GSE117293
GSE GEOLarge-scale tethered function assays identify factors that regulate mRNA stability and translation (HEK293T_RNA-seq)
Organism:
Homo sapiens
Platform:
GPL20301
Samples:
50
Experiment Types:
Expression profiling by high throughput sequencing
Submitted:
Jul 18 2018
Last Updated:
Jul 02 2021
Status:
Public on Aug 18 2020
Contact:
En-Ching,,Luo (UCSD)
Relations
SubSeries of: GSE117294
BioProject: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA482136
SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRP154581
Summary
we either depleted RBPs by lentiviral transduction of short-hairpin RNAs (shRNAs) or ectopically expressed the open reading frame of the protein. For each RBP, we performed two independent transductions of two different targeting shRNAs and two independent transductions of a non-targeting shRNA, or performed two independent transfections with a plasmid directing expression of the RBP as a V5-tagged fusion, with the FLAG construct as a control.
Overall Design
RNAseq
Analysis (5 steps)
View Data Processing
Processing steps for GSE117293
- 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).
- Reads did not map to repetitive elements were then mapped to the human genome (hg19).
- Using GENCODE (v19) gene annotations and featureCounts (v.1.5.0) to create read count matrices.
- Differential expression was calculated using DESeq2 version 1.10.1
- The transcript RPKMs of input and polysome fractions were calculated from the read count matrices.
Supplementary Files (4)
GEO Samples (50)
GSM3290532
GSM3290533
GSM3290534
GSM3290535
GSM3290536
GSM3290537
GSM3290538
GSM3290539
GSM3290540
GSM3290541
GSM3290542
GSM3290543
GSM3290544
GSM3290545
GSM3290546
GSM3290547
GSM3290548
GSM3290549
GSM3290550
GSM3290551
GSM3290552
GSM3290553
GSM3290554
GSM3290555
GSM3290556
GSM3290557
GSM3290558
GSM3290559
GSM3290560
GSM3290561
GSM3290562
GSM3290563
GSM3290564
GSM3290565
GSM3290566
GSM3290567
GSM3290568
GSM3290569
GSM3290570
GSM3290571
GSM3290572
GSM3290573
GSM3290574
GSM3290575
GSM3290576
GSM3290577
GSM3290578
GSM3290579
GSM3290580
GSM3290581
Dataset Citations (1)
Large-scale tethered function assays identify factors that regulate mRNA stability and translation.
PMID 32807991
· 2020
· Nature structural & molecular biology
En-Ching Luo, Jason L Nathanson, Frederick E Tan, Joshua L Schwartz, Jonathan C Schmok, Archana Shankar, Sebastian Markmiller, Brian A Yee, Shashank Sathe, Gabriel A Pratt, Duy B Scaletta, Yuanchi Ha, David E Hill, Stefan Aigner, Gene W Yeo
SRA Experiments (50) and Runs (50)
Total: 27987 MBGSM3290532: CLK3-sh1-1; Homo sapiens; RNA-Seq
Sample: SRS3567317
BioProject: PRJNA482136
BioSample: SAMN09698125
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547754 | 38175994 | 1908799700 | 647.38 | EC-KD-s1-CLK3-1-1_S7_L001_R1_001.fastq.gz, SRR7547754, SRR7547754.sra… | SRA |
GSM3290533: CLK3-sh1-2; Homo sapiens; RNA-Seq
Sample: SRS3567374
BioProject: PRJNA482136
BioSample: SAMN09698124
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547755 | 35300734 | 1765036700 | 597.82 | EC-KD-s1-CLK3-1-2_S8_L001_R1_001.fastq.gz, SRR7547755, SRR7547755.sra… | SRA |
GSM3290534: CNOT7-sh1-1; Homo sapiens; RNA-Seq
Sample: SRS3567327
BioProject: PRJNA482136
BioSample: SAMN09698131
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547756 | 30165750 | 1508287500 | 532.75 | EC-KD-s1-CNOT7-1-1_S3_L001_R1_001.fastq.gz, SRR7547756, SRR7547756.sr… | SRA |
GSM3290535: CNOT7-sh1-2; Homo sapiens; RNA-Seq
