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GSE125808

GSE GEO
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The RNA helicase DDX6 regulates self-renewal and differentiation of human and mouse stem cells [polysome RNA-seq]

Organism: Homo sapiens
Platform: GPL20301
Samples: 36
Experiment Types:
Expression profiling by high throughput sequencing
Submitted: Jan 29 2019
Last Updated: Oct 16 2019
Status: Public on Oct 16 2019
Contact: En-Ching,,Luo (UCSD)

Relations

SubSeries of: GSE112479 BioProject: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA517601 SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRP182783

Summary

Analysis of adult and embryonci stem cells depleted for DDX6. Results provide insight into the regulation of human stem cell self-renewal and differentiation by the RNA-binding protein DDX6.

Overall Design

Polysome cells were treated with cycloheximide (CHX) at 100 µg/ml for 5 min at 37°C. And then resuspend in polysome lysis buffer, loaded on the sucrose gradient and centrifuged at 35,000 x g (Beckman, rotor SW41) at 4 °C for 3 h. 500 µl fraction were collected using a FC203B (Gilson) fraction collector. Fractions containing monosome(MONO), light polysome (LITE), medium polysome (MID), heavy polysome (HEAVY), and total polsome (POLY) were pooled.

Analysis (4 steps)

View Data Processing
Processing steps for GSE125808
  1. RNA-sequencing reads were trimmed using cutadapt (v1.4.0) of adaptor sequences, and mapped to repetitive elements (RepBase v18.04) using the STAR (v2.4.0i).
  2. Reads did not map to repetitive elements were then mapped to the human genome (hg19).
  3. Using GENCODE (v19) gene annotations and featureCounts (v.1.5.0) to create read count matrices.
  4. The transcript RPKMs of input and polysome fractions were calculated from the read count matrices.

Supplementary Files (2)

GSE125808_control_RPKM.csv.gz Download
GSE125808_sgRNA_RPKM.csv.gz Download
GEO Samples (36)
GSM3582087 GSM3582088 GSM3582089 GSM3582090 GSM3582091 GSM3582092 GSM3582093 GSM3582094 GSM3582095 GSM3582096 GSM3582097 GSM3582098 GSM3582099 GSM3582100 GSM3582101 GSM3582102 GSM3582103 GSM3582104 GSM3582105 GSM3582106 GSM3582107 GSM3582108 GSM3582109 GSM3582110 GSM3582111 GSM3582112 GSM3582113 GSM3582114 GSM3582115 GSM3582116 GSM3582117 GSM3582118 GSM3582119 GSM3582120 GSM3582121 GSM3582122

Dataset Citations (1)

The RNA Helicase DDX6 Controls Cellular Plasticity by Modulating P-Body Homeostasis.
PMID 31588046 · 2019 · Cell stem cell
Bruno Di Stefano, En-Ching Luo, Chuck Haggerty, Stefan Aigner, Jocelyn Charlton, Justin Brumbaugh, Fei Ji, Inés Rabano Jiménez, Katie J Clowers, Aaron J Huebner, Kendell Clement, Inna Lipchina, Marit A C de Kort, Anthony Anselmo, John Pulice, Mattia F M Gerli, Hongcang Gu, Steven P Gygi, Ruslan I Sadreyev, Alexander Meissner, Gene W Yeo, Konrad Hochedlinger

SRA Experiments (36) and Runs (36)

