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 10

System / cell line: sequence ✕ Assay: cog ✕ Clear

MiGPC: a comprehensive catalog of enzybiotics from environmental metagenomes.

PMID 41888223 · PMC13172421 · Scientific reports · 2026 · 8 claims · 8 setups

Has reproduction · 24

MiGPC is the first genome-resolved metagenomic gene and protein catalog specifically targeted to enzybiotics

environmental quality-filtered assembled predicted metagenomic metagenome gene
Complete genome of Phenylobacterium zucineum--a novel facultative intracellular bacterium isolated from human erythroleukemia cell line K562.

PMID 18700039 · PMC2529317 · BMC genomics · 2008 · 8 claims · 6 setups

Full-text index only

Complete genome of P. zucineum HLK1T consists of a 3,996,255 bp circular chromosome and a 382,976 bp circular plasmid encoding 3,861 proteins, 42 tRNAs, and one 16S-23S-5S rRNA operon

phenylobacterium zucineum bacteria genome cog comparative
Genome wide survey of G protein-coupled receptors in Tetraodon nigroviridis.

PMID 16022726 · PMC1187884 · BMC evolutionary biology · 2005 · 8 claims · 8 setups

Full-text index only

466 Tetraodon GPCRs (Tnig-GPCRs) were identified genome-wide, of which 457 had not been previously reported

tetraodon tnig-gpcr non-rhodopsin-like domain sequence transmembrane
Transcriptome profiling of radish (Raphanus sativus L.) root and identification of genes involved in response to Lead (Pb) stress with next generation sequencing.

PMID 23840502 · PMC3688795 · PloS one · 2013 · 8 claims · 5 setups

Has reproduction · 27

A de novo radish root transcriptome of 68,940 assembled transcripts including 33,337 unigenes was generated, providing the first comprehensive molecular characterization of the radish root response to Pb stress.

radish assembled rna-seq novo functional
Comparative phosphoproteomics reveals evolutionary and functional conservation of phosphorylation across eukaryotes.

PMID 18828897 · PMC2760871 · Genome biology · 2008 · 8 claims · 8 setups

Full-text index only

The overlap between phosphoproteomes of six eukaryotes (human, mouse, fly, yeast, plant, zebrafish) is significantly greater than expected by chance.

liver fruit yeast plant high-throughput comparative
Comprehensive transcriptome study to develop molecular resources of the copepod Calanus sinicus for their potential ecological applications.

PMID 24982883 · PMC4055022 · BioMed research international · 2014 · 8 claims · 8 setups

Has reproduction · 61

Illumina RNA-Seq with Trinity de novo assembly produced a C. sinicus transcriptome of 69,751 contigs (average 928.8 bp, N50 1,127 bp) from 58.9 million reads.

calanus sinicus genomic rna-seq novo sequence
Complete Genome Sequencing of Lactobacillus plantarum ZLP001, a Potential Probiotic That Enhances Intestinal Epithelial Barrier Function and Defense Against Pathogens in Pigs.

PMID 30542296 · PMC6277807 · Frontiers in physiology · 2018 · 8 claims · 8 setups

Has reproduction · 68

The complete genome of L. plantarum ZLP001 comprises a single 3,164,369 bp circular chromosome (GC 44.65%) plus seven plasmids (A–G), encoding 3,264 protein-coding sequences.

lactobacillus plantarum whole-genome novo gene
Mutations in PIK3CA are infrequent in neuroblastoma.

PMID 16822308 · PMC1533846 · BMC cancer · 2006 · 8 claims · 6 setups

Full-text index only

PIK3CA activating mutations are infrequent in human neuroblastoma (2.9%, 2/69 tumors)

neuroblastoma neuroblastoma-derived patients th-mycn targeted sanger rt-pcr
Benefit from decline: the primary transcriptome of Alteromonas macleodii str. Te101 during Trichodesmium demise.

PMID 29335641 · PMC5864184 · The ISME journal · 2018 · 7 claims · 6 setups

Has reproduction

Increasing salinity to >=43 ppt inhibits Trichodesmium growth/increases mortality while stimulating growth of associated Alteromonas, shifting community dominance to the heterotroph

alteromonas co-culture trichodesmium differential bulk whole-genome
Analysis of the Taxonomy, Synteny, and Virulence Factors for Soft Rot Pathogen Pectobacterium aroidearum in Amorphophallus konjac Using Comparative Genomics.

PMID 35910650 · PMC9326479 · Frontiers in microbiology · 2022 · 8 claims · 8 setups

Has reproduction · 100

The causal agent of konjac soft rot in China is Pectobacterium aroidearum, confirmed via in vitro/in vivo pathogenicity tests, ANI, dDDH, and phylogenomic analysis.

amorphophallus 6-month-old bacterial aroidearum pathogenicity pectinolytic 16s

Experiments

MiGPC: a comprehensive catalog of enzybiotics from environmental metagenomes.

Complete genome of Phenylobacterium zucineum--a novel facultative intracellular bacterium isolated from human erythroleukemia cell line K562.

Genome wide survey of G protein-coupled receptors in Tetraodon nigroviridis.

Transcriptome profiling of radish (Raphanus sativus L.) root and identification of genes involved in response to Lead (Pb) stress with next generation sequencing.

Comparative phosphoproteomics reveals evolutionary and functional conservation of phosphorylation across eukaryotes.

Comprehensive transcriptome study to develop molecular resources of the copepod Calanus sinicus for their potential ecological applications.

Complete Genome Sequencing of Lactobacillus plantarum ZLP001, a Potential Probiotic That Enhances Intestinal Epithelial Barrier Function and Defense Against Pathogens in Pigs.

Mutations in PIK3CA are infrequent in neuroblastoma.

Benefit from decline: the primary transcriptome of Alteromonas macleodii str. Te101 during Trichodesmium demise.

Analysis of the Taxonomy, Synteny, and Virulence Factors for Soft Rot Pathogen Pectobacterium aroidearum in Amorphophallus konjac Using Comparative Genomics.