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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Has reproduction · 80
Single-Cell Hi-C Technologies and Computational Data Analysis.
PMID 39887949 · PMC11884588 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025 · 8 claims · 12 setups
Thirteen scHi-C protocols currently exist—eight capturing chromatin interactions exclusively and five combining scHi-C with other assays for multi-omics 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
Empowering integrative and collaborative exploration of single-cell and spatial multimodal data with SGS genome browser.
PMID 40233745 · PMC12143324 · Cell genomics · 2025 · 8 claims · 6 setups
SGS is a user-friendly, collaborative, versatile browser for integrative visualization of single-cell and spatial multimodal (scMulti-omics) data
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Has reproduction · 93
Firefly genomes illuminate parallel origins of bioluminescence in beetles.
PMID 30324905 · PMC6191289 · eLife · 2018 · 8 claims · 8 setups
Bioluminescence evolved independently at least twice in beetles: once in the firefly ancestor and once in the bioluminescent click beetle ancestor.
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Has reproduction · 97
Determination of complete chromosomal haplotypes by bulk DNA sequencing.
PMID 33957932 · PMC8101039 · Genome biology · 2021 · 8 claims · 8 setups
A hierarchical computational strategy that first builds high-confidence local haplotype blocks from long-range/linked-read linkage and then concatenates them into whole-chromosome haplotypes using Hi-C contacts
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Has reproduction · 85
Chromosome-level genome assembly of Lilford's wall lizard, Podarcis lilfordi (Günther, 1874) from the Balearic Islands (Spain).
PMID 37137526 · PMC10214862 · DNA research : an international journal for rapid publication of reports on genes and genomes · 2023 · 8 claims · 8 setups
First high-quality chromosome-level genome assembly and annotation of P. lilfordi, generated via a mixed sequencing strategy (10X linked reads, ONT long reads, Hi-C) plus RNAseq/Iso-Seq
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Has reproduction · 82
The GATA factor ELT-3 specifies endoderm in Caenorhabditis angaria in an ancestral gene network.
PMID 36196618 · PMC9720673 · Development (Cambridge, England) · 2022 · 8 claims · 8 setups
Can-elt-3 (and orthologues in C. portoensis and C. monodelphis) is expressed in the early E lineage prior to elt-2 orthologue expression
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Has reproduction · 80
Progressive transformation of the HIV-1 reservoir cell profile over two decades of antiviral therapy.
PMID 36596305 · PMC9839361 · Cell host & microbe · 2023 · 8 claims · 7 setups
After long-term ART, intact HIV-1 proviruses are predominantly integrated in heterochromatin locations, most prominently centromeric satellite/micro-satellite DNA.
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Has reproduction · 91
Chromosome-level genome assembly of agar-producing red seaweed Gracilaria vermiculophylla.
PMID 41629338 · PMC12966425 · Scientific data · 2026 · 8 claims · 8 setups
A chromosome-level genome assembly of G. vermiculophylla was generated by combining DNBSeq short reads, Nanopore long reads, and Hi-C data.
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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.