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GSE102497

GSE GEO
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Systematic discovery of RNA binding proteins that control microRNA processing

Organism: Homo sapiens
Platform: GPL20301
Samples: 68
Experiment Types:
Non-coding RNA profiling by high throughput sequencing
Submitted: Aug 10 2017
Last Updated: Jul 25 2021
Status: Public on Apr 11 2018
Contact: Gene,,Yeo (UCSD)

Relations

BioProject: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA397894 SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRP115215

Summary

We report the modulation of miRNA processing by several RNA binding proteins through the implementation of a high-throughput computational screen of eCLIP data

Overall Design

Examinaiton of eCLIP data for enrichment at miRNA loci, modulation of candidate RBPs and small RNA-seq and biochemical validation

Analysis (5 steps)

View Data Processing
Processing steps for GSE102497
  1. Sequencing reads from small RNA-seq libraries were first trimmed of adapters using cutadapt
  2. Reads were then mapped against a database of repetitive elements derived from RepBase18.05.
  3. Bowtie version 1.0.0 with parameters -S -q -p 16 -e 100 -l 20 was used to align reads against an index generated from Repbase sequences (Langmead et al., 2009).
  4. Reads not mapped to Repbase sequences were aligned to the hg19 genome (UCSC assembly) using bowtie version 1.1.1 with parameters -p 8 -k 1 -m 10 -l 25 --best --chunkmbs 128
  5. counts of reads for each miRNA were calculated from featureCounts using miRBase annotations

Supplementary Files (3)

GSE102497_RAW.tar Download
GSE102497_featureCounts_hg19_mirnas_only_mirbase_features.txt.gz Download
GSE102497_featureCounts_hg19_mirnas_only_mirbase_features_batch2.txt.gz Download
GEO Samples (68)
GSM2739595 GSM2739596 GSM2739597 GSM2739598 GSM2739599 GSM2739600 GSM2739601 GSM2739602 GSM2739603 GSM2739604 GSM2739605 GSM2739606 GSM2739607 GSM2739608 GSM2739609 GSM2739610 GSM2739611 GSM2739612 GSM2739613 GSM2739614 GSM2739615 GSM2739616 GSM2739617 GSM2739618 GSM2739619 GSM2739620 GSM2739621 GSM2739622 GSM2739623 GSM2739624 GSM2739625 GSM2739626 GSM2739627 GSM2739628 GSM2739629 GSM2739630 GSM2739631 GSM2739632 GSM2739633 GSM2739634 GSM2739635 GSM2739636 GSM2739637 GSM2739638 GSM2739639 GSM2739640 GSM2739641 GSM2739642 GSM2739643 GSM2739644 GSM2739645 GSM2739646 GSM2739647 GSM2739648 GSM2739649 GSM2739650 GSM2739651 GSM2739652 GSM2739653 GSM2739654 GSM2739655 GSM2739656 GSM2739657 GSM2739658 GSM2739659 GSM2739660 GSM2739661 GSM2739662

Dataset Citations (1)

Systematic Discovery of RNA Binding Proteins that Regulate MicroRNA Levels.
PMID 29547715 · 2018 · Molecular cell
Julia K Nussbacher, Gene W Yeo

SRA Experiments (68) and Runs (68)

