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Series GSE79651 Query DataSets for GSE79651
Status Public on Jul 27, 2016
Title End Sequence Analysis ToolKit (ESAT) expands the extractable information from single cell RNA-Seq data
Organisms Mus musculus; Rattus norvegicus
Experiment type Expression profiling by high throughput sequencing
Summary Test data used for the evaluation of ESAT performance and results files for data from 3' and 5' end-sequencing RNA-Seq protocols and droplet-based single-cell RNA-Seq.
Overall design Quantification and analysis of Tophat-aligned (v2.0.9) samples from mouse bone-marrow derived dendritic cells (mBMDC) timecourse (0, 2, 4 and 6 hours) post LPS stimulation and non-diabetic BBDR rat pancreatic islet cells.
Since end-sequencing (3' or 5') is used for all samples, alignments are only required for the R2 (sequence-containing) read.
Contributor(s) Derr AG, Yang C, Zilionis R, Redick S, Artyomov M, Garber M
Citation(s) 27470110
Submission date Mar 28, 2016
Last update date May 15, 2019
Contact name Alan G Derr
Organization name University of Massachusetts Medical School
Department Program in Bioinformatics and Integrative Biology
Lab Garber Lab
Street address 55 Lake Ave North
City Worcester
State/province Massachusetts
ZIP/Postal code 01655
Country USA
Platforms (2)
GPL14844 Illumina HiSeq 2000 (Rattus norvegicus)
GPL15103 Illumina HiSeq 1000 (Mus musculus)
Samples (14)
GSM2100477 Mouse DC 3-prime 0h rep2
GSM2100478 Mouse DC 3-prime 2h rep1
GSM2100479 Mouse DC 3-prime 2h rep2
BioProject PRJNA316604
SRA SRP072449

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE79651_3end_ESAT.gene.txt.gz 298.8 Kb (ftp)(http) TXT
GSE79651_3end_ESAT.window.txt.gz 628.9 Kb (ftp)(http) TXT
GSE79651_5end_ESAT.gene.txt.gz 263.8 Kb (ftp)(http) TXT
GSE79651_5end_ESAT.window.txt.gz 759.3 Kb (ftp)(http) TXT
GSE79651_RAW.tar 5.4 Mb (http)(custom) TAR (of TXT, XLSX)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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