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).

• αPIX Is a Trafficking Regulator that Balances Recycling and Degradation of the Epidermal Growth Factor Receptor.

  PMID 26177020 · PMC4503440 · PloS one · 2015 · 8 claims · 8 setups

  Has reproduction

  αPIX interacts with c-Cbl, including as endogenous proteins

  cho-k1 cos-7 cho αpix co-immunoprecipitation time-course stability

• Differential recruitment of pre-mRNA splicing factors to alternatively spliced transcripts in vivo.

  PMID 16231974 · PMC1262628 · PLoS biology · 2005 · 8 claims · 8 setups

  Full-text index only

  Distinct combinations of pre-mRNA splicing factors are recruited to sites of alternatively spliced transcripts in intact cells, providing the first in vivo evidence for differential splicing factor association.

  cos-1 cos-7 tau10-1 rt-pcr quantitative rna-fish

• Endogenous Fatty Acid Synthesis Drives Brown Adipose Tissue Involution.

  PMID 33440156 · PMC8240962 · Cell reports · 2021 · 8 claims · 8 setups

  Has reproduction

  Endogenous fatty acid synthesis (DNL), regulated by ChREBP, is the central driver of BAT whitening/involution at thermoneutrality.

  bat fatty lipidomics qpcr

• Translation affects mRNA stability in a codon-dependent manner in human cells.

  PMID 31012849 · PMC6529216 · eLife · 2019 · 8 claims · 8 setups

  Has reproduction · 87

  Translation strongly affects mRNA stability in a codon-dependent manner in human cells, with specific codons stabilizing or destabilizing mRNAs.

  293t incl endogenous time-course orfome slam-seq

• Identification, characterization and comparative genomics of chimpanzee endogenous retroviruses.

  PMID 16805923 · PMC1779541 · Genome biology · 2006 · 8 claims · 6 setups

  Full-text index only

  The chimpanzee genome contains at least 42 separate families of endogenous retroviruses, 9 newly identified

  chimpanzee domains genomic hg16 genome-wide sequence ltr-ltr

• Characterization of genome-wide p53-binding sites upon stress response.

  PMID 18474530 · PMC2441782 · Nucleic acids research · 2008 · 7 claims · 7 setups

  Full-text index only

  Genome-wide ChIP-on-chip identified 1546 high-confidence p53-binding sites upon Actinomycin D treatment in U2OS cells

  u2os saos-2 chip-on-chip chip-qpcr western

• Fatty acid synthesis suppresses dietary polyunsaturated fatty acid use.

  PMID 38167725 · PMC10762034 · Nature communications · 2024 · 7 claims · 8 setups

  Has reproduction · 94

  FASN activity critically determines the use/incorporation of dietary PUFA into complex lipids in mice and humans

  index nash patient-derived hek293t lipidomics 14c-acetate cycloheximide

• Proteomic surveillance of retinal autoantigens in endogenous uveitis: implication of esterase D and brain-type creatine kinase as novel autoantigens.

  PMID 18552983 · PMC2426731 · Molecular vision · 2008 · 7 claims · 6 setups

  Full-text index only

  Six novel candidate retinal autoantigens (β-actin, esterase D, tubulin β-2, brain-type creatine kinase, VDAC, aspartate aminotransferase) were identified by 2D-WB and mass spectrometry in EAU mice

  c57bl retinal recombinant eau two-dimensional maldi-tof one-dimensional

• Recruitment of the m(6)A/m6Am demethylase FTO to target RNAs by the telomeric zinc finger protein ZBTB48.

  PMID 39300486 · PMC11414060 · Genome biology · 2024 · 8 claims · 8 setups

  Has reproduction · 78

  ZBTB48 physically interacts with the m6A/m6Am demethylase FTO

  hek293 inducible polyadenylated ap-ms co-immunoprecipitation clip

• Dynamic Proteomics: a database for dynamics and localizations of endogenous fluorescently-tagged proteins in living human cells.

  PMID 19820112 · PMC2808965 · Nucleic acids research · 2010 · 8 claims · 6 setups

  Full-text index only

  The Dynamic Proteomics database compiles fluorescence dynamics and localization data for endogenously YFP/Venus-tagged human proteins from the LARC library studied by Cohen et al.

  h1299 cdna user-submitted time-lapse cd-tagging race

• Arabidopsis RBV is a conserved WD40 repeat protein that promotes microRNA biogenesis and ARGONAUTE1 loading.

