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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Full-text index only
Comparative population genomics reveals convergent and divergent selection in the apricot-peach-plum-mei complex.
PMID 38883333 · PMC11179850 · Horticulture research · 2024 · 7 claims · 7 setups
A haplotype-resolved telomere-to-telomere (T2T) genome of plum (P. salicina cv. 'Fengtangli') was assembled into two gap-free haplotypes of 251.25 and 251.29 Mb.
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Has reproduction · 87
Extensive variation between chromosomes of North American and European hop.
PMID 42204144 · PMC13216280 · Nature communications · 2026 · 8 claims · 8 setups
Chromosome-scale, haplotype-resolved genome assemblies of the hybrid hop cultivar Apollo were generated using hifiasm, ALLHiC, and TRITEX pipelines with PacBio HiFi and Hi-C data
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Has reproduction · 99
A haplotype-resolved genome assembly of the bocaccio rockfish, Sebastes paucispinis.
PMID 40323688 · PMC12584591 · The Journal of heredity · 2025 · 6 claims · 8 setups
This paper presents the first de novo, haplotype-resolved reference-quality genome assembly of Sebastes paucispinis (bocaccio rockfish).
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Has reproduction · 90
Streaming Long-Read Sequence Alignments for HLA Predictions Using HLAminer.
PMID 40145684 · PMC11948951 · Current protocols · 2025 · 6 claims · 5 setups
Streaming minimap2 alignment output directly into HLAminer via Unix pipe (-a stream mode) enables HLA class I and II allele prediction without storing bulky SAM alignment files on disk
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Has reproduction · 90
Gap-free telomere-to-telomere haplotype assembly of the tomato hind (Cephalopholis sonnerati).
PMID 39578472 · PMC11584678 · Scientific data · 2024 · 8 claims · 8 setups
Two T2T gap-free haplotype assemblies of C. sonnerati (YSFRI_Csonn_HA_1.0 and YSFRI_Csonn_HB_1.0) were successfully generated, each spanning 24 chromosomes with no gaps.
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Has reproduction · 73
Genetic polyploid phasing from low-depth progeny samples.
PMID 35692633 · PMC9184567 · iScience · 2022 · 8 claims · 7 setups
WH-PPG phases polyploid parental samples by scoring informative variant pairs with a Bayesian log-likelihood model of progeny allele depths, clustering alleles by co-occurrence likelihood, and assigning clusters to haplotypes via interval scheduling
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Has reproduction · 95
Comparative Genome Analysis of 16SrXII-A 'Candidatus Phytoplasma solani' POT Transmitted by Hyalesthes obsoletus.
PMID 41597744 · PMC12843639 · Microorganisms · 2026 · 7 claims · 8 setups
The complete 832,614 bp circular chromosome of the H. obsoletus-transmissible 'Ca. P. solani' 16SrXII-A strain POT was assembled and functionally reconstructed.
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Has reproduction · 73
Gapless provides combined scaffolding, gap filling, and assembly correction with long reads.
PMID 37142439 · PMC10166144 · Life science alliance · 2023 · 8 claims · 5 setups
gapless is a new tool that combines assembly correction, scaffolding, and gap filling in one pipeline using PacBio or Oxford Nanopore long reads.
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Has reproduction · 80
SLDMS: A Tool for Calculating the Overlapping Regions of Sequences.
PMID 35046988 · PMC8761809 · Frontiers in plant science · 2021 · 8 claims · 5 setups
SLDMS is a novel method for computing overlapping regions of sequencing reads using suffix array (SA), longest common prefix (LCP) array, document array (DA), and a monotonic stack.