Experiments
Searchable full-text extractions: founding hypothesis, core claims, experimental setups, key results and statistics — pulled out of each paper as structure. Search a cell line, an assay or an entity (e.g. HUH7) and find every paper that worked with it. This corpus stands on its own: most entries carry no reproduction assessment (yet).
-
Has reproduction · 76
nf-core/circrna: a portable workflow for the quantification, miRNA target prediction and differential expression analysis of circular RNAs.
PMID 36694127 · PMC9875403 · BMC bioinformatics · 2023 · 8 claims · 4 setups
Existing circRNA workflows are limited: none delineate circRNA-miRNA interactions and only one performs differential expression analysis, requiring users to supplement missing analysis types with in-house expertise
-
Full-text index only
Pegasys: software for executing and integrating analyses of biological sequences.
PMID 15096276 · PMC406494 · BMC bioinformatics · 2004 · 8 claims · 7 setups
Pegasys is a flexible, modular, customizable software system for executing and integrating heterogeneous biological sequence analysis tools
-
Full-text index only
Analysis of the prostate cancer cell line LNCaP transcriptome using a sequencing-by-synthesis approach.
PMID 17010196 · PMC1592491 · BMC genomics · 2006 · 8 claims · 7 setups
High-throughput 454 sequencing-by-synthesis of LNCaP cDNA can profile transcript abundance across the transcriptome
-
Has reproduction · 68
Bayesian transcriptome assembly.
PMID 25367074 · PMC4397945 · Genome biology · 2014 · 8 claims · 8 setups
Bayesembler, a probabilistic transcriptome assembler built on a Bayesian model of the RNA sequencing process with Gibbs sampling over expressed candidates, abundances and read assignments, is introduced.