Sample: SRS3567318
BioProject: PRJNA482136
BioSample: SAMN09698130
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547757 | 35613796 | 1780689800 | 603.43 | EC-KD-s1-CNOT7-1-2_S4_L001_R1_001.fastq.gz, SRR7547757, SRR7547757.sr… | SRA |
GSM3290536: CNOT7-sh2-1; Homo sapiens; RNA-Seq
Sample: SRS3567319
BioProject: PRJNA482136
BioSample: SAMN09698123
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547758 | 28391563 | 1419578150 | 480.6 | EC-KD-s1-CNOT7-2-1_S5_L001_R1_001.fastq.gz, SRR7547758, SRR7547758.sr… | SRA |
GSM3290537: CNOT7-sh-2-2; Homo sapiens; RNA-Seq
Sample: SRS3567330
BioProject: PRJNA482136
BioSample: SAMN09698122
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547759 | 31673929 | 1583696450 | 536.84 | EC-KD-s1-CNOT7-2-2_S6_L001_R1_001.fastq.gz, SRR7547759, SRR7547759.sr… | SRA |
GSM3290538: Control-1-1; Homo sapiens; RNA-Seq
Sample: SRS3567320
BioProject: PRJNA482136
BioSample: SAMN09698117
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547760 | 30400938 | 1520046900 | 515.51 | EC-KD-s1-ctrl-2_S1_L001_R1_001.fastq.gz, SRR7547760, SRR7547760.srali… | SRA |
GSM3290539: Control-1-2; Homo sapiens; RNA-Seq
Sample: SRS3567321
BioProject: PRJNA482136
BioSample: SAMN09698116
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547761 | 30896194 | 1544809700 | 524.15 | EC-KD-s1-ctrl-3_S2_L001_R1_001.fastq.gz, SRR7547761, SRR7547761.srali… | SRA |
GSM3290540: UBAP2L-sh1-1; Homo sapiens; RNA-Seq
Sample: SRS3567329
BioProject: PRJNA482136
BioSample: SAMN09698115
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547762 | 30696473 | 1534823650 | 521.04 | EC-KD-s1-UBAP2L-1-1_S9_L001_R1_001.fastq.gz, SRR7547762, SRR7547762.s… | SRA |
GSM3290541: UBAP2L-sh1-2; Homo sapiens; RNA-Seq
Sample: SRS3567351
BioProject: PRJNA482136
BioSample: SAMN09698114
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547763 | 29559093 | 1477954650 | 499.43 | EC-KD-s1-UBAP2L-1-2_S10_L001_R1_001.fastq.gz, SRR7547763, SRR7547763.… | SRA |
GSM3290542: UBAP2L-sh2-1; Homo sapiens; RNA-Seq
Sample: SRS3567324
BioProject: PRJNA482136
BioSample: SAMN09698113
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547764 | 28107716 | 1405385800 | 496.51 | EC-KD-s1-UBAP2L-2-1_S11_L001_R1_001.fastq.gz, SRR7547764, SRR7547764.… | SRA |
GSM3290543: UBAP2L-sh2-2; Homo sapiens; RNA-Seq
Sample: SRS3567325
BioProject: PRJNA482136
BioSample: SAMN09698112
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547765 | 28325450 | 1416272500 | 477.83 | EC-KD-s1-UBAP2L-2-2_S12_L001_R1_001.fastq.gz, SRR7547765, SRR7547765.… | SRA |
GSM3290544: AIMP1-sh1-1; Homo sapiens; RNA-Seq
Sample: SRS3567326
BioProject: PRJNA482136
BioSample: SAMN09698111
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547766 | 53044881 | 2652244050 | 882.95 | EC-KD-s2-AIMP1-1-1_S13_L002_R1_001.fastq.gz, SRR7547766, SRR7547766.s… | SRA |
GSM3290545: AIMP1-sh1-2; Homo sapiens; RNA-Seq
Sample: SRS3567338
BioProject: PRJNA482136
BioSample: SAMN09698110
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547767 | 32077278 | 1603863900 | 534.14 | EC-KD-s2-AIMP1-1-2_S14_L002_R1_001.fastq.gz, SRR7547767, SRR7547767.s… | SRA |
GSM3290546: AIMP1-sh2-1; Homo sapiens; RNA-Seq
Sample: SRS3567335
BioProject: PRJNA482136
BioSample: SAMN09698109
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547768 | 25689868 | 1284493400 | 428.51 | EC-KD-s2-AIMP1-2-1_S15_L002_R1_001.fastq.gz, SRR7547768, SRR7547768.s… | SRA |