Total: 11158 MB
SRX3086035 SRP115215 miRNA-Seq SINGLE
GSM2739595: bud13 knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423553
BioProject: PRJNA397894
BioSample: SAMN07490863
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA bud13
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925665 6910305 345515250 113.5 b8p42_hepg2_sh_bud13_r1_S24_L005_R1_001.fastq.gz, SRR5925665, SRR5925… SRA
SRX3086036 SRP115215 miRNA-Seq SINGLE
GSM2739596: bud13 knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423554
BioProject: PRJNA397894
BioSample: SAMN07490862
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA bud13
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925666 8141759 407087950 133.71 b8p42_hepg2_sh_bud13_r2_S36_L005_R1_001.fastq.gz, SRR5925666, SRR5925… SRA
SRX3086037 SRP115215 miRNA-Seq SINGLE
GSM2739597: non-targeting control hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423555
BioProject: PRJNA397894
BioSample: SAMN07490861
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA non-targeting
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925667 7307360 365368000 120.4 b8p42_hepg2_sh_control1_r1_S11_L005_R1_001.fastq.gz, SRR5925667, SRR5… SRA
SRX3086038 SRP115215 miRNA-Seq SINGLE
GSM2739598: non-targeting control hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423556
BioProject: PRJNA397894
BioSample: SAMN07490860
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA non-targeting
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925668 10889143 544457150 179.79 b8p42_hepg2_sh_control1_r2_S26_L005_R1_001.fastq.gz, SRR5925668, SRR5… SRA
SRX3086039 SRP115215 miRNA-Seq SINGLE
GSM2739599: non-targeting control hepg2 replicate 3; Homo sapiens; miRNA-Seq
Sample: SRS2423557
BioProject: PRJNA397894
BioSample: SAMN07490859
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA non-targeting
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925669 7157017 357850850 118.18 b8p42_hepg2_sh_control2_r1_S33_L005_R1_001.fastq.gz, SRR5925669, SRR5… SRA
SRX3086040 SRP115215 miRNA-Seq SINGLE
GSM2739600: non-targeting control hepg2 replicate 4; Homo sapiens; miRNA-Seq
Sample: SRS2423559
BioProject: PRJNA397894
BioSample: SAMN07490858
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA non-targeting
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925670 6507929 325396450 108.66 b8p42_hepg2_sh_control2_r2_S19_L005_R1_001.fastq.gz, SRR5925670, SRR5… SRA
SRX3086041 SRP115215 miRNA-Seq SINGLE
GSM2739601: ddx3x knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423558
BioProject: PRJNA397894
BioSample: SAMN07490857
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA ddx3x
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925671 8206917 410345850 135.45 b8p42_hepg2_sh_ddx3x_r1_S15_L005_R1_001.fastq.gz, SRR5925671, SRR5925… SRA
SRX3086042 SRP115215 miRNA-Seq SINGLE
GSM2739602: ddx3x knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423560
BioProject: PRJNA397894
BioSample: SAMN07490856
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA ddx3x
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925672 7995398 399769900 131.64 b8p42_hepg2_sh_ddx3x_r2_S29_L005_R1_001.fastq.gz, SRR5925672, SRR5925… SRA
SRX3086043 SRP115215 miRNA-Seq SINGLE
GSM2739603: dkc1 knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423561
BioProject: PRJNA397894
BioSample: SAMN07490855
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA dkc1
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925673 10146021 507301050 167.69 b8p42_hepg2_sh_dkc1_r1_S9_L005_R1_001.fastq.gz, SRR5925673, SRR592567… SRA
SRX3086044 SRP115215 miRNA-Seq SINGLE
GSM2739604: dkc1 knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423562
BioProject: PRJNA397894
BioSample: SAMN07490915
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA dkc1
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925674 4339906 216995300 70.33 b8p42_hepg2_sh_dkc1_r2_S14_L005_R1_001.fastq.gz, SRR5925674, SRR59256… SRA
SRX3086045 SRP115215 miRNA-Seq SINGLE
GSM2739605: larp4 knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423564
BioProject: PRJNA397894
BioSample: SAMN07490914
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA larp4
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925675 7064772 353238600 117.76 b8p42_hepg2_sh_larp4_r1_S20_L005_R1_001.fastq.gz, SRR5925675, SRR5925… SRA
SRX3086046 SRP115215 miRNA-Seq SINGLE
GSM2739606: larp4 knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423563
BioProject: PRJNA397894
BioSample: SAMN07490913
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA larp4
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925676 9364156 468207800 154.47 b8p42_hepg2_sh_larp4_r2_S35_L005_R1_001.fastq.gz, SRR5925676, SRR5925… SRA
SRX3086047 SRP115215 miRNA-Seq SINGLE
GSM2739607: larp7 knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423565
BioProject: PRJNA397894
BioSample: SAMN07490912
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA larp7
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925677 6564635 328231750 107.5 b8p42_hepg2_sh_larp7_r1_S39_L005_R1_001.fastq.gz, SRR5925677, SRR5925… SRA
SRX3086048 SRP115215 miRNA-Seq SINGLE
GSM2739608: larp7 knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423567
BioProject: PRJNA397894
BioSample: SAMN07490911
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA larp7
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925678 7657386 382869300 125.1 b8p42_hepg2_sh_larp7_r2_S38_L005_R1_001.fastq.gz, SRR5925678, SRR5925… SRA
SRX3086049 SRP115215 miRNA-Seq SINGLE
GSM2739609: lin28b knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423568
BioProject: PRJNA397894
BioSample: SAMN07490878
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA lin28b
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925679 8317988 415899400 137.0 b8p42_hepg2_sh_lin28b_r1_S16_L005_R1_001.fastq.gz, SRR5925679, SRR592… SRA
SRX3086050 SRP115215 miRNA-Seq SINGLE
GSM2739610: lin28b knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423566
BioProject: PRJNA397894
BioSample: SAMN07490877
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA lin28b
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925680 12578680 628934000 207.36 b8p42_hepg2_sh_lin28b_r2_S44_L005_R1_001.fastq.gz, SRR5925680, SRR592… SRA
SRX3086051 SRP115215 miRNA-Seq SINGLE
GSM2739611: rbfox2 knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423570
BioProject: PRJNA397894
BioSample: SAMN07490876
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA rbfox2
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925681 8407579 420378950 135.82 b8p42_hepg2_sh_rbfox2_r1_S13_L005_R1_001.fastq.gz, SRR5925681, SRR592… SRA
SRX3086052 SRP115215 miRNA-Seq SINGLE
GSM2739612: rbfox2 knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423569
BioProject: PRJNA397894
BioSample: SAMN07490875
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA rbfox2
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925682 7178615 358930750 117.11 b8p42_hepg2_sh_rbfox2_r2_S40_L005_R1_001.fastq.gz, SRR5925682, SRR592… SRA
SRX3086053 SRP115215 miRNA-Seq SINGLE
GSM2739613: sltm knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423571
BioProject: PRJNA397894
BioSample: SAMN07490874
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA sltm
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925683 7658406 382920300 127.16 b8p42_hepg2_sh_sltm_r1_S21_L005_R1_001.fastq.gz, SRR5925683, SRR59256… SRA
SRX3086054 SRP115215 miRNA-Seq SINGLE
GSM2739614: sltm knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423572
BioProject: PRJNA397894
BioSample: SAMN07490873
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA sltm
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925684 6234398 311719900 102.05 b8p42_hepg2_sh_sltm_r2_S37_L005_R1_001.fastq.gz, SRR5925684, SRR59256… SRA
SRX3086055 SRP115215 miRNA-Seq SINGLE
GSM2739615: bud13 knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423573
BioProject: PRJNA397894
BioSample: SAMN07490872
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA bud13
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925685 7020924 351046200 111.73 b8p42_k562_sh_bud13_r1_S27_L005_R1_001.fastq.gz, SRR5925685, SRR59256… SRA
SRX3086056 SRP115215 miRNA-Seq SINGLE
GSM2739616: bud13 knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423574
BioProject: PRJNA397894
BioSample: SAMN07490871
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA bud13
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925686 6603618 330180900 105.59 b8p42_k562_sh_bud13_r2_S25_L005_R1_001.fastq.gz, SRR5925686, SRR59256… SRA
SRX3086057 SRP115215 miRNA-Seq SINGLE
GSM2739617: non-targeting control k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423575
BioProject: PRJNA397894
BioSample: SAMN07490870
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA non-targeting
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925687 5628589 281429450 91.06 b8p42_k562_sh_control1_r1_S22_L005_R1_001.fastq.gz, SRR5925687, SRR59… SRA
SRX3086058 SRP115215 miRNA-Seq SINGLE
GSM2739618: non-targeting control k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423577
BioProject: PRJNA397894
BioSample: SAMN07490869
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA non-targeting
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925688 6124284 306214200 97.86 b8p42_k562_sh_control1_r2_S45_L005_R1_001.fastq.gz, SRR5925688, SRR59… SRA
SRX3086059 SRP115215 miRNA-Seq SINGLE
GSM2739619: non-targeting control k562 replicate 3; Homo sapiens; miRNA-Seq
Sample: SRS2423576
BioProject: PRJNA397894
BioSample: SAMN07490868
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA non-targeting
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925689 6443839 322191950 104.05 b8p42_k562_sh_control2_r1_S41_L005_R1_001.fastq.gz, SRR5925689, SRR59… SRA
SRX3086060 SRP115215 miRNA-Seq SINGLE
GSM2739620: non-targeting control k562 replicate 4; Homo sapiens; miRNA-Seq
Sample: SRS2423578
BioProject: PRJNA397894
BioSample: SAMN07490867
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA non-targeting
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925690 7002487 350124350 113.97 b8p42_k562_sh_control2_r2_S42_L005_R1_001.fastq.gz, SRR5925690, SRR59… SRA
SRX3086061 SRP115215 miRNA-Seq SINGLE
GSM2739621: ddx3x knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423580
BioProject: PRJNA397894
BioSample: SAMN07490866
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA ddx3x
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925691 6489716 324485800 103.83 b8p42_k562_sh_ddx3x_r1_S47_L005_R1_001.fastq.gz, SRR5925691, SRR59256… SRA
SRX3086062 SRP115215 miRNA-Seq SINGLE
GSM2739622: ddx3x knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423581
BioProject: PRJNA397894
BioSample: SAMN07490865
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA ddx3x
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925692 7062570 353128500 112.02 b8p42_k562_sh_ddx3x_r2_S12_L005_R1_001.fastq.gz, SRR5925692, SRR59256… SRA
SRX3086063 SRP115215 miRNA-Seq SINGLE
GSM2739623: dkc1 knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423579
BioProject: PRJNA397894
BioSample: SAMN07490864
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA dkc1
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925693 6242911 312145550 100.23 b8p42_k562_sh_dkc1_r1_S23_L005_R1_001.fastq.gz, SRR5925693, SRR592569… SRA
SRX3086064 SRP115215 miRNA-Seq SINGLE
GSM2739624: dkc1 knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423582
BioProject: PRJNA397894
BioSample: SAMN07490910
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA dkc1
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925694 6475638 323781900 104.45 b8p42_k562_sh_dkc1_r2_S10_L005_R1_001.fastq.gz, SRR5925694, SRR592569… SRA
SRX3086065 SRP115215 miRNA-Seq SINGLE
GSM2739625: larp4 knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423583
BioProject: PRJNA397894
BioSample: SAMN07490909
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA larp4
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925695 6511367 325568350 103.35 b8p42_k562_sh_larp4_r1_S48_L005_R1_001.fastq.gz, SRR5925695, SRR59256… SRA
SRX3086066 SRP115215 miRNA-Seq SINGLE
GSM2739626: larp4 knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423584
BioProject: PRJNA397894
BioSample: SAMN07490908
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA larp4
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925696 6546154 327307700 103.86 b8p42_k562_sh_larp4_r2_S17_L005_R1_001.fastq.gz, SRR5925696, SRR59256… SRA
SRX3086067 SRP115215 miRNA-Seq SINGLE
GSM2739627: larp7 knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423585
BioProject: PRJNA397894
BioSample: SAMN07490907
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA larp7
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925697 13195094 659754700 213.89 b8p42_k562_sh_larp7_r1_S28_L005_R1_001.fastq.gz, SRR5925697, SRR59256… SRA
SRX3086068 SRP115215 miRNA-Seq SINGLE
GSM2739628: larp7 knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423586
BioProject: PRJNA397894
BioSample: SAMN07490906
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA larp7
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925698 6368593 318429650 101.62 b8p42_k562_sh_larp7_r2_S46_L005_R1_001.fastq.gz, SRR5925698, SRR59256… SRA
SRX3086069 SRP115215 miRNA-Seq SINGLE
GSM2739629: lin28b knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423587
