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X Demographics
Mendeley readers
Attention Score in Context
| Title |
Inferring regulatory element landscapes and transcription factor networks from cancer methylomes
|
|---|---|
| Published in |
Genome Biology, May 2015
|
| DOI | 10.1186/s13059-015-0668-3 |
| Pubmed ID | |
| Authors |
Lijing Yao, Hui Shen, Peter W Laird, Peggy J Farnham, Benjamin P Berman |
| Abstract |
Recent studies indicate that DNA methylation can be used to identify transcriptional enhancers, but no systematic approach has been developed for genome-wide identification and analysis of enhancers based on DNA methylation. We describe ELMER (Enhancer Linking by Methylation/Expression Relationships), an R-based tool that uses DNA methylation to identify enhancers and correlates enhancer state with expression of nearby genes to identify transcriptional targets. Transcription factor motif analysis of enhancers is coupled with expression analysis of transcription factors to infer upstream regulators. Using ELMER, we investigated more than 2,000 tumor samples from The Cancer Genome Atlas. We identified networks regulated by known cancer drivers such as GATA3 and FOXA1 (breast cancer), SOX17 and FOXA2 (endometrial cancer), and NFE2L2, SOX2 and TP63 (squamous cell lung cancer). We also identified novel networks with prognostic associations, including RUNX1 in kidney cancer. We propose ELMER as a powerful new paradigm for understanding the cis-regulatory interface between cancer-associated transcription factors and their functional target genes. |
X Demographics
The data shown below were collected from the profiles of 15 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United States | 6 | 40% |
| Saudi Arabia | 1 | 7% |
| Israel | 1 | 7% |
| United Kingdom | 1 | 7% |
| Belgium | 1 | 7% |
| Singapore | 1 | 7% |
| Unknown | 4 | 27% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 10 | 67% |
| Members of the public | 4 | 27% |
| Science communicators (journalists, bloggers, editors) | 1 | 7% |
Mendeley readers
The data shown below were compiled from readership statistics for 228 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United Kingdom | 3 | 1% |
| United States | 3 | 1% |
| China | 2 | <1% |
| Norway | 1 | <1% |
| Germany | 1 | <1% |
| Netherlands | 1 | <1% |
| Unknown | 217 | 95% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 63 | 28% |
| Researcher | 48 | 21% |
| Student > Master | 22 | 10% |
| Student > Bachelor | 18 | 8% |
| Student > Doctoral Student | 12 | 5% |
| Other | 37 | 16% |
| Unknown | 28 | 12% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 71 | 31% |
| Biochemistry, Genetics and Molecular Biology | 68 | 30% |
| Computer Science | 14 | 6% |
| Medicine and Dentistry | 13 | 6% |
| Immunology and Microbiology | 5 | 2% |
| Other | 21 | 9% |
| Unknown | 36 | 16% |
Attention Score in Context
This research output has an Altmetric Attention Score of 13. 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 21 March 2024.
All research outputs
#2,688,284
of 25,613,746 outputs
Outputs from Genome Biology
#2,117
of 4,495 outputs
Outputs of similar age
#33,296
of 280,889 outputs
Outputs of similar age from Genome Biology
#37
of 65 outputs
Altmetric has tracked 25,613,746 research outputs across all sources so far. Compared to these this one has done well and is in the 89th percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 4,495 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 27.6. This one has gotten more attention than average, scoring higher than 52% 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 280,889 tracked outputs that were published within six weeks on either side of this one in any source. This one has done well, scoring higher than 87% of its contemporaries.
We're also able to compare this research output to 65 others from the same source and published within six weeks on either side of this one. This one is in the 44th percentile – i.e., 44% of its contemporaries scored the same or lower than it.