GSM3290547: AIMP1-sh2-2; Homo sapiens; RNA-Seq
Sample: SRS3567352
BioProject: PRJNA482136
BioSample: SAMN09698108
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547769 | 33516942 | 1675847100 | 562.25 | EC-KD-s2-AIMP1-2-2_S16_L002_R1_001.fastq.gz, SRR7547769, SRR7547769.s… | SRA |
GSM3290548: Control-2-1; Homo sapiens; RNA-Seq
Sample: SRS3567328
BioProject: PRJNA482136
BioSample: SAMN09698107
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547770 | 29832148 | 1491607400 | 512.58 | EC-KD-s2-ctrl-1-1_S25_L003_R1_001.fastq.gz, SRR7547770, SRR7547770.sr… | SRA |
GSM3290549: Control-2-2; Homo sapiens; RNA-Seq
Sample: SRS3567350
BioProject: PRJNA482136
BioSample: SAMN09698106
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547771 | 30723109 | 1536155450 | 509.19 | EC-KD-s2-ctrl-1-2_S26_L003_R1_001.fastq.gz, SRR7547771, SRR7547771.sr… | SRA |
GSM3290550: DDX6-sh1-1; Homo sapiens; RNA-Seq
Sample: SRS3567343
BioProject: PRJNA482136
BioSample: SAMN09698105
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547772 | 28795210 | 1439760500 | 481.44 | EC-KD-s2-DDX6-1-1_S17_L002_R1_001.fastq.gz, SRR7547772, SRR7547772.sr… | SRA |
GSM3290551: DDX6-sh1-2; Homo sapiens; RNA-Seq
Sample: SRS3567345
BioProject: PRJNA482136
BioSample: SAMN09698104
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547773 | 32978977 | 1648948850 | 551.08 | EC-KD-s2-DDX6-1-2_S18_L002_R1_001.fastq.gz, SRR7547773, SRR7547773.sr… | SRA |
GSM3290552: DDX6-sh2-1; Homo sapiens; RNA-Seq
Sample: SRS3567359
BioProject: PRJNA482136
BioSample: SAMN09698103
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547774 | 35129855 | 1756492750 | 590.21 | EC-KD-s2-DDX6-2-1_S19_L002_R1_001.fastq.gz, SRR7547774, SRR7547774.sr… | SRA |
GSM3290553: DDX6-sh2-2; Homo sapiens; RNA-Seq
Sample: SRS3567332
BioProject: PRJNA482136
BioSample: SAMN09698102
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547775 | 26314135 | 1315706750 | 438.79 | EC-KD-s2-DDX6-2-2_S20_L002_R1_001.fastq.gz, SRR7547775, SRR7547775.sr… | SRA |
GSM3290554: MEX3C-sh1-1; Homo sapiens; RNA-Seq
Sample: SRS3567357
BioProject: PRJNA482136
BioSample: SAMN09698101
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547776 | 22968803 | 1148440150 | 383.68 | EC-KD-s2-MEX3C-1-1_S21_L002_R1_001.fastq.gz, SRR7547776, SRR7547776.s… | SRA |
GSM3290555: MEX3C-sh1-2; Homo sapiens; RNA-Seq
Sample: SRS3567333
BioProject: PRJNA482136
BioSample: SAMN09698100
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547777 | 38775359 | 1938767950 | 647.58 | EC-KD-s2-MEX3C-1-2_S22_L002_R1_001.fastq.gz, SRR7547777, SRR7547777.s… | SRA |
GSM3290556: MEX3C-sh2-1; Homo sapiens; RNA-Seq
Sample: SRS3567361
BioProject: PRJNA482136
BioSample: SAMN09698099
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547778 | 20466309 | 1023315450 | 340.77 | EC-KD-s2-MEX3C-2-1_S23_L002_R1_001.fastq.gz, SRR7547778, SRR7547778.s… | SRA |
GSM3290557: MEX3C-sh2-2; Homo sapiens; RNA-Seq
Sample: SRS3567397
BioProject: PRJNA482136
BioSample: SAMN09698098
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547779 | 33989654 | 1699482700 | 569.27 | EC-KD-s2-MEX3C-2-2_S24_L002_R1_001.fastq.gz, SRR7547779, SRR7547779.s… | SRA |
GSM3290558: Control-3-1; Homo sapiens; RNA-Seq
Sample: SRS3567336
BioProject: PRJNA482136
BioSample: SAMN09698097
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547780 | 41343855 | 2067192750 | 678.88 | EC-KD-s3-ctrl-1-1_S39_L004_R1_001.fastq.gz, SRR7547780, SRR7547780.sr… | SRA |
