|
| Status |
Public on Jan 05, 2023 |
| Title |
190712_media_M6_Unsorted_S1 |
| Sample type |
SRA |
| |
|
| Source name |
H1 human embryonic stem cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: H1 human embryonic stem cells
differentiation protocol: overexpression of a library with 3,548 transcription factors
time point: 7 days
screen condition: M6 media sample 1 unsorted
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lentivirus RNA was extracted using the QIAmp Viral RNA Mini Kit (Qiagen 52906). Genomic DNA was extracted using the Quick-DNA Midiprep Plus Kit (Zymo D4075)
Lentivirus RNA was reverse transcribed using the qScript Flex cDNA Kit (VWR 95049-100) with a custom primer (see Methods). Libraries were prepared by PCR amplification of TF barcodes using custom primers (see Methods)
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
NextSeq 550 |
| |
|
| Data processing |
bcl2fastq 2.20.0
custom Python script to determine barcode distribution (see Methods)
Assembly: TF barcode sequences
Supplementary files format and content: Aggregated TF barcode counts determined using custom Python script for each condition
Library strategy: amplicon
|
| |
|
| Submission date |
Nov 25, 2022 |
| Last update date |
Jan 05, 2023 |
| Contact name |
Julia Joung |
| E-mail(s) |
julia@joung.science
|
| Organization name |
Broad Institute
|
| Street address |
75 Ames St
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
| |
|
| Platform ID |
GPL21697 |
| Series (2) |
| GSE216481 |
A Transcription Factor Atlas of Directed Differentiation |
| GSE218789 |
A Transcription Factor Atlas of Directed Differentiation [190712_media] |
|
| Relations |
| BioSample |
SAMN31873440 |
| SRA |
SRX18379106 |
