| Title |
Gene-level differential analysis at transcript-level resolution
|
|---|---|
| Published in |
Genome Biology, April 2018
|
| DOI | 10.1186/s13059-018-1419-z |
| Pubmed ID | |
| Authors |
Lynn Yi, Harold Pimentel, Nicolas L. Bray, Lior Pachter |
| Abstract |
Compared to RNA-sequencing transcript differential analysis, gene-level differential expression analysis is more robust and experimentally actionable. However, the use of gene counts for statistical analysis can mask transcript-level dynamics. We demonstrate that 'analysis first, aggregation second,' where the p values derived from transcript analysis are aggregated to obtain gene-level results, increase sensitivity and accuracy. The method we propose can also be applied to transcript compatibility counts obtained from pseudoalignment of reads, which circumvents the need for quantification and is fast, accurate, and model-free. The method generalizes to various levels of biology and we showcase an application to gene ontologies. |
X Demographics
The data shown below were collected from the profiles of 44 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 | 11 | 25% |
| United Kingdom | 5 | 11% |
| France | 3 | 7% |
| Germany | 2 | 5% |
| Switzerland | 2 | 5% |
| Portugal | 1 | 2% |
| Spain | 1 | 2% |
| Sweden | 1 | 2% |
| Denmark | 1 | 2% |
| Other | 2 | 5% |
| Unknown | 15 | 34% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 27 | 61% |
| Members of the public | 16 | 36% |
| Science communicators (journalists, bloggers, editors) | 1 | 2% |
Mendeley readers
The data shown below were compiled from readership statistics for 316 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Unknown | 316 | 100% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Researcher | 71 | 22% |
| Student > Ph. D. Student | 61 | 19% |
| Student > Master | 32 | 10% |
| Student > Bachelor | 27 | 9% |
| Student > Postgraduate | 20 | 6% |
| Other | 45 | 14% |
| Unknown | 60 | 19% |
| Readers by discipline | Count | As % |
|---|---|---|
| Biochemistry, Genetics and Molecular Biology | 115 | 36% |
| Agricultural and Biological Sciences | 71 | 22% |
| Computer Science | 20 | 6% |
| Neuroscience | 6 | 2% |
| Engineering | 6 | 2% |
| Other | 27 | 9% |
| Unknown | 71 | 22% |
Attention Score in Context
This research output has an Altmetric Attention Score of 31. 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 14 August 2023.
All research outputs
#1,261,356
of 25,382,440 outputs
Outputs from Genome Biology
#958
of 4,468 outputs
Outputs of similar age
#27,763
of 343,384 outputs
Outputs of similar age from Genome Biology
#7
of 35 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 95th 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 78% 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 343,384 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 35 others from the same source and published within six weeks on either side of this one. This one has done well, scoring higher than 80% of its contemporaries.