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GEO specifications

Information


Unique identifier OMICS_01030
Name GEO
Alternative names Gene Expression Omnibus, GEO Profiles, GEO DataSets, NCBI GEO
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Allowed
Maintained Yes

Maintainer


  • person_outline Tanya Barrett

Publications for Gene Expression Omnibus

GEO citations

 (3562)
library_books

B cell activation and plasma cell differentiation are inhibited by de novo DNA methylation

2018
Nat Commun
PMCID: 5953949
PMID: 29765016
DOI: 10.1038/s41467-018-04234-4

[…] er regions were defined as regions that harbor histone modifications H3K4me1 and H3K27ac but lack H3K4me3 as determined from published chromatin immunoprecipitation sequencing (ChIP-seq) experiments (Gene Expression Omnibus GSE51336 and GSE51011). Enriched regions were either those that were published by the ENCODE project (http://genome.ucsc.edu/cgi-bin/hgFileSearch?db=mm9) or were determined by […]

library_books

Estrogen related receptor gamma functions as a tumor suppressor in gastric cancer

2018
Nat Commun
PMCID: 5954140
PMID: 29765046
DOI: 10.1038/s41467-018-04244-2

[…] Models for Microarray Data package in the R language environment. The expression level of each gene was then log2 transformed before further analysis. The microarray data are available from the NCBI Gene Expression Omnibus public database (GSE78050). […]

call_split

Altered lung biology of healthy never smokers following acute inhalation of E cigarettes

2018
PMCID: 5950177
PMID: 29754582
DOI: 10.1186/s12931-018-0778-z
call_split See protocol

[…] RNA (0.5 μg) was submitted to the New York Genome Center for RNA-sequencing (2 × 125 bp) on the Illumina HiSeq2500 following TruSeq v2 mRNA library prep. The data are publically available in the NCBI Gene Expression Omnibus (GEO accession number: GSE85121). Illumina HiSeq paired-end reads from NYGC RNA-Seq data were processed with STAR (2.3.1z13_r470) to align reads to the GRCh37/hg19 human refere […]

library_books

Parental haplotype specific single cell transcriptomics reveal incomplete epigenetic reprogramming in human female germ cells

2018
Nat Commun
PMCID: 5951918
PMID: 29760424
DOI: 10.1038/s41467-018-04215-7

[…] Visualization: The data was visualized using the R packages gplots, ggplot2, and Markdown Reports.Transcriptional analysis: Single cells from female germ cells our dataset and from Guo et al., 2015 (Gene Expression Omnibus (GEO) database GSE63818) with at least 7500 genes expressed were used for transcriptomics analysis (129 female germ cells and 26 female somatic cells). The data was primarily a […]

library_books

The novel 19q13 KRAB zinc finger tumour suppressor ZNF382 is frequently methylated in oesophageal squamous cell carcinoma and antagonises Wnt/β catenin signalling

2018
PMCID: 5951945
PMID: 29760376
DOI: 10.1038/s41419-018-0604-z

[…] ChIP-Seq of ZNF382 from human HEK293 cells were obtained from the Gene Expression Omnibus (GEO, https://www.ncbi.nlm.nih.gov/geo) database. The GSM2424064_ENCFF191YCR_fold_change_over_control_GRCh38.bigWig file was downloaded. We annotated those peaks by using R pac […]

library_books

Inhibition of glutamate oxaloacetate transaminase 1 in cancer cell lines results in altered metabolism with increased dependency of glucose

2018
BMC Cancer
PMCID: 5948873
PMID: 29751795
DOI: 10.1186/s12885-018-4443-1

[…] The datasets supporting the conclusions of this article are at the Gene Expression Omnibus under accession numbers GDS3966 (https://www.ncbi.nlm.nih.gov/sites/GDSbrowser/?acc=GDS3966) and GSE19188 (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE19188). The lun […]

Citations

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GEO institution(s)
National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA
GEO funding source(s)
Supported by the Intramural Research Program of the National Institutes of Health, National Library of Medicine.

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