BioProject: PRJNA397894
BioSample: SAMN07490905
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA lin28b
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925699 19983327 999166350 321.07 b8p42_k562_sh_lin28b_r1_S30_L005_R1_001.fastq.gz, SRR5925699, SRR5925… SRA
SRX3086070 SRP115215 miRNA-Seq SINGLE
GSM2739630: lin28b knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423588
BioProject: PRJNA397894
BioSample: SAMN07490904
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA lin28b
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925700 5976846 298842300 95.87 b8p42_k562_sh_lin28b_r2_S18_L005_R1_001.fastq.gz, SRR5925700, SRR5925… SRA
SRX3086071 SRP115215 miRNA-Seq SINGLE
GSM2739631: rbfox2 knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423589
BioProject: PRJNA397894
BioSample: SAMN07490903
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA rbfox2
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925701 16726287 836314350 267.24 b8p42_k562_sh_rbfox2_r1_S31_L005_R1_001.fastq.gz, SRR5925701, SRR5925… SRA
SRX3086072 SRP115215 miRNA-Seq SINGLE
GSM2739632: rbfox2 knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423591
BioProject: PRJNA397894
BioSample: SAMN07490902
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA rbfox2
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925702 6509704 325485200 106.96 b8p42_k562_sh_rbfox2_r2_S34_L005_R1_001.fastq.gz, SRR5925702, SRR5925… SRA
SRX3086073 SRP115215 miRNA-Seq SINGLE
GSM2739633: sltm knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423590
BioProject: PRJNA397894
BioSample: SAMN07490901
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA sltm
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925703 6461300 323065000 104.04 b8p42_k562_sh_sltm_r1_S43_L005_R1_001.fastq.gz, SRR5925703, SRR592570… SRA
SRX3086074 SRP115215 miRNA-Seq SINGLE
GSM2739634: sltm knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423592
BioProject: PRJNA397894
BioSample: SAMN07490900
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA sltm
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925704 30290842 1514542100 481.87 b8p42_k562_sh_sltm_r2_S32_L005_R1_001.fastq.gz, SRR5925704, SRR592570… SRA
SRX3086075 SRP115215 miRNA-Seq SINGLE
GSM2739635: non-targeting control hepg2 replicate 1 set 2; Homo sapiens; miRNA-Seq
Sample: SRS2423593
BioProject: PRJNA397894
BioSample: SAMN07490899
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA non-targeting
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925705 20872952 1043647600 337.3 b8p59_smallrnaseq_hepg2_sh_control_1_S17_L008_R1_001.fastq.gz, SRR592… SRA
SRX3086076 SRP115215 miRNA-Seq SINGLE
GSM2739636: non-targeting control hepg2 replicate 2 set 2; Homo sapiens; miRNA-Seq
Sample: SRS2423594
BioProject: PRJNA397894
BioSample: SAMN07490898
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA non-targeting
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925706 10575607 528780350 172.01 b8p59_smallrnaseq_hepg2_sh_control_2_S22_L008_R1_001.fastq.gz, SRR592… SRA
SRX3086077 SRP115215 miRNA-Seq SINGLE
GSM2739637: non-targeting control hepg2 replicate 3 set 2; Homo sapiens; miRNA-Seq
Sample: SRS2423596
BioProject: PRJNA397894
BioSample: SAMN07490897
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA non-targeting
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925707 14880828 744041400 241.97 b8p59_smallrnaseq_hepg2_sh_control_3_S19_L008_R1_001.fastq.gz, SRR592… SRA
SRX3086078 SRP115215 miRNA-Seq SINGLE
GSM2739638: non-targeting control hepg2 replicate 4 set 2; Homo sapiens; miRNA-Seq
Sample: SRS2423595
BioProject: PRJNA397894
BioSample: SAMN07490896
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA non-targeting
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925708 12974233 648711650 212.91 b8p59_smallrnaseq_hepg2_sh_control_4_S24_L008_R1_001.fastq.gz, SRR592… SRA
SRX3086079 SRP115215 miRNA-Seq SINGLE
GSM2739639: hnrnpm knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423597
BioProject: PRJNA397894
BioSample: SAMN07490895
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA hnrnpm
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925709 11184109 559205450 180.72 b8p59_smallrnaseq_hepg2_sh_hnrnpm_1_S8_L008_R1_001.fastq.gz, SRR59257… SRA
SRX3086080 SRP115215 miRNA-Seq SINGLE
GSM2739640: hnrnpm knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423598
BioProject: PRJNA397894
BioSample: SAMN07490894
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA hnrnpm
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925710 42561 2128050 0.8 b8p59_smallrnaseq_hepg2_sh_hnrnpm_2_S9_L008_R1_001.fastq.gz, SRR59257… SRA
SRX3086081 SRP115215 miRNA-Seq SINGLE
GSM2739641: ilf3 knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423599
BioProject: PRJNA397894
BioSample: SAMN07490893
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA ilf3
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925711 19586077 979303850 316.97 b8p59_smallrnaseq_hepg2_sh_ilf3_1_S2_L008_R1_001.fastq.gz, SRR5925711… SRA
SRX3086082 SRP115215 miRNA-Seq SINGLE
GSM2739642: ilf3 knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423600
BioProject: PRJNA397894
BioSample: SAMN07490892
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA ilf3
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925712 14110565 705528250 232.06 b8p59_smallrnaseq_hepg2_sh_ilf3_2_S20_L008_R1_001.fastq.gz, SRR592571… SRA
SRX3086083 SRP115215 miRNA-Seq SINGLE
GSM2739643: prpf8 knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423601
BioProject: PRJNA397894
BioSample: SAMN07490891
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA prpf8
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925713 19085081 954254050 309.05 b8p59_smallrnaseq_hepg2_sh_prpf8_1_S18_L008_R1_001.fastq.gz, SRR59257… SRA
SRX3086084 SRP115215 miRNA-Seq SINGLE
GSM2739644: prpf8 knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423602
BioProject: PRJNA397894
BioSample: SAMN07490890
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA prpf8
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925714 14708595 735429750 240.78 b8p59_smallrnaseq_hepg2_sh_prpf8_2_S16_L008_R1_001.fastq.gz, SRR59257… SRA
SRX3086085 SRP115215 miRNA-Seq SINGLE
GSM2739645: ptbp1 knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423603
BioProject: PRJNA397894
BioSample: SAMN07490889
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA ptbp1
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925715 13140922 657046100 213.22 b8p59_smallrnaseq_hepg2_sh_ptbp1_1_S4_L008_R1_001.fastq.gz, SRR592571… SRA
SRX3086086 SRP115215 miRNA-Seq SINGLE
GSM2739646: ptbp1 knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423605
BioProject: PRJNA397894
