GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE85294 Query DataSets for GSE85294
Status Public on Jun 11, 2017
Title Profiles of Long Noncoding RNAs in Human Naive and Memory T Cells
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary We employed whole-genome RNA-sequencing to profile mRNAs and both annotated and novel long noncoding RNAs (lncRNAs) in human naive, central memory, and effector memory CD4+ T cells. Loci transcribing both lineage-specific annotated and novel lncRNA are adjacent to lineage-specific protein-coding genes in the genome. Lineage-specific novel lncRNA loci are transcribed from lineage-specific typical- and supertranscriptional enhancers and are not multiexonic, thus are more similar to enhancer RNAs. Novel enhancer-associated lncRNAs transcribed from the IFNG locus bind the transcription factor NF-κB and enhance binding of NF-κB to the IFNG genomic locus. Depletion of the annotated lncRNA, IFNG-AS1, or one IFNG enhancer-associated lncRNA abrogates IFNG expression by memory T cells, indicating these lncRNAs have biologic function.
Overall design We extracted RNA from CD4+ naïve, central memory, and effector memory cell populations in healthy control subjects to assess expression levels of protein-coding and non-coding genes.
Contributor(s) Spurlock III CF, Shaginurova G, Tossberg JT, Hester JD, Chapman N, Guo Y, Crooke III PS, Aune TM
Citation(s) 28600289
Submission date Aug 08, 2016
Last update date May 15, 2019
Contact name Charles F Spurlock III
Phone 6153432363
Organization name Vanderbilt University School of Medicine
Department Medicine
Lab T3113
Street address 1161 21st Avenue South
City Nashville
State/province Tennessee
ZIP/Postal code 37232
Country USA
Platforms (1)
GPL21290 Illumina HiSeq 3000 (Homo sapiens)
Samples (9)
GSM2264211 Naïve- Replicate 1
GSM2264212 Central Memory- Replicate 1
GSM2264213 Effector Memory- Replicate 1
BioProject PRJNA338118
SRA SRP081073

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
GSE85294_read_count_table.txt.gz 668.8 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Processed data are available on Series record
Raw data are available in SRA

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap