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 6

Assay: prophage ✕ Clear

Capsular specificity in temperate phages of Klebsiella pneumoniae is driven by diverse receptor-binding enzymes.

PMID 42048315 · PMC13123978 · PLoS biology · 2026 · 8 claims · 5 setups

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Capsular specificity in temperate K. pneumoniae phages is driven by structurally diverse prophage-encoded receptor-binding enzymes, including classical β-helix depolymerases, SGNH-domain hydrolases, and structurally novel RBPs.

klebsiella candidate genome-wide prophage capsular
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 was sequenced and compared with 18 other L. plantarum genomes to identify genomic features underlying its gut-health-promoting probiotic properties.

lactobacillus plantarum whole-genome gene comparative
Short-term genome evolution of Listeria monocytogenes in a non-controlled environment.

PMID 19014550 · PMC2642827 · BMC genomics · 2008 · 6 claims · 6 setups

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The 2000 listeriosis outbreak was likely caused by an L. monocytogenes strain that persisted in the food processing facility for at least 12 years since 1988

monocytogenes additional food j774 whole-genome comparative pcr
Comparative genomic analysis of the gut bacterium Bifidobacterium longum reveals loci susceptible to deletion during pure culture growth.

PMID 18505588 · PMC2430713 · BMC genomics · 2008 · 8 claims · 8 setups

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Comparative genomics of B. longum DJO10A (minimally cultured) and NCC2705 (culture collection strain) reveals 17 unique DNA regions in DJO10A and 6 in NCC2705 despite otherwise high genome collinearity and identity

bifidobacterium longum xbai-digested whole-genome base codon
What the Phage: a scalable workflow for the identification and analysis of phage sequences.

PMID 36399058 · PMC9673492 · GigaScience · 2022 · 8 claims · 7 setups

Has reproduction · 76

WtP combines 11 tools (14 approaches) for phage prediction in a parallel, containerized Nextflow workflow

assembled illumina phage-predicted predicted multitool metagenome gene
The first single-stranded DNA virus targeting Pectobacterium belongs to the family Microviridae and demonstrates a broad host range to Pectobacterium brasiliense soft rot pathogens.

PMID 41739249 · PMC12935840 · Archives of virology · 2026 · 8 claims · 8 setups

Has reproduction · 90

Phage Mimer is the first described lytic ssDNA (Microviridae) phage targeting Pectobacterium

phage conserved gpg cscl-gradient-purified whole-genome comparative intergenomic

Experiments

Capsular specificity in temperate phages of Klebsiella pneumoniae is driven by diverse receptor-binding enzymes.

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

Short-term genome evolution of Listeria monocytogenes in a non-controlled environment.

Comparative genomic analysis of the gut bacterium Bifidobacterium longum reveals loci susceptible to deletion during pure culture growth.

What the Phage: a scalable workflow for the identification and analysis of phage sequences.

The first single-stranded DNA virus targeting Pectobacterium belongs to the family Microviridae and demonstrates a broad host range to Pectobacterium brasiliense soft rot pathogens.