  PMID 35260568 · PMC8904849 · Nature communications · 2022 · 7 claims · 8 setups

  Has reproduction · 55

  RBV, a WD40 repeat protein, is required for global microRNA biogenesis in Arabidopsis

  amir-sul col 14-day-old arabidopsis small rna-seq gel

• Expression of full-length p53 and its isoform Deltap53 in breast carcinomas in relation to mutation status and clinical parameters.

  PMID 17054774 · PMC1636663 · Molecular cancer · 2006 · 7 claims · 7 setups

  Full-text index only

  The alternative splice isoform Δp53 mRNA is co-expressed with full-length p53 mRNA in breast tumors and cell lines

  breast universal p53 subset qrt-pcr bioinformatic structure

• A novel POMT2 mutation causes mild congenital muscular dystrophy with normal brain MRI.

  PMID 18804929 · PMC2702532 · Brain & development · 2009 · 6 claims · 8 setups

  Full-text index only

  A novel homozygous POMT2 mutation (c.604T>G, p.F202V) causes mild congenital muscular dystrophy with normal brain MRI

  skeletal genomic cos serum immunohistochemistry immunoblotting laminin

• A novel mutation causing mild, atypical fumarylacetoacetase deficiency (Tyrosinemia type I): a case report.

  PMID 20003495 · PMC2802351 · Orphanet journal of rare diseases · 2009 · 8 claims · 7 setups

  Full-text index only

  A novel FAH gene mutation, c.103G>A (Ala35Thr), causes a mild, atypical form of tyrosinemia type I

  fibroblasts liver genomic tnt northern western liver

• Disome-seq reveals widespread ribosome collisions that promote cotranslational protein folding.

  PMID 33402206 · PMC7784341 · Genome biology · 2021 · 8 claims · 8 setups

  Has reproduction · 74

  Disome-seq sequences mRNA fragments protected by two stacked (collided) ribosomes, detecting ribosome collisions at codon resolution.

  saccharomyces yeast disome-seq monosome-seq mrna-seq

• Orthogonal cytokine engineering enables novel synthetic effector states escaping canonical exhaustion in tumor-rejecting CD8(+) T cells.

  PMID 37081150 · PMC10154250 · Nature immunology · 2023 · 8 claims · 6 setups

  Has reproduction · 37

  Orthogonal engineering of CD8+ T cells to co-secrete IL-2v and IL-33 (with PD-1 decoy) drives a novel synthetic effector state (C5 T_SE) that deviates from canonical PD-1+TOX+ exhaustion.

  ot1 b16-ova facs-sorted engineered adoptive flow single-cell

• Deubiquitination enzyme USP35 negatively regulates MAVS signaling to inhibit anti-tumor immunity.

  PMID 40016186 · PMC11868397 · Cell death & disease · 2025 · 8 claims · 8 setups

  Has reproduction · 81

  USP35 negatively regulates RIG-I/MAVS signaling and MAVS-mediated type I interferon production

  hek293t b16f10 culture bl21 dual real-time elisa

• Landscape of allele-specific transcription factor binding in the human genome.

  PMID 33980847 · PMC8115691 · Nature communications · 2021 · 8 claims · 6 setups

  Has reproduction · 82

  A novel statistical framework (ADASTRA) calls allele-specific TF binding from existing ChIP-Seq alignments by jointly correcting for background allelic dosage (BAD, from aneuploidy/CNVs) and reference mapping bias.

  gtrd k562 mcf7 types chip-seq variant bayesian

• JunB Is Critical for Survival of T Helper Cells.

  PMID 35837408 · PMC9273772 · Frontiers in immunology · 2022 · 7 claims · 7 setups

  Has reproduction · 69

  JunB is required for clonal expansion of Th1, Th2, and Th17 cells

  ot-ii junb naive th1 flow adoptive th1

• Defactinib inhibits PYK2 phosphorylation of IRF5 and reduces intestinal inflammation.

  PMID 34795257 · PMC8602323 · Nature communications · 2021 · 8 claims · 12 setups

  Has reproduction · 67

  PYK2 was identified as a putative IRF5 kinase via a kinase inhibitor library screen in macrophages

  raw264.7 hektlr4 hoxb8-derived colon kinase co-immunoprecipitation co-ip