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).

• A machine learning approach uncovers principles and determinants of eukaryotic ribosome pausing.

  PMID 39423268 · PMC11488575 · Science advances · 2024 · 8 claims · 5 setups

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  An unsupervised ML pipeline using the extended isolation forest (EIF) algorithm can reliably detect ribosome pausing sites from noisy, coverage-biased RiboSeq data across expression levels

  saccharomyces simulated yeast riboseq simulated comparative

• spotter: a single-nucleotide resolution stochastic simulation model of supercoiling-mediated transcription and translation in prokaryotes.

  PMID 37602419 · PMC10516669 · Nucleic acids research · 2023 · 8 claims · 4 setups

  Has reproduction · 77

  spotter is the first simulation model to integrate transcription, DNA supercoiling, and translation simultaneously in a single stochastic framework for prokaryotes.

  coli simulated net-seq ribosome stochastic