946460: Total_RNAseq_MCF7_sgControl_4hours_DMSO_Replicate3; Homo sapiens; RNA-Seq
Sample: SRS12245621
BioProject: PRJNA815049
BioSample: SAMN26581305
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300976 34434480 10330344000 3233.83 Ctrl2DMSO3_R1_001.fastq.gz, Ctrl2DMSO3_R2_001.fastq.gz, SRR18300976, … SRA
SRX14438515 SRP363599 RNA-Seq PAIRED
GSM5946461: Total_RNAseq_MCF7_sgControl_4hours_SKBG1-R_Replicate1; Homo sapiens; RNA-Seq
Sample: SRS12245622
BioProject: PRJNA815049
BioSample: SAMN26581304
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgControl
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300975 34867127 10460138100 3268.66 Ctrl210R1_R1_001.fastq.gz, Ctrl210R1_R2_001.fastq.gz, SRR18300975, SR… SRA
SRX14438516 SRP363599 RNA-Seq PAIRED
GSM5946473: Total_RNAseq_MCF7_sgNONO_4hours_SKBG1-S_Replicate1; Homo sapiens; RNA-Seq
Sample: SRS12245623
BioProject: PRJNA815049
BioSample: SAMN26581292
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300974 45881415 13764424500 4363.88 KO310S1_R1_001.fastq.gz, KO310S1_R2_001.fastq.gz, SRR18300974, SRR183… SRA
SRX14438517 SRP363599 RNA-Seq PAIRED
GSM5946474: Total_RNAseq_MCF7_sgNONO_4hours_SKBG1-S_Replicate2; Homo sapiens; RNA-Seq
Sample: SRS12245624
BioProject: PRJNA815049
BioSample: SAMN26581291
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300973 38701237 11610371100 3615.32 KO310S2_R1_001.fastq.gz, KO310S2_R2_001.fastq.gz, SRR18300973, SRR183… SRA
SRX14438518 SRP363599 RNA-Seq PAIRED
GSM5946475: Total_RNAseq_MCF7_sgNONO_4hours_SKBG1-S_Replicate3; Homo sapiens; RNA-Seq
Sample: SRS12245625
BioProject: PRJNA815049
BioSample: SAMN26581290
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300972 37944666 11383399800 3544.13 KO310S3_R1_001.fastq.gz, KO310S3_R2_001.fastq.gz, SRR18300972, SRR183… SRA
SRX14438519 SRP363599 RNA-Seq PAIRED
GSM5946471: Total_RNAseq_MCF7_sgNONO_4hours_SKBG1-R_Replicate2; Homo sapiens; RNA-Seq
Sample: SRS12245626
BioProject: PRJNA815049
BioSample: SAMN26581294
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300971 47750432 14325129600 4532.51 KO310R2_R1_001.fastq.gz, KO310R2_R2_001.fastq.gz, SRR18300971, SRR183… SRA
SRX14438520 SRP363599 RNA-Seq PAIRED
GSM5946472: Total_RNAseq_MCF7_sgNONO_4hours_SKBG1-R_Replicate3; Homo sapiens; RNA-Seq
Sample: SRS12245627
BioProject: PRJNA815049
BioSample: SAMN26581293
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: Breast carcinoma
cell line: MCF7
sg: sgNONO
timepoint: 4 hours
rna library prep: Total mRNA
Original files (1)
Breast carcinoma
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR18300970 50368238 15110471400 4770.49 KO310R3_R1_001.fastq.gz, KO310R3_R2_001.fastq.gz, SRR18300970, SRR183… SRA

Linked Publications (1)

Remodeling oncogenic transcriptomes by small molecules targeting NONO.
Nature chemical biology · 2023

Data Files (39)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
— Ctrl210R1_R1_001.fastq.gz RNA-Seq 3.2 GB link
— Ctrl210R2_R1_001.fastq.gz RNA-Seq 3.8 GB link
— Ctrl210R3_R1_001.fastq.gz RNA-Seq 3.5 GB link
— Ctrl210S1_R1_001.fastq.gz RNA-Seq 4.7 GB link
— Ctrl210S2_R1_001.fastq.gz RNA-Seq 3.4 GB link
— Ctrl210S3_R1_001.fastq.gz RNA-Seq 3.9 GB link
— Ctrl2DMSO1_R1_001.fastq.gz RNA-Seq 2.1 GB link
— Ctrl2DMSO2_R1_001.fastq.gz RNA-Seq 3.1 GB link
— Ctrl2DMSO3_R1_001.fastq.gz RNA-Seq 3.2 GB link
— KO310R1_R1_001.fastq.gz RNA-Seq 4.2 GB link
— KO310R2_R1_001.fastq.gz RNA-Seq 4.4 GB link
— KO310R3_R1_001.fastq.gz RNA-Seq 4.7 GB link
— KO310S1_R1_001.fastq.gz RNA-Seq 4.3 GB link
— KO310S2_R1_001.fastq.gz RNA-Seq 3.5 GB link
— KO310S3_R1_001.fastq.gz RNA-Seq 3.5 GB link
— KO3DMSO1_R1_001.fastq.gz RNA-Seq 6.4 GB link
— KO3DMSO2_R1_001.fastq.gz RNA-Seq 3.2 GB link
— KO3DMSO3_R1_001.fastq.gz RNA-Seq 4.1 GB link
— SK-C1-10R-1_R1_001.fastq.gz RNA-Seq 8.5 GB link
— SK-C1-10R-2_R1_001.fastq.gz RNA-Seq 11.5 GB link
— SK-C1-10R-3_R1_001.fastq.gz RNA-Seq 11.8 GB link
— SK-C1-10S-1_R1_001.fastq.gz RNA-Seq 10.8 GB link
— SK-C1-10S-2_R1_001.fastq.gz RNA-Seq 11.7 GB link
— SK-C1-10S-3_R1_001.fastq.gz RNA-Seq 11.2 GB link
— SK-C1-D1_R1_001.fastq.gz RNA-Seq 10.7 GB link
— SK-C1-D2_R1_001.fastq.gz RNA-Seq 10.8 GB link
— SK-C1-D3_R1_001.fastq.gz RNA-Seq 10.4 GB link
— SK-KO5-10R-1_R1_001.fastq.gz RNA-Seq 13.5 GB link
— SK-KO5-10R-2_R1_001.fastq.gz RNA-Seq 12.2 GB link
— SK-KO5-10R-3_R1_001.fastq.gz RNA-Seq 11.4 GB link
— SK-KO5-10S-1_R1_001.fastq.gz RNA-Seq 11.6 GB link
— SK-KO5-10S-1_R1_001.fastq.gz RNA-Seq 11.6 GB link
— SK-KO5-10S-2_R1_001.fastq.gz RNA-Seq 12.5 GB link
— SK-KO5-10S-3_R1_001.fastq.gz RNA-Seq 11.8 GB link
— SK-KO5-D1_R1_001.fastq.gz RNA-Seq 10.8 GB link
— SK-KO5-D2_R1_001.fastq.gz RNA-Seq 11.1 GB link
— SK-KO5-D3_R1_001.fastq.gz RNA-Seq 9.8 GB link
— SRR18300972.lite RNA-Seq 3.5 GB link
— SRR18300997.lite RNA-Seq 11.5 GB link