Total: 19553 MB
SRX5305382 SRP182783 RNA-Seq SINGLE
GSM3582087: control_1_INPUT; Homo sapiens; RNA-Seq
Sample: SRS4302970
BioProject: PRJNA517601
BioSample: SAMN10839029
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_control_INPUT
cell type: primed hiPSCs
genotype/variation: control
Original files (1)
primed hiPSCs_control_INPUT
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501380 23025686 1726926450 638.15 SRR8501380, SRR8501380.sralite SRA
SRX5305383 SRP182783 RNA-Seq SINGLE
GSM3582088: control_1_POLY; Homo sapiens; RNA-Seq
Sample: SRS4302971
BioProject: PRJNA517601
BioSample: SAMN10839028
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_control_POLY
cell type: primed hiPSCs
genotype/variation: control
Original files (1)
primed hiPSCs_control_POLY
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501381 9711299 728347425 280.43 SRR8501381, SRR8501381.sralite SRA
SRX5305384 SRP182783 RNA-Seq SINGLE
GSM3582089: control_1_MONO; Homo sapiens; RNA-Seq
Sample: SRS4302972
BioProject: PRJNA517601
BioSample: SAMN10839027
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_control_MONO
cell type: primed hiPSCs
genotype/variation: control
Original files (1)
primed hiPSCs_control_MONO
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501382 32664545 2449840875 898.48 SRR8501382, SRR8501382.sralite SRA
SRX5305385 SRP182783 RNA-Seq SINGLE
GSM3582090: control_1_LITE; Homo sapiens; RNA-Seq
Sample: SRS4302973
BioProject: PRJNA517601
BioSample: SAMN10839066
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_control_LITE
cell type: primed hiPSCs
genotype/variation: control
Original files (1)
primed hiPSCs_control_LITE
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501383 12194174 914563050 356.95 SRR8501383, SRR8501383.sralite SRA
SRX5305386 SRP182783 RNA-Seq SINGLE
GSM3582091: control_1_MID; Homo sapiens; RNA-Seq
Sample: SRS4302974
BioProject: PRJNA517601
BioSample: SAMN10839065
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_control_MID
cell type: primed hESCs
genotype/variation: control
Original files (1)
primed hESCs_control_MID
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501384 10557650 791823750 308.99 SRR8501384, SRR8501384.sralite SRA
SRX5305387 SRP182783 RNA-Seq SINGLE
GSM3582092: control_1_HEAVY; Homo sapiens; RNA-Seq
Sample: SRS4302975
BioProject: PRJNA517601
BioSample: SAMN10839064
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_control_HEAVY
cell type: primed hESCs
genotype/variation: control
Original files (1)
primed hESCs_control_HEAVY
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501385 9677682 725826150 277.91 SRR8501385, SRR8501385.sralite SRA
SRX5305388 SRP182783 RNA-Seq SINGLE
GSM3582093: control_2_INPUT; Homo sapiens; RNA-Seq
Sample: SRS4302976
BioProject: PRJNA517601
BioSample: SAMN10839063
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_control_INPUT
cell type: primed hESCs
genotype/variation: control
Original files (1)
primed hESCs_control_INPUT
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501386 15482935 1161220125 413.96 SRR8501386, SRR8501386.sralite SRA
SRX5305389 SRP182783 RNA-Seq SINGLE
GSM3582094: control_2_POLY; Homo sapiens; RNA-Seq
Sample: SRS4302977
BioProject: PRJNA517601
BioSample: SAMN10839062
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_control_POLY
cell type: primed hESCs
genotype/variation: control
Original files (1)
primed hESCs_control_POLY
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501387 19909783 1493233725 523.12 SRR8501387, SRR8501387.sralite SRA
SRX5305390 SRP182783 RNA-Seq SINGLE
GSM3582095: control_2_MONO; Homo sapiens; RNA-Seq
Sample: SRS4302978
BioProject: PRJNA517601
BioSample: SAMN10839061
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_control_MONO
cell type: primed hESCs
genotype/variation: control
Original files (1)
primed hESCs_control_MONO
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501388 17550861 1316314575 468.37 SRR8501388, SRR8501388.sralite SRA