BioSample: SAMN07490888
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA ptbp1
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925716 11292937 564646850 184.34 b8p59_smallrnaseq_hepg2_sh_ptbp1_2_S5_L008_R1_001.fastq.gz, SRR592571… SRA
SRX3086087 SRP115215 miRNA-Seq SINGLE
GSM2739647: sf3b4 knockdown hepg2 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423604
BioProject: PRJNA397894
BioSample: SAMN07490887
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA sf3b4
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925717 16538594 826929700 270.5 b8p59_smallrnaseq_hepg2_sh_sf3b4_1_S6_L008_R1_001.fastq.gz, SRR592571… SRA
SRX3086088 SRP115215 miRNA-Seq SINGLE
GSM2739648: sf3b4 knockdown hepg2 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423606
BioProject: PRJNA397894
BioSample: SAMN07490921
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HepG2
lentivirus: shRNA sf3b4
cell line: HepG2
Original files (1)
HepG2
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925718 11377147 568857350 187.75 b8p59_smallrnaseq_hepg2_sh_sf3b4_2_S7_L008_R1_001.fastq.gz, SRR592571… SRA
SRX3086089 SRP115215 miRNA-Seq SINGLE
GSM2739649: non-targeting control k562 replicate 1 set 2; Homo sapiens; miRNA-Seq
Sample: SRS2423607
BioProject: PRJNA397894
BioSample: SAMN07490920
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA non-targeting
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925719 19919136 995956800 311.75 b8p59_smallrnaseq_k562_sh_control_1_S25_L008_R1_001.fastq.gz, SRR5925… SRA
SRX3086090 SRP115215 miRNA-Seq SINGLE
GSM2739650: non-targeting control k562 replicate 2 set 2; Homo sapiens; miRNA-Seq
Sample: SRS2423608
BioProject: PRJNA397894
BioSample: SAMN07490919
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA non-targeting
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925720 10681560 534078000 170.65 b8p59_smallrnaseq_k562_sh_control_2_S26_L008_R1_001.fastq.gz, SRR5925… SRA
SRX3086091 SRP115215 miRNA-Seq SINGLE
GSM2739651: non-targeting control k562 replicate 3 set 2; Homo sapiens; miRNA-Seq
Sample: SRS2423611
BioProject: PRJNA397894
BioSample: SAMN07490918
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA non-targeting
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925721 11431416 571570800 185.95 b8p59_smallrnaseq_k562_sh_control_3_S1_L008_R1_001.fastq.gz, SRR59257… SRA
SRX3086092 SRP115215 miRNA-Seq SINGLE
GSM2739652: non-targeting control k562 replicate 4 set 2; Homo sapiens; miRNA-Seq
Sample: SRS2423609
BioProject: PRJNA397894
BioSample: SAMN07490917
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA non-targeting
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925722 11085556 554277800 178.52 b8p59_smallrnaseq_k562_sh_control_4_S3_L008_R1_001.fastq.gz, SRR59257… SRA
SRX3086093 SRP115215 miRNA-Seq SINGLE
GSM2739653: hnrnpm knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423610
BioProject: PRJNA397894
BioSample: SAMN07490916
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA hnrnpm
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925723 10982669 549133450 181.23 b8p59_smallrnaseq_k562_sh_hnrnpm_1_S11_L008_R1_001.fastq.gz, SRR59257… SRA
SRX3086094 SRP115215 miRNA-Seq SINGLE
GSM2739654: hnrnpm knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423612
BioProject: PRJNA397894
BioSample: SAMN07490854
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA hnrnpm
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925724 10966048 548302400 178.79 b8p59_smallrnaseq_k562_sh_hnrnpm_2_S12_L008_R1_001.fastq.gz, SRR59257… SRA
SRX3086095 SRP115215 miRNA-Seq SINGLE
GSM2739655: ilf3 knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423614
BioProject: PRJNA397894
BioSample: SAMN07490886
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA ilf3
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925725 11193694 559684700 184.73 b8p59_smallrnaseq_k562_sh_ilf3_1_S13_L008_R1_001.fastq.gz, SRR5925725… SRA
SRX3086096 SRP115215 miRNA-Seq SINGLE
GSM2739656: ilf3 knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423613
BioProject: PRJNA397894
BioSample: SAMN07490885
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA ilf3
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925726 16259680 812984000 266.35 b8p59_smallrnaseq_k562_sh_ilf3_2_S14_L008_R1_001.fastq.gz, SRR5925726… SRA
SRX3086097 SRP115215 miRNA-Seq SINGLE
GSM2739657: prpf8 knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423615
BioProject: PRJNA397894
BioSample: SAMN07490884
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA prpf8
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925727 6260 313000 0.2 b8p59_smallrnaseq_k562_sh_prpf8_1_S10_L008_R1_001.fastq.gz, SRR592572… SRA
SRX3086098 SRP115215 miRNA-Seq SINGLE
GSM2739658: prpf8 knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423616
BioProject: PRJNA397894
BioSample: SAMN07490883
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA prpf8
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925728 11552696 577634800 188.26 b8p59_smallrnaseq_k562_sh_prpf8_2_S15_L008_R1_001.fastq.gz, SRR592572… SRA
SRX3086099 SRP115215 miRNA-Seq SINGLE
GSM2739659: ptbp1 knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423617
BioProject: PRJNA397894
BioSample: SAMN07490882
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA ptbp1
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925729 11496285 574814250 187.19 b8p59_smallrnaseq_k562_sh_ptbp1_1_S23_L008_R1_001.fastq.gz, SRR592572… SRA
SRX3086100 SRP115215 miRNA-Seq SINGLE
GSM2739660: ptbp1 knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423618
BioProject: PRJNA397894
BioSample: SAMN07490881
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA ptbp1
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925730 10470490 523524500 167.29 b8p59_smallrnaseq_k562_sh_ptbp1_2_S27_L008_R1_001.fastq.gz, SRR592573… SRA
SRX3086101 SRP115215 miRNA-Seq SINGLE
GSM2739661: sf3b4 knockdown k562 replicate 1; Homo sapiens; miRNA-Seq
Sample: SRS2423619
BioProject: PRJNA397894
BioSample: SAMN07490880
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA sf3b4
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925731 11122828 556141400 179.68 b8p59_smallrnaseq_k562_sh_sf3b4_1_S28_L008_R1_001.fastq.gz, SRR592573… SRA
SRX3086102 SRP115215 miRNA-Seq SINGLE
GSM2739662: sf3b4 knockdown k562 replicate 2; Homo sapiens; miRNA-Seq
Sample: SRS2423620
BioProject: PRJNA397894
BioSample: SAMN07490879
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: K562
lentivirus: shRNA sf3b4
cell line: K562
Original files (1)
K562
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR5925732 7530218 376510900 121.72 b8p59_smallrnaseq_k562_sh_sf3b4_2_S21_L008_R1_001.fastq.gz, SRR592573… SRA

