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).

• TRAP5 Inhibition Targeting Scar-Associated Macrophages Ameliorates Acute Kidney Injury to Chronic Kidney Disease Transition.

  PMID 41773735 · PMC13159109 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 8 setups

  Full-text index only

  A distinct scar-associated macrophage (SM) subset marked by high Acp5/TRAP5, Ctsk, Mmp9, and Spp1 emerges and predominates during the renal remodeling/CKD phase after AAI-induced AKI

  kidney ckd aai unilateral single-cell velocity pseudotime

• Integrative analysis of single-cell RNA-seq and gut microbiome metabarcoding data elucidates macrophage dysfunction in mice with DSS-induced ulcerative colitis.

  PMID 38879692 · PMC11180211 · Communications biology · 2024 · 7 claims · 7 setups

  Has reproduction · 69

  Epithelial cell populations are significantly reduced during acute DSS colitis, reflecting tissue damage, with partial recovery in chronic colitis

  colon gut single-cell 16s western

• Dynamics of severity-associated immune remodeling by granulocytes and macrophages in acute lung injury.

  PMID 42111184 · PMC13157102 · iScience · 2026 · 7 claims · 7 setups

  Full-text index only

  Granulocytes expand while macrophages are depleted as ALI severity progresses from intermediate to late stage

  bronchoalveolar granulocytes granulocyte immune single-cell gene pseudotime

• Hypoxia-driven remodeling of SELENOP(+) macrophages shapes T cell dynamics and promotes ovarian cancer metastasis.

  PMID 41526347 · PMC12852879 · Nature communications · 2026 · 8 claims · 8 setups

  Full-text index only

  SELENOP+ macrophages co-occur and spatially co-localize with precursor exhausted (GZMH+) CD8+ T cells and activate these T cells via selenoprotein P in vitro and in vivo.

  hgsoc million pseudo-bulk hgsoc-derived scrna-seq sctcr-seq spatial

• Bacterial reporter-paired scRNA sequencing reveals cross talk between zinc starvation and zinc toxicity in macrophage antibacterial defense.

  PMID 41802048 · PMC12993976 · Proceedings of the National Academy of Sciences of the United States of America · 2026 · 8 claims · 8 setups

  Full-text index only

  Macrophages starve intracellular E. coli of zinc to sensitize them to subsequent zinc toxicity, coupling zinc starvation and zinc toxicity in a single antimicrobial response

  monocyte-derived hmdm zntr-dual macrophages confocal high-throughput flow

• Glutamine-mediated crosstalk between M2 macrophages and tumor cells via the SLC38A5/FOXM1/CNIH4 axis promotes oral squamous cell carcinoma progression.

  PMID 41715179 · PMC13020291 · Journal of translational medicine · 2026 · 8 claims · 8 setups

  Full-text index only

  Glutamine secretion from M2 macrophages to tumor cells via SLC38A5 is the core mCCC pathway upregulated in metastatic OSCC lesions compared to primary lesions.

  oscc epithelial tcga-oscc hsc-3 scrna-seq hdwgcna bulk

• CAR-M2 immunotherapy resolves renal fibrosis via revascularization and apoptosis of profibrotic Cxcr2(+) endothelial cells.

  PMID 41887221 · PMC13130657 · Cell reports. Medicine · 2026 · 8 claims · 8 setups

  Full-text index only

  CAR-M2 macrophages (anti-FAP CAR + IL-4-secreting, 4-1BB/CD3ζ costimulatory domains) specifically target and phagocytose FAP+ fibroblasts

  kidney car-m2 macrophages uuo scrna-seq histology live-cell

• Pan-Cancer Single-Cell RNA Sequencing Analysis Refines Multi-Origin Monocyte and Macrophage Lineages.

  PMID 41231218 · PMC12865363 · Cancer immunology research · 2026 · 6 claims · 8 setups

  Full-text index only

  TAMs arise from two distinct origins: C1QC+ TAMs likely derive from resident tissue macrophages, while SPP1+ TAMs and ISG15+ TAMs likely originate from circulating monocytes.

  myeloid melanoma monocyte-to-macrophage coad-read scrna-seq differential developmental

• Single-cell and spatial profiling highlights TB-induced myofibroblasts as drivers of lung pathology.

  PMID 41489684 · PMC12767585 · The Journal of experimental medicine · 2026 · 8 claims · 8 setups

  Full-text index only

  MMP1+CXCL5+ fibroblasts and SPP1+ macrophages are linked to TB disease and TB lung granuloma and reveal targetable cellular cross talk underlying TB immunopathology

  lung ffpe lymph nonhuman scrna-seq spatial bulk

• Dissecting the immunosuppressive microenvironment of LAMA3 + malignant cells and SPP1 + macrophages in esophageal squamous cell carcinoma using single-cell and spatial transcriptomics.