SRX5305391 SRP182783 RNA-Seq SINGLE
GSM3582096: control_2_LITE; Homo sapiens; RNA-Seq
Sample: SRS4302979
BioProject: PRJNA517601
BioSample: SAMN10839060
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_control_LITE
cell type: primed hESCs
genotype/variation: control
Original files (1)
primed hESCs_control_LITE
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501389 22782982 1708723650 598.72 SRR8501389, SRR8501389.sralite SRA
SRX5305392 SRP182783 RNA-Seq SINGLE
GSM3582097: control_2_MID; Homo sapiens; RNA-Seq
Sample: SRS4302980
BioProject: PRJNA517601
BioSample: SAMN10839059
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_control_MID
cell type: primed hiPSCs
genotype/variation: control
Original files (1)
primed hiPSCs_control_MID
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501390 20662308 1549673100 541.86 SRR8501390, SRR8501390.sralite SRA
SRX5305393 SRP182783 RNA-Seq SINGLE
GSM3582098: control_2_HEAVY; Homo sapiens; RNA-Seq
Sample: SRS4302981
BioProject: PRJNA517601
BioSample: SAMN10839058
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_control_HEAVY
cell type: primed hiPSCs
genotype/variation: control
Original files (1)
primed hiPSCs_control_HEAVY
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501391 24380514 1828538550 652.82 SRR8501391, SRR8501391.sralite SRA
SRX5305394 SRP182783 RNA-Seq SINGLE
GSM3582099: control_3_INPUT; Homo sapiens; RNA-Seq
Sample: SRS4302982
BioProject: PRJNA517601
BioSample: SAMN10839057
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_control_INPUT
cell type: primed hiPSCs
genotype/variation: control
Original files (1)
primed hiPSCs_control_INPUT
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501392 29121661 2184124575 773.0 SRR8501392, SRR8501392.sralite SRA
SRX5305395 SRP182783 RNA-Seq SINGLE
GSM3582100: control_3_POLY; Homo sapiens; RNA-Seq
Sample: SRS4302983
BioProject: PRJNA517601
BioSample: SAMN10839056
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_control_POLY
cell type: primed hiPSCs
genotype/variation: control
Original files (1)
primed hiPSCs_control_POLY
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501393 18269674 1370225550 479.29 SRR8501393, SRR8501393.sralite SRA
SRX5305396 SRP182783 RNA-Seq SINGLE
GSM3582101: control_3_MONO; Homo sapiens; RNA-Seq
Sample: SRS4302984
BioProject: PRJNA517601
BioSample: SAMN10839055
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_control_MONO
cell type: primed hESCs
genotype/variation: control
Original files (1)
primed hESCs_control_MONO
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501394 14357711 1076828325 383.94 SRR8501394, SRR8501394.sralite SRA
SRX5305397 SRP182783 RNA-Seq SINGLE
GSM3582102: control_3_LITE; Homo sapiens; RNA-Seq
Sample: SRS4302985
BioProject: PRJNA517601
BioSample: SAMN10839054
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_control_LITE
cell type: primed hESCs
genotype/variation: control
Original files (1)
primed hESCs_control_LITE
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501395 23426862 1757014650 623.1 SRR8501395, SRR8501395.sralite SRA
SRX5305398 SRP182783 RNA-Seq SINGLE
GSM3582103: control_3_MID; Homo sapiens; RNA-Seq
Sample: SRS4302986
BioProject: PRJNA517601
BioSample: SAMN10839053
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_control_MID
cell type: primed hESCs
genotype/variation: control
Original files (1)
primed hESCs_control_MID
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501396 17250868 1293815100 457.16 SRR8501396, SRR8501396.sralite SRA
SRX5305399 SRP182783 RNA-Seq SINGLE
GSM3582104: control_3_HEAVY; Homo sapiens; RNA-Seq
Sample: SRS4302987
BioProject: PRJNA517601
BioSample: SAMN10839052
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_control_HEAVY
cell type: primed hESCs
genotype/variation: control
Original files (1)
primed hESCs_control_HEAVY
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501397 14036948 1052771100 371.13 SRR8501397, SRR8501397.sralite SRA
