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).
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Applications for protein sequence-function evolution data: mRNA/protein expression analysis and coding SNP scoring tools.
PMID 16912992 · PMC1538848 · Nucleic acids research · 2006 · 7 claims · 8 setups
PANTHER HMMs built from family/subfamily multiple sequence alignments can classify novel protein sequences into functional groups based on statistically significant HMM match scores
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Has reproduction · 56
Analysis of subcellular transcriptomes by RNA proximity labeling with Halo-seq.
PMID 34875090 · PMC8887463 · Nucleic acids research · 2022 · 6 claims · 8 setups
Halo-seq pairs a light-activatable Halo-DBF ligand with Click chemistry to label and purify spatially defined RNA populations in living cells with high spatial specificity (~100 nm radius)
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Has reproduction · 67
Cyrface: An interface from Cytoscape to R that provides a user interface to R packages.
PMID 24715956 · PMC3962008 · F1000Research · 2013 · 8 claims · 6 setups
Cyrface is a Cytoscape app/Java library providing a general interface from Cytoscape (Java) to any R function or package.
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KEGG spider: interpretation of genomics data in the context of the global gene metabolic network.
PMID 19094223 · PMC2646283 · Genome biology · 2008 · 8 claims · 8 setups
KEGG spider, using a global 'pathway-free' metabolic network framework, provides deeper insight into metabolism variations than existing enrichment-based methods.