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X Demographics
Mendeley readers
Attention Score in Context
| Title |
The proBAM and proBed standard formats: enabling a seamless integration of genomics and proteomics data
|
|---|---|
| Published in |
Genome Biology, January 2018
|
| DOI | 10.1186/s13059-017-1377-x |
| Pubmed ID | |
| Authors |
Gerben Menschaert, Xiaojing Wang, Andrew R. Jones, Fawaz Ghali, David Fenyö, Volodimir Olexiouk, Bing Zhang, Eric W. Deutsch, Tobias Ternent, Juan Antonio Vizcaíno |
| Abstract |
On behalf of The Human Proteome Organization (HUPO) Proteomics Standards Initiative, we introduce here two novel standard data formats, proBAM and proBed, that have been developed to address the current challenges of integrating mass spectrometry-based proteomics data with genomics and transcriptomics information in proteogenomics studies. proBAM and proBed are adaptations of the well-defined, widely used file formats SAM/BAM and BED, respectively, and both have been extended to meet the specific requirements entailed by proteomics data. Therefore, existing popular genomics tools such as SAMtools and Bedtools, and several widely used genome browsers, can already be used to manipulate and visualize these formats "out-of-the-box." We also highlight that a number of specific additional software tools, properly supporting the proteomics information available in these formats, are now available providing functionalities such as file generation, file conversion, and data analysis. All the related documentation, including the detailed file format specifications and example files, are accessible at http://www.psidev.info/probam and at http://www.psidev.info/probed . |
X Demographics
The data shown below were collected from the profiles of 28 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 | 7 | 25% |
| United Kingdom | 7 | 25% |
| France | 2 | 7% |
| Portugal | 1 | 4% |
| Norway | 1 | 4% |
| Germany | 1 | 4% |
| Belgium | 1 | 4% |
| Spain | 1 | 4% |
| Russia | 1 | 4% |
| Other | 0 | 0% |
| Unknown | 6 | 21% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Members of the public | 15 | 54% |
| Scientists | 12 | 43% |
| Science communicators (journalists, bloggers, editors) | 1 | 4% |
Mendeley readers
The data shown below were compiled from readership statistics for 55 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Unknown | 55 | 100% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 13 | 24% |
| Researcher | 12 | 22% |
| Student > Master | 8 | 15% |
| Other | 5 | 9% |
| Student > Bachelor | 3 | 5% |
| Other | 9 | 16% |
| Unknown | 5 | 9% |
| Readers by discipline | Count | As % |
|---|---|---|
| Biochemistry, Genetics and Molecular Biology | 24 | 44% |
| Agricultural and Biological Sciences | 13 | 24% |
| Computer Science | 2 | 4% |
| Medicine and Dentistry | 2 | 4% |
| Business, Management and Accounting | 1 | 2% |
| Other | 5 | 9% |
| Unknown | 8 | 15% |
Attention Score in Context
This research output has an Altmetric Attention Score of 23. 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 24 May 2019.
All research outputs
#1,632,289
of 25,382,440 outputs
Outputs from Genome Biology
#1,330
of 4,468 outputs
Outputs of similar age
#37,766
of 448,910 outputs
Outputs of similar age from Genome Biology
#24
of 48 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 93rd percentile: it's in the top 10% 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 gotten more attention than average, scoring higher than 70% 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 448,910 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 91% of its contemporaries.
We're also able to compare this research output to 48 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 50% of its contemporaries.