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).

• Effects of Pharmacological Thermogenic Adipocyte Activation on Metabolism and Atherosclerotic Plaque Regression.

  PMID 30813320 · PMC6412269 · Nutrients · 2019 · 8 claims · 7 setups

  Has reproduction

  Chronic dietary CL316,243 treatment reduces adiposity and enhances body weight loss independent of food intake in LDLR-deficient mice

  ldlr-deficient bat ingwat liver body histology quantitative

• De novo assembly of a transcriptome for Calanus finmarchicus (Crustacea, Copepoda)--the dominant zooplankter of the North Atlantic Ocean.

  PMID 24586345 · PMC3929608 · PloS one · 2014 · 8 claims · 8 setups

  Has reproduction · 59

  A de novo transcriptome for Calanus finmarchicus was assembled from six developmental-stage libraries, yielding 206,041 contigs and a reference set of 96,090 unique comps, representing a new molecular resource for this species.

  calanus pooled raw combined bulk extraction read

• Maternal Fine Particulate Matter Exposure Impairs Inguinal White Adipose Tissue Plasticity in Middle-Aged Male Mouse Offspring.

  PMID 41648986 · PMC12918713 · ACS nano · 2026 · 7 claims · 8 setups

  Full-text index only

  Maternal PM2.5 exposure induces insulin resistance in middle-aged male (but not female) offspring despite normal body weight/obesity status

  pregnant iwat adsc whole-body body histology

• The Drosophila estrogen-related receptor promotes triglyceride storage within the larval fat body.

  PMID 40288680 · PMC12155637 · Journal of lipid research · 2025 · 8 claims · 8 setups

  Has reproduction · 88

  dERR autonomously promotes TAG accumulation within larval fat body cells

  mid-l2 larval dissected tag immunofluorescence nile

• GATA2 controls alveolar macrophage inflammatory gene expression and metabolic function.

  PMID 41712459 · PMC13134736 · JCI insight · 2026 · 8 claims · 8 setups

  Full-text index only

  GATA2 deficiency promotes enhanced inflammatory gene expression and metabolic dysfunction in alveolar macrophages in response to type 2 stimuli

  bal cd11c+ ams lung flow immunostaining bodipy

• Nutritional genomics, polyphenols, diets, and their impact on dietetics.

  PMID 18954579 · PMC2692306 · Journal of the American Dietetic Association · 2008 · 8 claims · 8 setups

  Full-text index only

  Nutrient-gene interactions, exemplified by the MTHFR C677T polymorphism, modulate individual metabolic responses (e.g., homocysteine metabolism) and can be offset by adjusting nutrient intake such as folate

  mammary embryonic subjects rats gene histone carcinogen-induced

• Meta-analysis of inter-species liver co-expression networks elucidates traits associated with common human diseases.

  PMID 20019805 · PMC2787626 · PLoS computational biology · 2009 · 8 claims · 8 setups

  Full-text index only

  A novel semi-parametric meta-analysis method (based on a gene-centric Glass's d effect size) outperforms existing parametric and non-parametric meta-analysis methods at identifying functionally coherent gene pairs across species.

  liver simulated conserved nearly gene simulation kolmogorov-smirnov

• Protocol to annotate dendritic cell maturation types in vivo making use of lipid nanoparticle-based approaches.

  PMID 41811845 · PMC12994025 · STAR protocols · 2026 · 8 claims · 8 setups

  Full-text index only

  Different LNP formulations (cargo type, adjuvant presence) can be used to steer DC maturation along a homeostatic-immunogenic spectrum in vivo

  lipid linearized transcribed mc38 lnp transcription agarose

• The transcription factor HHEX maintains glucocorticoid levels and protects adrenals from androgen-induced lipid depletion.

  PMID 41519914 · PMC12891536 · Nature communications · 2026 · 8 claims · 8 setups

  Full-text index only

  HHEX is the most enriched transcription factor in glucocorticoid-producing zona fasciculata (zF) cells, conserved across mouse, rat, and human adrenal

  sf1-cre-high adrenocortical scrna-seq rnascope immunohistochemistry

• Innate immune modulation by RNA viruses: emerging insights from functional genomics.

  PMID 18654572 · PMC7097543 · Nature reviews. Immunology · 2008 · 8 claims · 7 setups

  Full-text index only

  Influenza virus signals primarily through RIG-I to induce ISG expression, while West Nile virus signals through both RIG-I and MDA5 cooperatively.

  embryonic liver brain serial gene-expression computational

• Brown adipose tissue lipoprotein and glucose disposal is not determined by thermogenesis in uncoupling protein 1-deficient mice.

