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).

• Reconstruction of 2,965 Microbial Genomes from Mangrove Sediments across Guangxi, China.

  PMID 41419779 · PMC12858935 · Scientific data · 2025 · 7 claims · 8 setups

  Has reproduction · 87

  A standardized assembly, binning, and dereplication pipeline was used to reconstruct 2,965 non-redundant MAGs from 38 mangrove sediment samples across six sites in Guangxi

  mangrove sediment quality-filtered bacterial whole-genome physicochemical laser

• Taxonomic and Functional Assessment of Microbial Communities in Urban Runoff-Contaminated Mangrove Sediments.

  PMID 41991668 · PMC13086700 · Current microbiology · 2026 · 7 claims · 7 setups

  Full-text index only

  Colhereiro mangrove shows more pronounced signatures of chronic urban pollution than Araçá Bay, including elevated macronutrients and enrichment of sulfur-metabolizing bacteria and Arcobacter

  mangrove pooled bacterial selected 16s sediment bacterial

• Integration of bioinformatic tools for the detection of SARS-CoV-2 co-infection cases.

  PMID 41609640 · PMC12856159 · Microbial genomics · 2026 · 8 claims · 8 setups

  Full-text index only

  Sample PH-RITM-1395 represents a Delta–Omicron co-infection, confirmed by convergent evidence from Nextclade, bammix, Freyja, VirStrain, AAF analysis and amplicon sorting rather than contamination

  consensus aligned raw bam nextclade nucleotide strain-level

• metaTraits: a large-scale integration of microbial phenotypic trait information.

  PMID 41296543 · PMC12807735 · Nucleic acids research · 2026 · 8 claims · 6 setups

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  metaTraits integrates culture-derived trait data from BacDive, BV-BRC, JGI IMG, and GOLD with genome-based predictions for isolate genomes (proGenomes) and MAGs (SPIRE)

  high-quality medium isolate genomes genome-based genome taxonomic

• Phenotypic screening, transcriptional profiling, and comparative genomic analysis of an invasive and non-invasive strain of Candida albicans.

  PMID 18950481 · PMC2579918 · BMC microbiology · 2008 · 8 claims · 8 setups

  Full-text index only

  Strain SC5314 is invasive and virulent whereas strain ATCC10231 is non-invasive and strongly attenuated in virulence

  albicans hep-2 rhe blood phenotypic growth adhesion

• Characterization of protein isoform diversity in human umbilical vein endothelial cells via long-read proteogenomics.

  PMID 36457147 · PMC9721438 · RNA biology · 2022 · 8 claims · 7 setups

  Has reproduction · 93

  Long-read RNA-seq detected 53,863 transcript isoforms from 10,426 genes in HUVECs, of which 22,195 were novel

  huvecs huvec long-read bottom-up offline

• The genomic analysis of lactic acidosis and acidosis response in human cancers.

  PMID 19057672 · PMC2585811 · PLoS genetics · 2008 · 8 claims · 8 setups

  Full-text index only

  Lactic acidosis and hypoxia induce largely distinct gene expression programs in HMECs, with lactic acidosis producing a much larger and more dramatic response

  mammary hmec gene breast gene real-time bayesian

• Oxidative stress protection and growth promotion activity of Pseudomonas mercuritolerans sp. nov., in forage plants under mercury abiotic stress conditions.

  PMID 36560952 · PMC9763275 · Frontiers in microbiology · 2022 · 8 claims · 8 setups

  Has reproduction · 54

  Inoculation with SAICEUPSM^T significantly reduces the oxidative stress enzymatic response (CAT, APX, SOD, GR) in Lupinus albus grown under mercury stress

  lupinus saiceupsm^t greenhouse enzymatic mercury

• Dual-platform metagenomic surveillance distinguishes pathogen and resistome hotspots across agricultural and mixed-use watersheds.

  PMID 41890980 · PMC13015239 · One health (Amsterdam, Netherlands) · 2026 · 8 claims · 7 setups

  Full-text index only

  Agricultural drainage ditches consistently harbor higher fecal-associated bacterial diversity than mixed-use or forested sites, with pronounced seasonal shifts (higher during spring/fall high-flow periods).

  surface shotgun trimmed co-assembled 16s shotgun short-read