SRX5305400 SRP182783 RNA-Seq SINGLE
GSM3582105: sgDDX6_1_INPUT; Homo sapiens; RNA-Seq
Sample: SRS4302988
BioProject: PRJNA517601
BioSample: SAMN10839051
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_sgDDX6_INPUT
cell type: primed hESCs
genotype/variation: sgDDX6
Original files (1)
primed hESCs_sgDDX6_INPUT
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501398 27960435 2097032625 814.09 SRR8501398, SRR8501398.sralite SRA
SRX5305401 SRP182783 RNA-Seq SINGLE
GSM3582106: sgDDX6_1_POLY; Homo sapiens; RNA-Seq
Sample: SRS4302989
BioProject: PRJNA517601
BioSample: SAMN10839050
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_sgDDX6_POLY
cell type: primed hiPSCs
genotype/variation: sgDDX6
Original files (1)
primed hiPSCs_sgDDX6_POLY
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501399 17190609 1289295675 489.76 SRR8501399, SRR8501399.sralite SRA
SRX5305402 SRP182783 RNA-Seq SINGLE
GSM3582107: sgDDX6_1_MONO; Homo sapiens; RNA-Seq
Sample: SRS4302990
BioProject: PRJNA517601
BioSample: SAMN10839049
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_sgDDX6_MONO
cell type: primed hiPSCs
genotype/variation: sgDDX6
Original files (1)
primed hiPSCs_sgDDX6_MONO
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501400 18817360 1411302000 547.08 SRR8501400, SRR8501400.sralite SRA
SRX5305403 SRP182783 RNA-Seq SINGLE
GSM3582108: sgDDX6_1_LITE; Homo sapiens; RNA-Seq
Sample: SRS4302991
BioProject: PRJNA517601
BioSample: SAMN10839045
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_sgDDX6_LITE
cell type: primed hiPSCs
genotype/variation: sgDDX6
Original files (1)
primed hiPSCs_sgDDX6_LITE
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501401 18680654 1401049050 535.42 SRR8501401, SRR8501401.sralite SRA
SRX5305404 SRP182783 RNA-Seq SINGLE
GSM3582109: sgDDX6_1_MID; Homo sapiens; RNA-Seq
Sample: SRS4302992
BioProject: PRJNA517601
BioSample: SAMN10839044
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_sgDDX6_MID
cell type: primed hiPSCs
genotype/variation: sgDDX6
Original files (1)
primed hiPSCs_sgDDX6_MID
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501402 20983914 1573793550 598.47 SRR8501402, SRR8501402.sralite SRA
SRX5305405 SRP182783 RNA-Seq SINGLE
GSM3582110: sgDDX6_1_HEAVY; Homo sapiens; RNA-Seq
Sample: SRS4302993
BioProject: PRJNA517601
BioSample: SAMN10839043
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_sgDDX6_HEAVY
cell type: primed hESCs
genotype/variation: sgDDX6
Original files (1)
primed hESCs_sgDDX6_HEAVY
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501403 21607214 1620541050 616.0 SRR8501403, SRR8501403.sralite SRA
SRX5305406 SRP182783 RNA-Seq SINGLE
GSM3582111: sgDDX6_2_INPUT; Homo sapiens; RNA-Seq
Sample: SRS4302994
BioProject: PRJNA517601
BioSample: SAMN10839042
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_sgDDX6_INPUT
cell type: primed hESCs
genotype/variation: sgDDX6
Original files (1)
primed hESCs_sgDDX6_INPUT
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501404 16706549 1252991175 478.53 SRR8501404, SRR8501404.sralite SRA
SRX5305407 SRP182783 RNA-Seq SINGLE
GSM3582112: sgDDX6_2_POLY; Homo sapiens; RNA-Seq
Sample: SRS4302995
BioProject: PRJNA517601
BioSample: SAMN10839041
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_sgDDX6_POLY
cell type: primed hESCs
genotype/variation: sgDDX6
Original files (1)
primed hESCs_sgDDX6_POLY
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501405 20607290 1545546750 560.76 SRR8501405, SRR8501405.sralite SRA
SRX5305408 SRP182783 RNA-Seq SINGLE
GSM3582113: sgDDX6_2_MONO; Homo sapiens; RNA-Seq
Sample: SRS4302996
BioProject: PRJNA517601
BioSample: SAMN10839048
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_sgDDX6_MONO
cell type: primed hESCs
genotype/variation: sgDDX6
Original files (1)
primed hESCs_sgDDX6_MONO
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501406 20617840 1546338000 602.49 SRR8501406, SRR8501406.sralite SRA