GSM3290559: Control-3-2; Homo sapiens; RNA-Seq
Sample: SRS3567337
BioProject: PRJNA482136
BioSample: SAMN09698096
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547781 | 33804194 | 1690209700 | 563.85 | EC-KD-s3-ctrl-1-2_S40_L004_R1_001.fastq.gz, SRR7547781, SRR7547781.sr… | SRA |
GSM3290560: MTDH-sh1-1; Homo sapiens; RNA-Seq
Sample: SRS3567339
BioProject: PRJNA482136
BioSample: SAMN09698095
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547782 | 23694935 | 1184746750 | 390.86 | EC-KD-s3-MTDH-1-1_S27_L003_R1_001.fastq.gz, SRR7547782, SRR7547782.sr… | SRA |
GSM3290561: MTDH-sh1-2; Homo sapiens; RNA-Seq
Sample: SRS3567340
BioProject: PRJNA482136
BioSample: SAMN09698094
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547783 | 25427992 | 1271399600 | 425.8 | EC-KD-s3-MTDH-1-2_S28_L003_R1_001.fastq.gz, SRR7547783, SRR7547783.sr… | SRA |
GSM3290562: MTDH-sh2-1; Homo sapiens; RNA-Seq
Sample: SRS3567341
BioProject: PRJNA482136
BioSample: SAMN09698093
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547784 | 40147989 | 2007399450 | 664.86 | EC-KD-s3-MTDH-2-1_S29_L003_R1_001.fastq.gz, SRR7547784, SRR7547784.sr… | SRA |
GSM3290563: MTDH-sh2-2; Homo sapiens; RNA-Seq
Sample: SRS3567342
BioProject: PRJNA482136
BioSample: SAMN09698092
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547785 | 37507251 | 1875362550 | 619.92 | EC-KD-s3-MTDH-2-2_S30_L003_R1_001.fastq.gz, SRR7547785, SRR7547785.sr… | SRA |
GSM3290564: PARN-sh1-1; Homo sapiens; RNA-Seq
Sample: SRS3567358
BioProject: PRJNA482136
BioSample: SAMN09698091
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547786 | 19570943 | 978547150 | 322.05 | EC-KD-s3-PARN-1-1_S31_L003_R1_001.fastq.gz, SRR7547786, SRR7547786.sr… | SRA |
GSM3290565: PARN-sh1-2; Homo sapiens; RNA-Seq
Sample: SRS3567344
BioProject: PRJNA482136
BioSample: SAMN09698090
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547787 | 29220415 | 1461020750 | 479.26 | EC-KD-s3-PARN-1-2_S32_L003_R1_001.fastq.gz, SRR7547787, SRR7547787.sr… | SRA |
GSM3290566: PARN-sh2-1; Homo sapiens; RNA-Seq
Sample: SRS3567385
BioProject: PRJNA482136
BioSample: SAMN09698089
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547788 | 33048060 | 1652403000 | 564.16 | EC-KD-s3-PARN-2-1_S33_L003_R1_001.fastq.gz, SRR7547788, SRR7547788.sr… | SRA |
GSM3290567: PARN-sh2-2; Homo sapiens; RNA-Seq
Sample: SRS3567356
BioProject: PRJNA482136
BioSample: SAMN09698088
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547789 | 40139544 | 2006977200 | 660.15 | EC-KD-s3-PARN-2-2_S34_L003_R1_001.fastq.gz, SRR7547789, SRR7547789.sr… | SRA |
GSM3290568: OE_BOLL-1; Homo sapiens; RNA-Seq
Sample: SRS3567346
BioProject: PRJNA482136
BioSample: SAMN09698177
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547790 | 37444570 | 1872228500 | 622.9 | EC-OE-BOLL-1_S49_L005_R1_001.fastq.gz, SRR7547790, SRR7547790.sralite | SRA |
GSM3290569: OE_BOLL-2; Homo sapiens; RNA-Seq
Sample: SRS3567347
BioProject: PRJNA482136
BioSample: SAMN09698176
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547791 | 32873747 | 1643687350 | 545.78 | EC-OE-BOLL-2_S50_L005_R1_001.fastq.gz, SRR7547791, SRR7547791.sralite | SRA |
GSM3290570: OE_FLAG-1; Homo sapiens; RNA-Seq
Sample: SRS3567348
BioProject: PRJNA482136
BioSample: SAMN09698175
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547792 | 42670359 | 2133517950 | 713.18 | EC-OE-FLAG-1_S57_L005_R1_001.fastq.gz, SRR7547792, SRR7547792.sralite | SRA |
GSM3290571: OE_FLAG-2; Homo sapiens; RNA-Seq