Linked Publications (1)

Systematic Discovery of RNA Binding Proteins that Regulate MicroRNA Levels.
Molecular cell · 2018

Potentially Related Publications (1)

This accession was text-mined from the PMC full text of these publications. It may be referenced for comparison or reused from another study rather than generated for them.

Systematic Discovery of RNA Binding Proteins that Regulate MicroRNA Levels.
Molecular cell · 2018

Data Files (138)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
— b8p42_hepg2_sh_bud13_r1_S24_L005_R1_001.fastq.gz miRNA-Seq 113.5 MB link
— b8p42_hepg2_sh_bud13_r2_S36_L005_R1_001.fastq.gz miRNA-Seq 133.7 MB link
— b8p42_hepg2_sh_control1_r1_S11_L005_R1_001.fastq.gz miRNA-Seq 120.4 MB link
— b8p42_hepg2_sh_control1_r2_S26_L005_R1_001.fastq.gz miRNA-Seq 179.8 MB link
— b8p42_hepg2_sh_control2_r1_S33_L005_R1_001.fastq.gz miRNA-Seq 118.2 MB link
— b8p42_hepg2_sh_control2_r2_S19_L005_R1_001.fastq.gz miRNA-Seq 108.7 MB link
— b8p42_hepg2_sh_ddx3x_r1_S15_L005_R1_001.fastq.gz miRNA-Seq 135.4 MB link
— b8p42_hepg2_sh_ddx3x_r2_S29_L005_R1_001.fastq.gz miRNA-Seq 131.6 MB link
— b8p42_hepg2_sh_dkc1_r1_S9_L005_R1_001.fastq.gz miRNA-Seq 167.7 MB link
— b8p42_hepg2_sh_dkc1_r2_S14_L005_R1_001.fastq.gz miRNA-Seq 70.3 MB link
— b8p42_hepg2_sh_larp4_r1_S20_L005_R1_001.fastq.gz miRNA-Seq 117.8 MB link
— b8p42_hepg2_sh_larp4_r2_S35_L005_R1_001.fastq.gz miRNA-Seq 154.5 MB link
— b8p42_hepg2_sh_larp7_r1_S39_L005_R1_001.fastq.gz miRNA-Seq 107.5 MB link
— b8p42_hepg2_sh_larp7_r2_S38_L005_R1_001.fastq.gz miRNA-Seq 125.1 MB link
— b8p42_hepg2_sh_lin28b_r1_S16_L005_R1_001.fastq.gz miRNA-Seq 137.0 MB link
— b8p42_hepg2_sh_lin28b_r2_S44_L005_R1_001.fastq.gz miRNA-Seq 207.4 MB link
— b8p42_hepg2_sh_rbfox2_r1_S13_L005_R1_001.fastq.gz miRNA-Seq 135.8 MB link
— b8p42_hepg2_sh_rbfox2_r2_S40_L005_R1_001.fastq.gz miRNA-Seq 117.1 MB link
— b8p42_hepg2_sh_sltm_r1_S21_L005_R1_001.fastq.gz miRNA-Seq 127.2 MB link
— b8p42_hepg2_sh_sltm_r2_S37_L005_R1_001.fastq.gz miRNA-Seq 102.0 MB link
— b8p42_k562_sh_bud13_r1_S27_L005_R1_001.fastq.gz miRNA-Seq 111.7 MB link
— b8p42_k562_sh_bud13_r2_S25_L005_R1_001.fastq.gz miRNA-Seq 105.6 MB link
— b8p42_k562_sh_control1_r1_S22_L005_R1_001.fastq.gz miRNA-Seq 91.1 MB link
— b8p42_k562_sh_control1_r2_S45_L005_R1_001.fastq.gz miRNA-Seq 97.9 MB link
— b8p42_k562_sh_control2_r1_S41_L005_R1_001.fastq.gz miRNA-Seq 104.0 MB link
— b8p42_k562_sh_control2_r2_S42_L005_R1_001.fastq.gz miRNA-Seq 114.0 MB link
— b8p42_k562_sh_ddx3x_r1_S47_L005_R1_001.fastq.gz miRNA-Seq 103.8 MB link
— b8p42_k562_sh_ddx3x_r2_S12_L005_R1_001.fastq.gz miRNA-Seq 112.0 MB link
— b8p42_k562_sh_dkc1_r1_S23_L005_R1_001.fastq.gz miRNA-Seq 100.2 MB link
— b8p42_k562_sh_dkc1_r2_S10_L005_R1_001.fastq.gz miRNA-Seq 104.4 MB link
— b8p42_k562_sh_larp4_r1_S48_L005_R1_001.fastq.gz miRNA-Seq 103.3 MB link
— b8p42_k562_sh_larp4_r2_S17_L005_R1_001.fastq.gz miRNA-Seq 103.9 MB link
— b8p42_k562_sh_larp7_r1_S28_L005_R1_001.fastq.gz miRNA-Seq 213.9 MB link
— b8p42_k562_sh_larp7_r2_S46_L005_R1_001.fastq.gz miRNA-Seq 101.6 MB link