SRX5305409 SRP182783 RNA-Seq SINGLE
GSM3582114: sgDDX6_2_LITE; Homo sapiens; RNA-Seq
Sample: SRS4302997
BioProject: PRJNA517601
BioSample: SAMN10839047
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_sgDDX6_LITE
cell type: primed hESCs
genotype/variation: sgDDX6
Original files (1)
primed hESCs_sgDDX6_LITE
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501407 20620046 1546503450 590.87 SRR8501407, SRR8501407.sralite SRA
SRX5305410 SRP182783 RNA-Seq SINGLE
GSM3582115: sgDDX6_2_MID; Homo sapiens; RNA-Seq
Sample: SRS4302998
BioProject: PRJNA517601
BioSample: SAMN10839046
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_sgDDX6_MID
cell type: primed hESCs
genotype/variation: sgDDX6
Original files (1)
primed hESCs_sgDDX6_MID
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501408 15165528 1137414600 429.82 SRR8501408, SRR8501408.sralite SRA
SRX5305411 SRP182783 RNA-Seq SINGLE
GSM3582116: sgDDX6_2_HEAVY; Homo sapiens; RNA-Seq
Sample: SRS4302999
BioProject: PRJNA517601
BioSample: SAMN10839040
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_sgDDX6_HEAVY
cell type: primed hESCs
genotype/variation: sgDDX6
Original files (1)
primed hESCs_sgDDX6_HEAVY
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501409 22433088 1682481600 606.95 SRR8501409, SRR8501409.sralite SRA
SRX5305412 SRP182783 RNA-Seq SINGLE
GSM3582117: sgDDX6_3_INPUT; Homo sapiens; RNA-Seq
Sample: SRS4303000
BioProject: PRJNA517601
BioSample: SAMN10839039
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_sgDDX6_INPUT
cell type: primed hiPSCs
genotype/variation: sgDDX6
Original files (1)
primed hiPSCs_sgDDX6_INPUT
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501410 13107035 983027625 359.64 SRR8501410, SRR8501410.sralite SRA
SRX5305413 SRP182783 RNA-Seq SINGLE
GSM3582118: sgDDX6_3_POLY; Homo sapiens; RNA-Seq
Sample: SRS4303001
BioProject: PRJNA517601
BioSample: SAMN10839038
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_sgDDX6_POLY
cell type: primed hiPSCs
genotype/variation: sgDDX6
Original files (1)
primed hiPSCs_sgDDX6_POLY
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501411 25755524 1931664300 716.66 SRR8501411, SRR8501411.sralite SRA
SRX5305414 SRP182783 RNA-Seq SINGLE
GSM3582119: sgDDX6_3_MONO; Homo sapiens; RNA-Seq
Sample: SRS4303002
BioProject: PRJNA517601
BioSample: SAMN10839037
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_sgDDX6_MONO
cell type: primed hiPSCs
genotype/variation: sgDDX6
Original files (1)
primed hiPSCs_sgDDX6_MONO
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501412 22522947 1689221025 621.66 SRR8501412, SRR8501412.sralite SRA
SRX5305415 SRP182783 RNA-Seq SINGLE
GSM3582120: sgDDX6_3_LITE; Homo sapiens; RNA-Seq
Sample: SRS4303003
BioProject: PRJNA517601
BioSample: SAMN10839036
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hiPSCs_sgDDX6_LITE
cell type: primed hiPSCs
genotype/variation: sgDDX6
Original files (1)
primed hiPSCs_sgDDX6_LITE
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501413 23753917 1781543775 654.2 SRR8501413, SRR8501413.sralite SRA
SRX5305416 SRP182783 RNA-Seq SINGLE
GSM3582121: sgDDX6_3_MID; Homo sapiens; RNA-Seq
Sample: SRS4303004
BioProject: PRJNA517601
BioSample: SAMN10839035
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_sgDDX6_MID
cell type: primed hESCs
genotype/variation: sgDDX6
Original files (1)
primed hESCs_sgDDX6_MID
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501414 27565778 2067433350 754.05 SRR8501414, SRR8501414.sralite SRA
SRX5305417 SRP182783 RNA-Seq SINGLE
GSM3582122: sgDDX6_3_HEAVY; Homo sapiens; RNA-Seq
Sample: SRS4303005
BioProject: PRJNA517601
BioSample: SAMN10839034
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: primed hESCs_sgDDX6_HEAVY
cell type: primed hESCs
genotype/variation: sgDDX6
Original files (1)
primed hESCs_sgDDX6_HEAVY
Runs (1)
Run Spots Bases Size (MB) Files Link
SRR8501415 19249226 1443691950 529.17 SRR8501415, SRR8501415.sralite SRA