Sample: SRS3567382
BioProject: PRJNA482136
BioSample: SAMN09698174
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547793 | 40447078 | 2022353900 | 678.07 | EC-OE-FLAG-2_S58_L005_R1_001.fastq.gz, SRR7547793, SRR7547793.sralite | SRA |
GSM3290572: OE_IFIT2-1; Homo sapiens; RNA-Seq
Sample: SRS3567380
BioProject: PRJNA482136
BioSample: SAMN09698173
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547794 | 31948381 | 1597419050 | 533.19 | EC-OE-IFIT2-1_S43_L004_R1_001.fastq.gz, SRR7547794, SRR7547794.sralite | SRA |
GSM3290573: OE_IFIT2-2; Homo sapiens; RNA-Seq
Sample: SRS3567349
BioProject: PRJNA482136
BioSample: SAMN09698172
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547795 | 33794169 | 1689708450 | 560.28 | EC-OE-IFIT2-2_S44_L004_R1_001.fastq.gz, SRR7547795, SRR7547795.sralite | SRA |
GSM3290574: OE_NANOS3-1; Homo sapiens; RNA-Seq
Sample: SRS3567364
BioProject: PRJNA482136
BioSample: SAMN09698171
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547796 | 36785450 | 1839272500 | 617.84 | EC-OE-NANOS3-1_S41_L004_R1_001.fastq.gz, SRR7547796, SRR7547796.srali… | SRA |
GSM3290575: OE_NANOS3-2; Homo sapiens; RNA-Seq
Sample: SRS3567360
BioProject: PRJNA482136
BioSample: SAMN09698170
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547797 | 31579861 | 1578993050 | 532.14 | EC-OE-NANOS3-2_S42_L004_R1_001.fastq.gz, SRR7547797, SRR7547797.srali… | SRA |
GSM3290576: OE_SNRPA-1; Homo sapiens; RNA-Seq
Sample: SRS3567362
BioProject: PRJNA482136
BioSample: SAMN09698169
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547798 | 39516752 | 1975837600 | 688.37 | EC-OE-SNRPA-1_S55_L005_R1_001.fastq.gz, SRR7547798, SRR7547798.sralite | SRA |
GSM3290577: OE_SNRPA-2; Homo sapiens; RNA-Seq
Sample: SRS3567383
BioProject: PRJNA482136
BioSample: SAMN09698168
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547799 | 40645569 | 2032278450 | 676.42 | EC-OE-SNRPA-2_S56_L005_R1_001.fastq.gz, SRR7547799, SRR7547799.sralite | SRA |
GSM3290578: OE_TOB1-1; Homo sapiens; RNA-Seq
Sample: SRS3567353
BioProject: PRJNA482136
BioSample: SAMN09698167
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547800 | 46347138 | 2317356900 | 771.67 | EC-OE-TOB1-1_S51_L005_R1_001.fastq.gz, SRR7547800, SRR7547800.sralite | SRA |
GSM3290579: OE_TOB1-2; Homo sapiens; RNA-Seq
Sample: SRS3567354
BioProject: PRJNA482136
BioSample: SAMN09698166
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547801 | 34010953 | 1700547650 | 568.18 | EC-OE-TOB1-2_S52_L005_R1_001.fastq.gz, SRR7547801, SRR7547801.sralite | SRA |
GSM3290580: OE_TOB2-1; Homo sapiens; RNA-Seq
Sample: SRS3567355
BioProject: PRJNA482136
BioSample: SAMN09698165
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547802 | 36026534 | 1801326700 | 601.86 | EC-OE-TOB2-1_S53_L005_R1_001.fastq.gz, SRR7547802, SRR7547802.sralite | SRA |
GSM3290581: OE_TOB2-2; Homo sapiens; RNA-Seq
Sample: SRS3567381
BioProject: PRJNA482136
BioSample: SAMN09698164
Platform: ILLUMINA
Instrument: Illumina HiSeq 4000
Organism: Homo sapiens
Sample attributes
source_name: HEK293T
tissue: HEK293T cells
Original files (1)
HEK293T
Runs (1)
| Run | Spots | Bases | Size (MB) | Files | Link |
|---|---|---|---|---|---|
| SRR7547803 | 38253245 | 1912662250 | 641.44 | EC-OE-TOB2-2_S54_L005_R1_001.fastq.gz, SRR7547803, SRR7547803.sralite | SRA |
Linked Publications (1)
Large-scale tethered function assays identify factors that regulate mRNA stability and translation.
