Genome Biology
17.7K posts
Genome Biology
@GenomeBiology
Tweets about latest articles in the journal Genome Biology, conferences & more. Part of @SpringerNature. Also read our blogs (tiny.cc/GBblogs).
- Replying to @GenomeBiology and @phylogenomicsNo, wait. You said ruin. Sorry.
- GeneWalk, from @robertietswaart, @fiddle and co, is a method for prioritizing genes from a gene list. Given a list of genes, eg from RNA-seq experiment, it constructs a regulatory network and uses GO annotations to identify the most relevant genes. genomebiology.biomedcentral.com/articles/10.11…
- Just gave my name in Starbucks as @GenomeBiology and the barista said 'this coffee is better suited to a more specialist journal' and gave it to someone else.
- Artifacts in gene expression data cause problems for gene co-expression networks. Principal component correction can reduce false discoveries. New work from @princyparsana, Ruberman, @alexisjbattle, @jtleek and co genomebiology.biomedcentral.com/articles/10.11…
- A new opinion from @asiepel looks at how bioinformatics grew up from ad hoc, almost hobbyist beginnings, into the underpinning of most of modern biology, but the funding routes have not adapted. He suggests ways to improve the funding support genomebiology.biomedcentral.com/articles/10.11…
- The person who designed this poster has a day job coming up with names for bioinformatics softwareThis poster wins so much at how to use acronyms.
- New editorial from @StevenSalzberg1 discussing how automatic genome annotation has not kept pace with genome sequencing, and how improvements in sequencing have, somewhat paradoxically, made annotation worse
- Study of false positives when calling differentially expressed genes, from @YM123411, @ge_xinzhou, @FanglueP, @superweili & @jsb_ucla. With population-scale sample sizes, common methods have inflated FDR. The authors suggest using Wilcoxon rank-sum test genomebiology.biomedcentral.com/articles/10.11…
- Benchmarking of 36 workflows for determining gene co-expression networks from RNA-seq data, from @kaylainbio & @compbiologist Data came from SRA and GTEx, and the benchmarking evaluated normalization and network transformation methods genomebiology.biomedcentral.com/articles/10.11…
- recount3, from @chrisnwilks. @KasperDHansen, @BenLangmead & co, is a resource of 750,000 mouse and human RNA-seq datasets uniformly processed with the same pipeline. It allows rapid queries across the whole dataset, eg cross-species or cross-study genomebiology.biomedcentral.com/articles/10.11…
- Exciting news: from Jan 1st, we will be moving to transparent peer review (where referee reports are published anonymously alongside the published article)
- Zhang,@realzhang, Xiong, Zhu and co show that, although H3K27ac is used as a marker for active enhancers, you can remove it from mESCs and enhancers still function with little alteration to the transcriptome. genomebiology.biomedcentral.com/articles/10.11…
- Gorin, @vallens and @lpachter extend the RNA velocity, so that when given single cell transcriptomic and proteomic data, rather than predicting what the cell will be like in the future, they infer what it was like in the past. genomebiology.biomedcentral.com/articles/10.11…
