ArticleBMC bioinformatics2016
The Lair: a resource for exploratory analysis of published RNA-Seq data.
Article in BMC bioinformatics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
8 citing papers in PubMed.
- Coronavirus genomes carry the signatures of their habitats.PloS one · 2020Article
- GREIN: An Interactive Web Platform for Re-analyzing GEO RNA-seq Data.Scientific reports · 2019Article
- Article
- Loss of Trem2 in microglia leads to widespread disruption of cell coexpression networks in mouse brain.Neurobiology of aging · 2018Article
- TransAtlasDB: an integrated database connecting expression data, metadata and variants.Database : the journal of biological databases and curation · 2018Article
- Extensive transcriptomic and epigenomic remodelling occurs during Arabidopsis thaliana germination.Genome biology · 2017Article
- stageR: a general stage-wise method for controlling the gene-level false discovery rate in differential expression and differential transcript usage.Genome biology · 2017Article
- HvPap-1 C1A Protease Participates Differentially in the Barley Response to a Pathogen and an Herbivore.Frontiers in plant science · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
Increased emphasis on reproducibility of published research in the last few years has led to the large-scale archiving of sequencing data. While this data can, in theory, be used to reproduce results in papers, it is difficult to use in practice. We introduce a series of tools for processing and analyzing RNA-Seq data in the Sequence Read Archive, that together have allowed us to build an easily extendable resource for analysis of data underlying published papers. Our system makes the exploration of data easily accessible and usable without technical expertise. Our database and associated tools can be accessed at The Lair: http://pachterlab.github.io/lair .
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.