Nature structural & molecular biology · 2020
Data Files (50)
| Accession | File Name | Stored Type | Output Type | Mapping Assembly | Size | Download | |
|---|---|---|---|---|---|---|---|
| — | EC-KD-s1-CLK3-1-1_S7_L001_R1_001.fastq.gz | RNA-Seq | 647.4 MB | link | |||
| — | EC-KD-s1-CLK3-1-2_S8_L001_R1_001.fastq.gz | RNA-Seq | 597.8 MB | link | |||
| — | EC-KD-s1-CNOT7-1-1_S3_L001_R1_001.fastq.gz | RNA-Seq | 532.8 MB | link | |||
| — | EC-KD-s1-CNOT7-1-2_S4_L001_R1_001.fastq.gz | RNA-Seq | 603.4 MB | link | |||
| — | EC-KD-s1-CNOT7-2-1_S5_L001_R1_001.fastq.gz | RNA-Seq | 480.6 MB | link | |||
| — | EC-KD-s1-CNOT7-2-2_S6_L001_R1_001.fastq.gz | RNA-Seq | 536.8 MB | link | |||
| — | EC-KD-s1-ctrl-2_S1_L001_R1_001.fastq.gz | RNA-Seq | 515.5 MB | link | |||
| — | EC-KD-s1-ctrl-3_S2_L001_R1_001.fastq.gz | RNA-Seq | 524.1 MB | link | |||
| — | EC-KD-s1-UBAP2L-1-1_S9_L001_R1_001.fastq.gz | RNA-Seq | 521.0 MB | link | |||
| — | EC-KD-s1-UBAP2L-1-2_S10_L001_R1_001.fastq.gz | RNA-Seq | 499.4 MB | link | |||
| — | EC-KD-s1-UBAP2L-2-1_S11_L001_R1_001.fastq.gz | RNA-Seq | 496.5 MB | link | |||
| — | EC-KD-s1-UBAP2L-2-2_S12_L001_R1_001.fastq.gz | RNA-Seq | 477.8 MB | link | |||
| — | EC-KD-s2-AIMP1-1-1_S13_L002_R1_001.fastq.gz | RNA-Seq | 882.9 MB | link | |||
| — | EC-KD-s2-AIMP1-1-2_S14_L002_R1_001.fastq.gz | RNA-Seq | 534.1 MB | link | |||
| — | EC-KD-s2-AIMP1-2-1_S15_L002_R1_001.fastq.gz | RNA-Seq | 428.5 MB | link | |||
| — | EC-KD-s2-AIMP1-2-2_S16_L002_R1_001.fastq.gz | RNA-Seq | 562.2 MB | link | |||
| — | EC-KD-s2-ctrl-1-1_S25_L003_R1_001.fastq.gz | RNA-Seq | 512.6 MB | link | |||
| — | EC-KD-s2-ctrl-1-2_S26_L003_R1_001.fastq.gz | RNA-Seq | 509.2 MB | link | |||
| — | EC-KD-s2-DDX6-1-1_S17_L002_R1_001.fastq.gz | RNA-Seq | 481.4 MB | link | |||
| — | EC-KD-s2-DDX6-1-2_S18_L002_R1_001.fastq.gz | RNA-Seq | 551.1 MB | link | |||
| — | EC-KD-s2-DDX6-2-1_S19_L002_R1_001.fastq.gz | RNA-Seq | 590.2 MB | link | |||
| — | EC-KD-s2-DDX6-2-2_S20_L002_R1_001.fastq.gz | RNA-Seq | 438.8 MB | link | |||
| — | EC-KD-s2-MEX3C-1-1_S21_L002_R1_001.fastq.gz | RNA-Seq | 383.7 MB | link | |||
| — | EC-KD-s2-MEX3C-1-2_S22_L002_R1_001.fastq.gz | RNA-Seq | 647.6 MB | link | |||
| — | EC-KD-s2-MEX3C-2-1_S23_L002_R1_001.fastq.gz | RNA-Seq | 340.8 MB | link | |||
| — | EC-KD-s2-MEX3C-2-2_S24_L002_R1_001.fastq.gz | RNA-Seq | 569.3 MB | link | |||
| — | EC-KD-s3-ctrl-1-1_S39_L004_R1_001.fastq.gz | RNA-Seq | 678.9 MB | link | |||
| — | EC-KD-s3-ctrl-1-2_S40_L004_R1_001.fastq.gz | RNA-Seq | 563.8 MB | link | |||
| — | EC-KD-s3-MTDH-1-1_S27_L003_R1_001.fastq.gz | RNA-Seq | 390.9 MB | link | |||
| — | EC-KD-s3-MTDH-1-2_S28_L003_R1_001.fastq.gz | RNA-Seq | 425.8 MB | link | |||
| — | EC-KD-s3-MTDH-2-1_S29_L003_R1_001.fastq.gz | RNA-Seq | 664.9 MB | link | |||
| — | EC-KD-s3-MTDH-2-2_S30_L003_R1_001.fastq.gz | RNA-Seq | 619.9 MB | link | |||
| — | EC-KD-s3-PARN-1-1_S31_L003_R1_001.fastq.gz | RNA-Seq | 322.0 MB | link | |||
| — | EC-KD-s3-PARN-1-2_S32_L003_R1_001.fastq.gz | RNA-Seq | 479.3 MB | link | |||
| — | EC-KD-s3-PARN-2-1_S33_L003_R1_001.fastq.gz | RNA-Seq | 564.2 MB | link | |||
| — | EC-KD-s3-PARN-2-2_S34_L003_R1_001.fastq.gz | RNA-Seq | 660.1 MB | link | |||
| — | EC-OE-BOLL-1_S49_L005_R1_001.fastq.gz | RNA-Seq | 622.9 MB | link | |||
| — | EC-OE-BOLL-2_S50_L005_R1_001.fastq.gz | RNA-Seq | 545.8 MB | link | |||
| — | EC-OE-FLAG-1_S57_L005_R1_001.fastq.gz | RNA-Seq | 713.2 MB | link | |||
| — | EC-OE-FLAG-2_S58_L005_R1_001.fastq.gz | RNA-Seq | 678.1 MB | link | |||
| — | EC-OE-IFIT2-1_S43_L004_R1_001.fastq.gz | RNA-Seq | 533.2 MB | link | |||
| — | EC-OE-IFIT2-2_S44_L004_R1_001.fastq.gz | RNA-Seq | 560.3 MB | link | |||
| — | EC-OE-NANOS3-1_S41_L004_R1_001.fastq.gz | RNA-Seq | 617.8 MB | link | |||
| — | EC-OE-NANOS3-2_S42_L004_R1_001.fastq.gz | RNA-Seq | 532.1 MB | link | |||
| — | EC-OE-SNRPA-1_S55_L005_R1_001.fastq.gz | RNA-Seq | 688.4 MB | link | |||
| — | EC-OE-SNRPA-2_S56_L005_R1_001.fastq.gz | RNA-Seq | 676.4 MB | link | |||
| — | EC-OE-TOB1-1_S51_L005_R1_001.fastq.gz | RNA-Seq | 771.7 MB | link | |||
| — | EC-OE-TOB1-2_S52_L005_R1_001.fastq.gz | RNA-Seq | 568.2 MB | link | |||
| — | EC-OE-TOB2-1_S53_L005_R1_001.fastq.gz | RNA-Seq | 601.9 MB | link | |||
| — | EC-OE-TOB2-2_S54_L005_R1_001.fastq.gz | RNA-Seq | 641.4 MB | link |