  PMID 32769145 · PMC7604721 · Journal of lipid research · 2020 · 6 claims · 4 setups

  Has reproduction

  Glucose and lipoprotein handling by thermogenic adipose tissue does not necessarily reflect UCP1-dependent thermogenic activity

  bat thermogenic radiolabeled thermogenic

• Toxoplasma: the next 100years.

  PMID 18672085 · PMC2596634 · Microbes and infection · 2008 · 8 claims · 8 setups

  Full-text index only

  Micronemes, rhoptries, and dense granules are specialized secretory organelles that mediate T. gondii host cell invasion and remodeling

  gondii mammalian cdna affymetrix sage

• Multi-omic identification of perineurial hyperplasia and lipid-associated nerve macrophages in human polyneuropathies.

  PMID 40849297 · PMC12375038 · Nature communications · 2025 · 8 claims · 8 setups

  Has reproduction · 90

  Multi-omic profiling (snRNA-seq + spatial transcriptomics) of human sural nerves identifies novel cell type markers (MLIP in mySC; GRIK3, PRIMA1 in nmSC; CXCL14 in periC) not previously described in rodent or human literature

  sural peripheral snrna-seq nerve single-nucleus subcellular situ

• Targeting the Lipid Metabolism Proteins FASN and GPAM in Alveolar Type II Cells Decreases Lung Metastasis.

  PMID 41778850 · PMC7619144 · Cancer discovery · 2026 · 7 claims · 8 setups

  Full-text index only

  AT2 cells and surfactant lipids (e.g., PC, PE, PI, PG) are enriched in the vicinity of breast cancer lung metastases in both patients and mice

  postmortem lungs lung at2 immunohistochemistry maldi-msi longitudinal

• PID1 regulates insulin-dependent glucose uptake by controlling intracellular sorting of GLUT4-storage vesicles.

  PMID 30904610 · PMC6624118 · Biochimica et biophysica acta. Molecular basis of disease · 2019 · 8 claims · 8 setups

  Has reproduction

  PID1 serves as an insulin-regulated retention adaptor protein controlling co-translocation of LRP1 and GLUT4 to the adipocyte plasma membrane

  brown bat muscle qrt-pcr western insulin

• The integrated world of functional genomics.

  PMID 12537543 · PMC151279 · Genome biology · 2003 · 8 claims · 8 setups

  Full-text index only

  Integrating chromatin immunoprecipitation (promoter-binding) data with expression data reveals the yeast cell-cycle transcriptional regulatory network, including network motifs such as autoregulation, multi-component loops, and feedforward loops.

  cerevisiae sequenced elegans drosophila chromatin integration comparative

• The butyrophilin 1a1 knockout mouse revisited: Ablation of Btn1a1 leads to concurrent cell death and renewal in the mammary epithelium during lactation.

  PMID 34938960 · PMC8664049 · FASEB bioAdvances · 2021 · 8 claims · 8 setups

  Has reproduction · 98

  BTN1A1 functions as an apical membrane receptor that forms a lipid-droplet secretion complex with the redox enzyme xanthine oxidoreductase (XDH)

  mammary rna-seq proteomic qrt-pcr

• TFEB deficiency attenuates mitochondrial degradation upon brown adipose tissue whitening at thermoneutrality.

  PMID 33516944 · PMC7903014 · Molecular metabolism · 2021 · 7 claims · 8 setups

  Has reproduction

  BAT whitening at thermoneutrality is associated with TFEB-dependent mitochondrial degradation.

  bat subscapular tfeb-bat-ko metabolically qrt-pcr western immunohistochemistry

• Diapause vs. reproductive programs: transcriptional phenotypes in a keystone copepod.

  PMID 33782539 · PMC8007741 · Communications biology · 2021 · 8 claims · 7 setups

  Has reproduction · 57

  t-SNE clustering of all-gene expression data groups field-collected (diapause program) samples into one cluster while early and late culture (reproductive program) samples separate into two distinct phenotypes

  calanus same 11k degs bulk dimensionality differential

• Comparison between short-term stress and long-term adaptive responses reveal common paths to molecular adaptation.

  PMID 35243257 · PMC8873613 · iScience · 2022 · 8 claims · 7 setups

  Has reproduction · 59

  Short-term stress and long-term adaptations share common metabolic pathways

  great embryonic gef mapk1 bulk gene transcription