Linked Publications (1)

The RNA Helicase DDX6 Controls Cellular Plasticity by Modulating P-Body Homeostasis.
Cell stem cell · 2019

Data Files (36)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
— SRR8501380 RNA-Seq 638.1 MB link
— SRR8501381 RNA-Seq 280.4 MB link
— SRR8501382 RNA-Seq 898.5 MB link
— SRR8501383 RNA-Seq 356.9 MB link
— SRR8501384 RNA-Seq 309.0 MB link
— SRR8501385 RNA-Seq 277.9 MB link
— SRR8501386 RNA-Seq 414.0 MB link
— SRR8501387 RNA-Seq 523.1 MB link
— SRR8501388 RNA-Seq 468.4 MB link
— SRR8501389 RNA-Seq 598.7 MB link
— SRR8501390 RNA-Seq 541.9 MB link
— SRR8501391 RNA-Seq 652.8 MB link
— SRR8501392 RNA-Seq 773.0 MB link
— SRR8501393 RNA-Seq 479.3 MB link
— SRR8501394 RNA-Seq 383.9 MB link
— SRR8501395 RNA-Seq 623.1 MB link
— SRR8501396 RNA-Seq 457.2 MB link
— SRR8501397 RNA-Seq 371.1 MB link
— SRR8501398 RNA-Seq 814.1 MB link
— SRR8501399 RNA-Seq 489.8 MB link
— SRR8501400 RNA-Seq 547.1 MB link
— SRR8501401 RNA-Seq 535.4 MB link
— SRR8501402 RNA-Seq 598.5 MB link
— SRR8501403 RNA-Seq 616.0 MB link
— SRR8501404 RNA-Seq 478.5 MB link
— SRR8501405 RNA-Seq 560.8 MB link
— SRR8501406 RNA-Seq 602.5 MB link
— SRR8501407 RNA-Seq 590.9 MB link
— SRR8501408 RNA-Seq 429.8 MB link
— SRR8501409 RNA-Seq 606.9 MB link
— SRR8501410 RNA-Seq 359.6 MB link
— SRR8501411 RNA-Seq 716.7 MB link
— SRR8501412 RNA-Seq 621.7 MB link
— SRR8501413 RNA-Seq 654.2 MB link
— SRR8501414 RNA-Seq 754.0 MB link
— SRR8501415 RNA-Seq 529.2 MB link