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GSE122713

GSE GEO
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scRNA-seq, bulk RNA-seq, and ATAC-seq data from progenitor exhausted and terminally exhausted CD8+ T cells from tumors and chronic viral infection

Organism: Mus musculus
Platform: GPL19057
Samples: 72
Experiment Types:
Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing
Submitted: Nov 19 2018
Last Updated: Mar 25 2019
Status: Public on Nov 20 2018
Contact: Kevin,,Bi (Dana-Farber Cancer Institute)

Relations

SuperSeries of: GSE122675 SuperSeries of: GSE122712 SuperSeries of: GSE123235 SuperSeries of: GSE123236 BioProject: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA506053

Summary

This SuperSeries is composed of the SubSeries listed below.

Overall Design

Refer to individual Series

Analysis (3 steps)

View Data Processing
Processing steps for GSE122713
  1. Sample demultiplexing, barcode processing, alignment, filtering, UMI counting, and aggregation of multiple sequencing runs were performed using the Cell Ranger analysis pipeline (v1.2)
  2. Data normalization, dimension reduction, and differential expression analysis were performed using the Seurat R package (v2.2.0)
  3. Single cell signatures scoring was performed using the FastProject software (v1.1.0)

Supplementary Files (1)

GSE122713_RAW.tar Download
GEO Samples (72)
GSM3477862 GSM3477863 GSM3477864 GSM3477865 GSM3483809 GSM3483810 GSM3498434 GSM3498435 GSM3498436 GSM3498437 GSM3498438 GSM3498439 GSM3498440 GSM3498441 GSM3498442 GSM3498443 GSM3498444 GSM3498445 GSM3498446 GSM3498447 GSM3498448 GSM3498449 GSM3498450 GSM3498451 GSM3498452 GSM3498453 GSM3498454 GSM3498455 GSM3498456 GSM3498457 GSM3498458 GSM3498459 GSM3498460 GSM3498461 GSM3498462 GSM3498463 GSM3498464 GSM3498465 GSM3498466 GSM3498467 GSM3498468 GSM3498469 GSM3498470 GSM3498471 GSM3498472 GSM3498473 GSM3498474 GSM3498475 GSM3498476 GSM3498477 GSM3498478 GSM3498479 GSM3498480 GSM3498481 GSM3498482 GSM3498483 GSM3498484 GSM3498485 GSM3498486 GSM3498487 GSM3498488 GSM3498489 GSM3498490 GSM3498491 GSM3498492 GSM3498493 GSM3498494 GSM3498495 GSM3498496 GSM3498497 GSM3498498 GSM3498499

Dataset Citations (1)

PubMed citation (PMID 30778252)

Linked Publications (1)

Heterogenous Populations of Tissue-Resident CD8<sup>+</sup> T Cells Are Generated in Response to Infection and Malignancy.
Immunity · 2020