Comment[ArrayExpressAccession] E-GEOD-45657 MAGE-TAB Version 1.1 Public Release Date 2014-08-17 Investigation Title AA Effector CD8 T cell profiling Comment[Submitted Name] AA Effector CD8 T cell profiling Experiment Description Flow sorted CD3+CD8+CD44+CXCR3+NKG2D+ lymph node cells from C3H/HeJ mice with alopecia were flow sorted and profiled in relation to CD3+CD8+CD44+CXCR3+NKG2D- lymph node cells from the same host Cell populations were sorted from three separate mice Term Source Name ArrayExpress EFO Term Source File http://www.ebi.ac.uk/arrayexpress/ http://www.ebi.ac.uk/efo/efo.owl Person Last Name Jabbari Jabbari Cerise Christiano Person First Name Ali Ali Jane Angela Person Mid Initials E M Person Email jabbari.ali@gmail.com Person Affiliation Columbia University Person Address Columbia University, 1150 St. Nicholas Ave, Rm 307, New York, NY, USA Person Roles submitter Protocol Name P-GSE45657-2 P-GSE45657-1 Protocol Description Samples were demultiplexed using CASAVA 1.8.2. TopHat v 2.0.4 was used to map reads, num-threads=4, max-multihits=10, --GTF= mm9/genes.gtf htseqcount was used to extract counts from accepted_hits.bam files output by TopHat. Genome_build: mm9 Supplementary_files_format_and_content: Text, tab-delimited, htseqcount output miRNeasy RNA extraction w/on-column Dnase digestion TruSeq RNA Sample Preparation Kit v2 for multiplexing and library prep, barcodes are provided in raw file names Protocol Type normalization data transformation protocol nucleic acid library construction protocol Experimental Factor Name phenotype Experimental Factor Type phenotype Publication Title Alopecia areata is driven by cytotoxic T lymphocytes and is reversed by JAK inhibition. Publication Author List Xing L, Dai Z, Jabbari A, Cerise JE, Higgins CA, Gong W, de Jong A, Harel S, DeStefano GM, Rothman L, Singh P, Petukhova L, Mackay-Wiggan J, Christiano AM, Clynes R PubMed ID 25129481 Publication DOI 10.1038/nm.3645 Comment[SecondaryAccession] GSE45657 Comment[GEOReleaseDate] 2014-08-17 Comment[ArrayExpressSubmissionDate] 2013-04-01 Comment[GEOLastUpdateDate] 2014-12-04 Comment[AEExperimentType] RNA-seq of coding RNA Comment[SecondaryAccession] SRP020352 Comment[SequenceDataURI] http://www.ebi.ac.uk/ena/data/view/SRR800604-SRR800609 SDRF File E-GEOD-45657.sdrf.txt