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).

Publications 1.3k Datasets 392.5k Experiments 4

System / cell line: differentially ✕ Assay: maximum ✕ Clear

Functional module detection through integration of single-cell RNA sequencing data with protein-protein interaction networks.

PMID 33138772 · PMC7607865 · BMC genomics · 2020 · 8 claims · 6 setups

Has reproduction · 83

scPPIN integrates scRNA-seq-derived p-values with PPINs to detect maximum-weight connected subgraphs (active/functional modules) via an exact Steiner-tree approach

liver hepatocyte detected adipose single-cell differential protein-protein
A comparative gene co-expression analysis using self-organizing maps on two congener filmy ferns identifies specific desiccation tolerance mechanisms associated to their microhabitat preference.

PMID 32019526 · PMC7001327 · BMC plant biology · 2020 · 8 claims · 6 setups

Has reproduction · 62

H. caudiculatum (lower canopy) exhibits about twice as many differentially expressed genes as H. dentatum (upper canopy), with a higher proportion of both increased and decreased gene abundance during dehydration.

hymenophyllum dark-adapted annotated differentially bulk relative chlorophyll
GAUGE-Annotated Microbial Transcriptomic Data Facilitate Parallel Mining and High-Throughput Reanalysis To Form Data-Driven Hypotheses.

PMID 33758032 · PMC8547006 · mSystems · 2021 · 7 claims · 6 setups

Has reproduction · 70

GAUGE automatically annotates GEO microbial microarray and RNA-seq data sets, increasing the percentage amenable to analysis from 4% to 33%.

aeruginosa cerevisiae gauge-annotated microarray rna-seq anova
A Novel Algicidal Bacterium, Microbulbifer sp. YX04, Triggered Oxidative Damage and Autophagic Cell Death in Phaeocystis globosa, Which Causes Harmful Algal Blooms.

PMID 35019679 · PMC8754136 · Microbiology spectrum · 2022 · 8 claims · 9 setups

Has reproduction · 36

Microbulbifer sp. YX04 shows high algicidal activity against P. globosa, peaking at 93.2% in the declining growth phase

phaeocystis strain yx04 globosa algicidal 16s scanning

Experiments

Functional module detection through integration of single-cell RNA sequencing data with protein-protein interaction networks.

A comparative gene co-expression analysis using self-organizing maps on two congener filmy ferns identifies specific desiccation tolerance mechanisms associated to their microhabitat preference.

GAUGE-Annotated Microbial Transcriptomic Data Facilitate Parallel Mining and High-Throughput Reanalysis To Form Data-Driven Hypotheses.

A Novel Algicidal Bacterium, Microbulbifer sp. YX04, Triggered Oxidative Damage and Autophagic Cell Death in Phaeocystis globosa, Which Causes Harmful Algal Blooms.