|
| Status |
Public on Jul 12, 2019 |
| Title |
A pooled single-cell genetic screen identifies regulatory barriers in the continuum of the epithelial-to-mesenchymal transition |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We demonstrate that progression along EMT occurs along a continuum and that interruption of key signaling events reveals regulatory “barriers” that mimic discrete stages.
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| |
|
| Overall design |
Single-cell RNA-seq experiments were performed on the 10X Genomics platform for MCF10A and HuMEC cells plated and harvested as a function of space. These experiments were repeated in MCF10A cells expressing Cas9 and transduced with a CROP-seq library targeting EMT-associated cell surface receptors and transcription factors.
|
| |
|
| Contributor(s) |
McFaline-Figueroa JL, Trapnell C |
| Citation(s) |
31477929 |
| |
| Submission date |
May 21, 2018 |
| Last update date |
Nov 05, 2019 |
| Contact name |
José L McFaline-Figueroa |
| E-mail(s) |
jm5200@columbia.edu, joselmc@uw.edu
|
| Organization name |
Columbia University
|
| Department |
Biomedical Engineering
|
| Street address |
500W 120th st.
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10033 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
|
| Samples (12)
|
|
| Relations |
| BioProject |
PRJNA472237 |
| SRA |
SRP148545 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE114687_CROPSeq_pseudospace_cds.rds.gz |
585.7 Mb |
(ftp)(http) |
RDS |
| GSE114687_CROPSeq_pseudospace_metadata.tsv.gz |
1.0 Mb |
(ftp)(http) |
TSV |
| GSE114687_CROPseq_pseudospace_barcodes.tsv.gz |
108.5 Kb |
(ftp)(http) |
TSV |
| GSE114687_CROPseq_pseudospace_genes.tsv.gz |
251.1 Kb |
(ftp)(http) |
TSV |
| GSE114687_CROPseq_pseudospace_matrix.mtx.gz |
280.4 Mb |
(ftp)(http) |
MTX |
| GSE114687_HuMEC_Pseudospace_aggregated_cds.rds.gz |
229.9 Mb |
(ftp)(http) |
RDS |
| GSE114687_HuMEC_barcodes.tsv.gz |
84.5 Kb |
(ftp)(http) |
TSV |
| GSE114687_HuMEC_genes.tsv.gz |
251.2 Kb |
(ftp)(http) |
TSV |
| GSE114687_HuMEC_matrix.mtx.gz |
164.0 Mb |
(ftp)(http) |
MTX |
| GSE114687_HuMEC_pseudospace_metadata.tsv.gz |
702.1 Kb |
(ftp)(http) |
TSV |
| GSE114687_pseudospace_barcodes.tsv.gz |
96.8 Kb |
(ftp)(http) |
TSV |
| GSE114687_pseudospace_cds.rds.gz |
120.2 Mb |
(ftp)(http) |
RDS |
| GSE114687_pseudospace_genes.tsv.gz |
251.1 Kb |
(ftp)(http) |
TSV |
| GSE114687_pseudospace_matrix.mtx.gz |
212.5 Mb |
(ftp)(http) |
MTX |
| GSE114687_pseudospace_metadata.tsv.gz |
265.0 Kb |
(ftp)(http) |
TSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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