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).

• sgcocaller and comapr: personalised haplotype assembly and comparative crossover map analysis using single-gamete sequencing data.

  PMID 36107768 · PMC9723612 · Nucleic acids research · 2022 · 8 claims · 2 setups

  Has reproduction · 77

  sgcocaller is a command-line toolkit (implemented in Nim) that directly processes large single-cell DNA-sequencing alignment files to construct personalised haplotypes and call crossovers in gametes.

  sperm apricot single-gamete

• RNA-Seq alignment to individualized genomes improves transcript abundance estimates in multiparent populations.

  PMID 25236449 · PMC4174954 · Genetics · 2014 · 8 claims · 7 setups

  Has reproduction · 50

  Genetic variants distinguishing an individual genome from the reference cause read misalignment and biased transcript abundance estimates, and fine-tuning of alignment algorithms does not correct this problem.

  liver genomic cast simulated bulk high-density rna-seq