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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Nov 28, 2024 |
| Title |
Paired CRISPR screens to map gene regulation in cis and trans (HiChIP) |
| Organism |
Homo sapiens |
| Experiment type |
Other
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| Summary |
In this study, we develop a scalable approach that pairs discovery of cis- and trans-acting elements to systematically decipher the gene regulatory network. We explore the regulation of the immune checkpoint PD-L1 under both basal and IFNγ-stimulated contexts. PD-L1 expression on tumor cells serves as a clinically-actionable diagnostic for immune checkpoint blockade therapy across multiple cancer types.
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| Overall design |
H3K27ac HiChIP for untreated and IFNγ-treated BxPC-3 human pancreatic adenocarcinoma cells
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| Contributor(s) |
Xue X, Gajic Z, Caragine C, Legut M, Walker C, Kim J, Wang X, Yan RE, Wessels H, Lu C, Bapodra N, Gursoy G, Sanjana NE |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Feb 13, 2024 |
| Last update date |
Nov 28, 2024 |
| Contact name |
Xinhe Xue |
| E-mail(s) |
[email protected]
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| Organization name |
New York Genome Center/New York University
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| Street address |
101 Avenue of the Americas
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| City |
NEW YORK |
| State/province |
New York |
| ZIP/Postal code |
10013 |
| Country |
USA |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (12)
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| GSM8402311 |
BxPC3,noIFNγ, Replicate1, H3K27ac HiChIP |
| GSM8402312 |
BxPC3,noIFNγ, Replicate2, H3K27ac HiChIP |
| GSM8402313 |
BxPC3,noIFNγ, Replicate3, H3K27ac HiChIP |
| GSM8402314 |
BxPC3,noIFNγ, Replicate4, H3K27ac HiChIP |
| GSM8402315 |
BxPC3,noIFNγ, Replicate5, H3K27ac HiChIP |
| GSM8402316 |
BxPC3,noIFNγ, Replicate6, H3K27ac HiChIP |
| GSM8402317 |
BxPC3,plusIFNγ, Replicate1, H3K27ac HiChIP |
| GSM8402318 |
BxPC3,plusIFNγ, Replicate2, H3K27ac HiChIP |
| GSM8402319 |
BxPC3,plusIFNγ, Replicate3, H3K27ac HiChIP |
| GSM8402320 |
BxPC3,plusIFNγ, Replicate4, H3K27ac HiChIP |
| GSM8402321 |
BxPC3,plusIFNγ, Replicate5, H3K27ac HiChIP |
| GSM8402322 |
BxPC3,plusIFNγ, Replicate6, H3K27ac HiChIP |
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| This SubSeries is part of SuperSeries: |
| GSE255701 |
Paired CRISPR screens to map gene regulation in cis and trans |
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| Relations |
| BioProject |
PRJNA1076190 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE255700_BXPC3_HiChIP_NoIFNy_5kbBin.contacts.txt.gz |
425.4 Mb |
(ftp)(http) |
TXT |
| GSE255700_BXPC3_HiChIP_PlusIFNy_5kbBin.contacts.txt.gz |
442.5 Mb |
(ftp)(http) |
TXT |
| GSE255700_RAW.tar |
9.4 Gb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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