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Systematic target function annotation of human transcription factors

Overview of attention for article published in BMC Biology, January 2018
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About this Attention Score

  • Good Attention Score compared to outputs of the same age (71st percentile)

Mentioned by

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9 tweeters

Citations

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4 Dimensions

Readers on

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33 Mendeley
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Title
Systematic target function annotation of human transcription factors
Published in
BMC Biology, January 2018
DOI 10.1186/s12915-017-0469-0
Pubmed ID
Authors

Yong Fuga Li, Russ B. Altman

Abstract

Transcription factors (TFs), the key players in transcriptional regulation, have attracted great experimental attention, yet the functions of most human TFs remain poorly understood. Recent capabilities in genome-wide protein binding profiling have stimulated systematic studies of the hierarchical organization of human gene regulatory network and DNA-binding specificity of TFs, shedding light on combinatorial gene regulation. We show here that these data also enable a systematic annotation of the biological functions and functional diversity of TFs. We compiled a human gene regulatory network for 384 TFs covering the 146,096 TF-target gene (TF-TG) relationships, extracted from over 850 ChIP-seq experiments as well as the literature. By integrating this network of TF-TF and TF-TG relationships with 3715 functional concepts from six sources of gene function annotations, we obtained over 9000 confident functional annotations for 279 TFs. We observe extensive connectivity between TFs and Mendelian diseases, GWAS phenotypes, and pharmacogenetic pathways. Further, we show that TFs link apparently unrelated functions, even when the two functions do not share common genes. Finally, we analyze the pleiotropic functions of TFs and suggest that the increased number of upstream regulators contributes to the functional pleiotropy of TFs. Our computational approach is complementary to focused experimental studies on TF functions, and the resulting knowledge can guide experimental design for the discovery of unknown roles of TFs in human disease and drug response.

Twitter Demographics

The data shown below were collected from the profiles of 9 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 33 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 33 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 7 21%
Researcher 5 15%
Student > Master 5 15%
Professor 4 12%
Student > Bachelor 2 6%
Other 6 18%
Unknown 4 12%
Readers by discipline Count As %
Agricultural and Biological Sciences 10 30%
Biochemistry, Genetics and Molecular Biology 8 24%
Computer Science 5 15%
Engineering 3 9%
Medicine and Dentistry 1 3%
Other 0 0%
Unknown 6 18%

Attention Score in Context

This research output has an Altmetric Attention Score of 6. 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 31 March 2018.
All research outputs
#4,212,237
of 16,639,069 outputs
Outputs from BMC Biology
#867
of 1,442 outputs
Outputs of similar age
#116,057
of 412,784 outputs
Outputs of similar age from BMC Biology
#95
of 127 outputs
Altmetric has tracked 16,639,069 research outputs across all sources so far. This one has received more attention than most of these and is in the 74th percentile.
So far Altmetric has tracked 1,442 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 19.6. This one is in the 39th percentile – i.e., 39% of its peers scored the same or lower than it.
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 412,784 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 71% of its contemporaries.
We're also able to compare this research output to 127 others from the same source and published within six weeks on either side of this one. This one is in the 25th percentile – i.e., 25% of its contemporaries scored the same or lower than it.