  PMID 41845425 · PMC13104401 · Journal of translational medicine · 2026 · 8 claims · 8 setups

  Full-text index only

  A LAMA3+ epithelial subpopulation (C3) enriched at the invasive tumor front shows strong EMT signatures and is associated with poor prognosis

  escc epithelial scrna-seq tcga-escc scrna-seq spatial infercnv

• Single-cell and spatial profiling of peripheral blood and synovium unveils pro-arthritis CNBP(+) myeloid cells.

  PMID 41928282 · PMC13169754 · Journal of translational medicine · 2026 · 8 claims · 8 setups

  Full-text index only

  Peripheral CNBP+ monocytes are expanded and show elevated 'inflammatory response' pathway scores in arthritis patients

  peripheral blood synovial arthritis single-cell bulk immunofluorescence

• Tree shrew immune cell atlas identifies NR1H3⁺ tissue macrophages with conserved anti-inflammatory function.

  PMID 41957356 · PMC13223331 · Nature communications · 2026 · 8 claims · 8 setups

  Full-text index only

  A single-cell/single-nucleus RNA-seq atlas across 12 tree shrew tissues identifies 39 distinct immune and non-immune cell types, providing a reference resource for tree shrew immunology

  tree single-cell scrna-seq cross-species functional

• CD14(lo)CD301b(+) macrophages gathering as a proangiogenic marker in adipose tissues.

  PMID 39645040 · PMC11745947 · Journal of lipid research · 2025 · 8 claims · 8 setups

  Has reproduction · 59

  Cd14−/− mice exhibit a leaner body shape and are protected from HFD-induced obesity compared to WT mice

  epididymal adipose cd14low macrophage bulk scrna-seq pseudotime

• Reciprocal regulation of fibroblast-macrophage equilibrium governs skin integrity.

  PMID 41760904 · PMC13043295 · Nature immunology · 2026 · 8 claims · 8 setups

  Full-text index only

  Dpt+ fibroblasts are required to maintain skin macrophage populations in vivo; their depletion reduces CD64+ and CD11c+ macrophages

  facs-sorted skin dpt+ scrna-seq flow cellchat

• LMO1 expression in neuroblastoma cells reprograms tumor-associated macrophages to promote metastasis.

  PMID 41858882 · PMC12997303 · iScience · 2026 · 8 claims · 8 setups

  Full-text index only

  LMO1 overexpression in MYCN-driven neuroblastoma cells reprograms tumor-associated macrophages to promote metastasis

  tumors macrophage u937 zebrafish single-cell gsva conditioned

• Chikungunya virus persists in joint-associated macrophages and promotes chronic disease in mice.

  PMID 41922840 · PMC13171603 · Nature microbiology · 2026 · 8 claims · 7 setups

  Full-text index only

  Inflammatory macrophages accumulate in joint-associated tissue during the chronic stage of CHIKV infection and show an activated, pro-inflammatory, MHC-II+ transcriptional programme

  ankle ipsilateral computational pfa-fixed rt-qpcr single-cell gene

• Single cell multiomics revealed fibrotic trajectories of endometrial cells and interaction with the pro-fibrotic macrophages in intrauterine adhesion.

  PMID 41947225 · PMC13188631 · Genome medicine · 2026 · 8 claims · 8 setups

  Full-text index only

  Human IUA endometrium contains a novel ACTA2+KRT8+ myofibrotic-epithelial subpopulation and an ACTA2+CD31+ myofibrotic-endothelial subpopulation, in addition to myofibroblasts

  endometrial iua scrna-seq snatac-seq spatial

• SPP1(+) macrophage-driven interactions shape the tumor microenvironment in lymph node metastatic acral melanoma.

  PMID 42020397 · PMC13230793 · Cell death & disease · 2026 · 8 claims · 8 setups

  Full-text index only

  LN+ acral melanoma shows preferential SPP1+ signaling, including autocrine amplification within SPP1+ macrophages and paracrine interaction with S100A8+ melanoma cells via the SPP1-CD44 axis

  tumor microarray thp-1 a375 scrna-seq immunofluorescence western

• Deciphering the Immune Microenvironment at the Forefront of Tumor Aggressiveness by Constructing a Regulatory Network with Single-Cell and Spatial Transcriptomic Data.

  PMID 38254989 · PMC10815467 · Genes · 2024 · 7 claims · 8 setups

  Has reproduction · 85

  High expression of transcription factors FOXA1 and EZH2 in malignant cells at the invasive front plays a key role in driving tumor progression

  breast er+ epithelial malignant scrna-seq spatial copy

• Bidirectional CRISPR screens decode a GLIS3-dependent fibrotic cell circuit.

  PMID 41501466 · PMC12820784 · Nature · 2026 · 8 claims · 8 setups

  Full-text index only

  Inflammation-associated fibroblasts (IAFs), induced by proinflammatory FCN1+IL1B+ macrophages, produce profibrotic IL-11 and drive fibrosis in IBD

  intestinal colon pdgfra+ colonic scrna-seq xenium masson's