| Title |
McEnhancer: predicting gene expression via semi-supervised assignment of enhancers to target genes
|
|---|---|
| Published in |
Genome Biology, October 2017
|
| DOI | 10.1186/s13059-017-1316-x |
| Pubmed ID | |
| Authors |
Dina Hafez, Aslihan Karabacak, Sabrina Krueger, Yih-Chii Hwang, Li-San Wang, Robert P. Zinzen, Uwe Ohler |
| Abstract |
Transcriptional enhancers regulate spatio-temporal gene expression. While genomic assays can identify putative enhancers en masse, assigning target genes is a complex challenge. We devised a machine learning approach, McEnhancer, which links target genes to putative enhancers via a semi-supervised learning algorithm that predicts gene expression patterns based on enriched sequence features. Predicted expression patterns were 73-98% accurate, predicted assignments showed strong Hi-C interaction enrichment, enhancer-associated histone modifications were evident, and known functional motifs were recovered. Our model provides a general framework to link globally identified enhancers to targets and contributes to deciphering the regulatory genome. |
X Demographics
The data shown below were collected from the profiles of 89 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 | 20 | 22% |
| Germany | 10 | 11% |
| United Kingdom | 6 | 7% |
| Canada | 4 | 4% |
| Australia | 3 | 3% |
| Spain | 2 | 2% |
| Israel | 2 | 2% |
| France | 2 | 2% |
| French Polynesia | 1 | 1% |
| Other | 9 | 10% |
| Unknown | 30 | 34% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 61 | 69% |
| Members of the public | 25 | 28% |
| Science communicators (journalists, bloggers, editors) | 2 | 2% |
| Practitioners (doctors, other healthcare professionals) | 1 | 1% |
Mendeley readers
The data shown below were compiled from readership statistics for 131 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Unknown | 131 | 100% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 46 | 35% |
| Researcher | 19 | 15% |
| Student > Master | 18 | 14% |
| Student > Bachelor | 9 | 7% |
| Student > Doctoral Student | 6 | 5% |
| Other | 17 | 13% |
| Unknown | 16 | 12% |
| Readers by discipline | Count | As % |
|---|---|---|
| Biochemistry, Genetics and Molecular Biology | 53 | 40% |
| Agricultural and Biological Sciences | 32 | 24% |
| Computer Science | 9 | 7% |
| Medicine and Dentistry | 6 | 5% |
| Neuroscience | 3 | 2% |
| Other | 10 | 8% |
| Unknown | 18 | 14% |
Attention Score in Context
This research output has an Altmetric Attention Score of 48. 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 05 December 2017.
All research outputs
#876,049
of 25,382,440 outputs
Outputs from Genome Biology
#590
of 4,468 outputs
Outputs of similar age
#18,436
of 338,126 outputs
Outputs of similar age from Genome Biology
#19
of 60 outputs
Altmetric has tracked 25,382,440 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 96th percentile: it's in the top 5% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 4,468 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 done well, scoring higher than 86% 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 338,126 tracked outputs that were published within six weeks on either side of this one in any source. This one has done particularly well, scoring higher than 94% of its contemporaries.
We're also able to compare this research output to 60 others from the same source and published within six weeks on either side of this one. This one has gotten more attention than average, scoring higher than 68% of its contemporaries.