↓ Skip to main content

ChIPXpress: using publicly available gene expression data to improve ChIP-seq and ChIP-chip target gene ranking

Overview of attention for article published in BMC Bioinformatics, June 2013
Altmetric Badge

About this Attention Score

  • Good Attention Score compared to outputs of the same age (69th percentile)

Mentioned by

twitter
6 tweeters

Citations

dimensions_citation
14 Dimensions

Readers on

mendeley
52 Mendeley
citeulike
1 CiteULike
You are seeing a free-to-access but limited selection of the activity Altmetric has collected about this research output. Click here to find out more.
Title
ChIPXpress: using publicly available gene expression data to improve ChIP-seq and ChIP-chip target gene ranking
Published in
BMC Bioinformatics, June 2013
DOI 10.1186/1471-2105-14-188
Pubmed ID
Authors

George Wu, Hongkai Ji

Abstract

ChIPx (i.e., ChIP-seq and ChIP-chip) is increasingly used to map genome-wide transcription factor (TF) binding sites. A single ChIPx experiment can identify thousands of TF bound genes, but typically only a fraction of these genes are functional targets that respond transcriptionally to perturbations of TF expression. To identify promising functional target genes for follow-up studies, researchers usually collect gene expression data from TF perturbation experiments to determine which of the TF targets respond transcriptionally to binding. Unfortunately, approximately 40% of ChIPx studies do not have accompanying gene expression data from TF perturbation experiments. For these studies, genes are often prioritized solely based on the binding strengths of ChIPx signals in order to choose follow-up candidates. ChIPXpress is a novel method that improves upon this ChIPx-only ranking approach by integrating ChIPx data with large amounts of Publicly available gene Expression Data (PED).

Twitter Demographics

The data shown below were collected from the profiles of 6 tweeters who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 52 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Netherlands 1 2%
France 1 2%
Hong Kong 1 2%
Australia 1 2%
United Kingdom 1 2%
Denmark 1 2%
Unknown 46 88%

Demographic breakdown

Readers by professional status Count As %
Researcher 16 31%
Student > Ph. D. Student 12 23%
Student > Master 10 19%
Professor > Associate Professor 5 10%
Student > Doctoral Student 4 8%
Other 4 8%
Unknown 1 2%
Readers by discipline Count As %
Agricultural and Biological Sciences 27 52%
Biochemistry, Genetics and Molecular Biology 13 25%
Medicine and Dentistry 4 8%
Computer Science 3 6%
Immunology and Microbiology 1 2%
Other 2 4%
Unknown 2 4%

Attention Score in Context

This research output has an Altmetric Attention Score of 4. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 15 December 2013.
All research outputs
#5,389,902
of 17,415,680 outputs
Outputs from BMC Bioinformatics
#2,323
of 6,159 outputs
Outputs of similar age
#49,875
of 164,312 outputs
Outputs of similar age from BMC Bioinformatics
#1
of 3 outputs
Altmetric has tracked 17,415,680 research outputs across all sources so far. This one has received more attention than most of these and is in the 68th percentile.
So far Altmetric has tracked 6,159 research outputs from this source. They typically receive a little more attention than average, with a mean Attention Score of 5.1. This one has gotten more attention than average, scoring higher than 62% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 164,312 tracked outputs that were published within six weeks on either side of this one in any source. This one has gotten more attention than average, scoring higher than 69% of its contemporaries.
We're also able to compare this research output to 3 others from the same source and published within six weeks on either side of this one. This one has scored higher than all of them