— b8p42_k562_sh_lin28b_r1_S30_L005_R1_001.fastq.gz miRNA-Seq 321.1 MB link
— b8p42_k562_sh_lin28b_r2_S18_L005_R1_001.fastq.gz miRNA-Seq 95.9 MB link
— b8p42_k562_sh_rbfox2_r1_S31_L005_R1_001.fastq.gz miRNA-Seq 267.2 MB link
— b8p42_k562_sh_rbfox2_r2_S34_L005_R1_001.fastq.gz miRNA-Seq 107.0 MB link
— b8p42_k562_sh_sltm_r1_S43_L005_R1_001.fastq.gz miRNA-Seq 104.0 MB link
— b8p42_k562_sh_sltm_r2_S32_L005_R1_001.fastq.gz miRNA-Seq 481.9 MB link
— b8p59_smallrnaseq_hepg2_sh_control_1_S17_L008_R1_001.f… miRNA-Seq 337.3 MB link
— b8p59_smallrnaseq_hepg2_sh_control_2_S22_L008_R1_001.f… miRNA-Seq 172.0 MB link
— b8p59_smallrnaseq_hepg2_sh_control_3_S19_L008_R1_001.f… miRNA-Seq 242.0 MB link
— b8p59_smallrnaseq_hepg2_sh_control_4_S24_L008_R1_001.f… miRNA-Seq 212.9 MB link
— b8p59_smallrnaseq_hepg2_sh_hnrnpm_1_S8_L008_R1_001.fas… miRNA-Seq 180.7 MB link
— b8p59_smallrnaseq_hepg2_sh_hnrnpm_2_S9_L008_R1_001.fas… miRNA-Seq 819.2 KB link
— b8p59_smallrnaseq_hepg2_sh_ilf3_1_S2_L008_R1_001.fastq… miRNA-Seq 317.0 MB link
— b8p59_smallrnaseq_hepg2_sh_ilf3_2_S20_L008_R1_001.fast… miRNA-Seq 232.1 MB link
— b8p59_smallrnaseq_hepg2_sh_prpf8_1_S18_L008_R1_001.fas… miRNA-Seq 309.0 MB link
— b8p59_smallrnaseq_hepg2_sh_prpf8_2_S16_L008_R1_001.fas… miRNA-Seq 240.8 MB link
— b8p59_smallrnaseq_hepg2_sh_ptbp1_1_S4_L008_R1_001.fast… miRNA-Seq 213.2 MB link
— b8p59_smallrnaseq_hepg2_sh_ptbp1_2_S5_L008_R1_001.fast… miRNA-Seq 184.3 MB link
— b8p59_smallrnaseq_hepg2_sh_sf3b4_1_S6_L008_R1_001.fast… miRNA-Seq 270.5 MB link
— b8p59_smallrnaseq_hepg2_sh_sf3b4_2_S7_L008_R1_001.fast… miRNA-Seq 187.8 MB link
— b8p59_smallrnaseq_k562_sh_control_1_S25_L008_R1_001.fa… miRNA-Seq 311.8 MB link
— b8p59_smallrnaseq_k562_sh_control_2_S26_L008_R1_001.fa… miRNA-Seq 170.6 MB link
— b8p59_smallrnaseq_k562_sh_control_3_S1_L008_R1_001.fas… miRNA-Seq 185.9 MB link
— b8p59_smallrnaseq_k562_sh_control_4_S3_L008_R1_001.fas… miRNA-Seq 178.5 MB link
— b8p59_smallrnaseq_k562_sh_hnrnpm_1_S11_L008_R1_001.fas… miRNA-Seq 181.2 MB link
— b8p59_smallrnaseq_k562_sh_hnrnpm_2_S12_L008_R1_001.fas… miRNA-Seq 178.8 MB link
— b8p59_smallrnaseq_k562_sh_ilf3_1_S13_L008_R1_001.fastq… miRNA-Seq 184.7 MB link
— b8p59_smallrnaseq_k562_sh_ilf3_2_S14_L008_R1_001.fastq… miRNA-Seq 266.3 MB link
— b8p59_smallrnaseq_k562_sh_prpf8_1_S10_L008_R1_001.fast… miRNA-Seq 204.8 KB link
— b8p59_smallrnaseq_k562_sh_prpf8_2_S15_L008_R1_001.fast… miRNA-Seq 188.3 MB link
— b8p59_smallrnaseq_k562_sh_ptbp1_1_S23_L008_R1_001.fast… miRNA-Seq 187.2 MB link
— b8p59_smallrnaseq_k562_sh_ptbp1_2_S27_L008_R1_001.fast… miRNA-Seq 167.3 MB link
— b8p59_smallrnaseq_k562_sh_sf3b4_1_S28_L008_R1_001.fast… miRNA-Seq 179.7 MB link
— b8p59_smallrnaseq_k562_sh_sf3b4_2_S21_L008_R1_001.fast… miRNA-Seq 121.7 MB link
— SRR5925665_GSM2739595 miRNA-Seq 113.0 MB link
— SRR5925666_GSM2739596 miRNA-Seq 133.0 MB link
— SRR5925667_GSM2739597 miRNA-Seq 120.0 MB link
— SRR5925668_GSM2739598 miRNA-Seq 179.0 MB link
— SRR5925669_GSM2739599 miRNA-Seq 118.0 MB link
— SRR5925670_GSM2739600 miRNA-Seq 108.0 MB link
— SRR5925671_GSM2739601 miRNA-Seq 135.0 MB link
— SRR5925672_GSM2739602 miRNA-Seq 131.0 MB link
— SRR5925673_GSM2739603 miRNA-Seq 167.0 MB link
— SRR5925674_GSM2739604 miRNA-Seq 70.0 MB link
— SRR5925675_GSM2739605 miRNA-Seq 117.0 MB link
— SRR5925676_GSM2739606 miRNA-Seq 154.0 MB link
— SRR5925677_GSM2739607 miRNA-Seq 107.0 MB link
— SRR5925678_GSM2739608 miRNA-Seq 125.0 MB link
— SRR5925679_GSM2739609 miRNA-Seq 137.0 MB link
— SRR5925680_GSM2739610 miRNA-Seq 207.0 MB link
— SRR5925681_GSM2739611 miRNA-Seq 135.0 MB link
— SRR5925682_GSM2739612 miRNA-Seq 117.0 MB link
— SRR5925683_GSM2739613 miRNA-Seq 127.0 MB link
— SRR5925684_GSM2739614 miRNA-Seq 102.0 MB link
— SRR5925685_GSM2739615 miRNA-Seq 111.0 MB link
— SRR5925686_GSM2739616 miRNA-Seq 105.0 MB link
— SRR5925687_GSM2739617 miRNA-Seq 91.0 MB link
— SRR5925688_GSM2739618 miRNA-Seq 97.0 MB link
— SRR5925689_GSM2739619 miRNA-Seq 104.0 MB link
— SRR5925690_GSM2739620 miRNA-Seq 113.0 MB link
— SRR5925691_GSM2739621 miRNA-Seq 103.0 MB link
— SRR5925692_GSM2739622 miRNA-Seq 112.0 MB link
— SRR5925693_GSM2739623 miRNA-Seq 100.0 MB link
— SRR5925694_GSM2739624 miRNA-Seq 104.0 MB link
— SRR5925695_GSM2739625 miRNA-Seq 103.0 MB link
— SRR5925696_GSM2739626 miRNA-Seq 103.0 MB link
— SRR5925697_GSM2739627 miRNA-Seq 213.0 MB link
— SRR5925698_GSM2739628 miRNA-Seq 101.0 MB link
— SRR5925699_GSM2739629 miRNA-Seq 321.0 MB link
— SRR5925700_GSM2739630 miRNA-Seq 95.0 MB link
— SRR5925701_GSM2739631 miRNA-Seq 267.0 MB link
— SRR5925702 miRNA-Seq 107.0 MB link
— SRR5925702_GSM2739632 miRNA-Seq 106.0 MB link
— SRR5925703_GSM2739633 miRNA-Seq 104.0 MB link
— SRR5925704 miRNA-Seq 481.9 MB link
— SRR5925704_GSM2739634 miRNA-Seq 481.0 MB link
— SRR5925705_GSM2739635 miRNA-Seq 337.0 MB link
— SRR5925706_GSM2739636 miRNA-Seq 172.0 MB link
— SRR5925707_GSM2739637 miRNA-Seq 241.0 MB link
— SRR5925708_GSM2739638 miRNA-Seq 212.0 MB link
— SRR5925709_GSM2739639 miRNA-Seq 180.0 MB link
— SRR5925710_GSM2739640 miRNA-Seq link
— SRR5925711_GSM2739641 miRNA-Seq 316.0 MB link
— SRR5925712_GSM2739642 miRNA-Seq 232.0 MB link
— SRR5925713_GSM2739643 miRNA-Seq 309.0 MB link
— SRR5925714_GSM2739644 miRNA-Seq 240.0 MB link
— SRR5925715_GSM2739645 miRNA-Seq 213.0 MB link
— SRR5925716_GSM2739646 miRNA-Seq 184.0 MB link
— SRR5925717_GSM2739647 miRNA-Seq 270.0 MB link
— SRR5925718_GSM2739648 miRNA-Seq 187.0 MB link
— SRR5925719_GSM2739649 miRNA-Seq 311.0 MB link
— SRR5925720_GSM2739650 miRNA-Seq 170.0 MB link
— SRR5925721_GSM2739651 miRNA-Seq 185.0 MB link
— SRR5925722_GSM2739652 miRNA-Seq 178.0 MB link
— SRR5925723_GSM2739653 miRNA-Seq 181.0 MB link
— SRR5925724_GSM2739654 miRNA-Seq 178.0 MB link
— SRR5925725_GSM2739655 miRNA-Seq 184.0 MB link
— SRR5925726_GSM2739656 miRNA-Seq 266.0 MB link
— SRR5925727_GSM2739657 miRNA-Seq link
— SRR5925728_GSM2739658 miRNA-Seq 188.0 MB link
— SRR5925729_GSM2739659 miRNA-Seq 187.0 MB link
— SRR5925730_GSM2739660 miRNA-Seq 167.0 MB link
— SRR5925731_GSM2739661 miRNA-Seq 179.0 MB link
— SRR5925732_GSM2739662 miRNA-Seq 121.0 MB link