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| Status |
Public on Jul 15, 2021 |
| Title |
Inferring regulatory targets of transcription factors from simultaneous single cell measurements of intranuclear proteins and gene expression |
| Organisms |
Homo sapiens; Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Simultaneous single cell measurements of nuclear proteins and RNA with inCITE-seq, with targeted protein measurements using DNA-conjugated antibodies. Single nuclei (n=10,014) of HeLa cells, either untreated or after TNFa treatment, were profiled with inCITE-seq targeting the transcription factor p65. Single nuclei (n=21,583) of the mouse hippocampus after PBS or kainic acid injection were profiled with inCITE-seq targeting TFs p65, c-Fos, and PU.1, as well as the RNA-binding protein NeuN.
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| Overall design |
Joint single cell measurements of targeted nuclear proteins and RNA with inCITE-seq.
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| Contributor(s) |
Chung H, Regev A |
| Citation(s) |
34608310 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| RM1 HG006193 |
Center for Cell Circuits |
THE BROAD INSTITUTE, INC. |
AVIV REGEV |
| HHMI_Regev_A |
Investigator |
Regev, Aviv |
Aviv Regev |
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| |
| Submission date |
Dec 18, 2020 |
| Last update date |
Oct 14, 2021 |
| Contact name |
Hattie Chung |
| Organization name |
Broad Institute
|
| Street address |
415 Main St
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
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| Platforms (2) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (3) |
| GSM4979850 |
Single cell measurements of RNA & nuclear proteins in HeLa nuclei (n=1 non-treated, n=1 TNFalpha treated) |
| GSM4979851 |
Single cell measurements of RNA & nuclear proteins in adult mouse hippocampus (n=2 PBS, n=2 kainic acid) [inCITE] |
| GSM5453315 |
normal snRNA-seq of mouse hippocampus (n=1 PBS and n=1 KA treated mice, pooled) |
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| Relations |
| BioProject |
PRJNA686382 |
| SRA |
SRP298463 |
