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).

Publications 1.3k Datasets 392.5k Experiments 40

System / cell line: cd3+ ✕ Assay: scrna ✕ Clear

PD-1 antibody-bound progenitor-exhausted CD8(+) T cells in lymph nodes boost PD-1-blockade anti-tumor immunity in gastrointestinal cancer.

PMID 41951588 · PMC13237225 · Nature communications · 2026 · 8 claims · 6 setups

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Progenitor-exhausted CD8+ T cells (CD8-Tpex, TCF7+PDCD1+) are enriched in proximal lymph nodes and proliferate at a high rate after ICI treatment

esophagogastric cancer surgically tcga scrna-seq scrna reanalysis
Evaluating the practical aspects and performance of commercial single-cell RNA sequencing technologies.

PMID 41503158 · PMC12770963 · NAR genomics and bioinformatics · 2026 · 8 claims · 8 setups

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A comprehensive comparison of seven 3'/whole-transcriptome single-cell platforms and two 5' whole-transcriptome + TCR platforms was performed using PBMCs from multiple donors.

pbmcs sorted scrna-seq evercode
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

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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
singIST: An integrative method for comparative single-cell transcriptomics between disease models and humans.

PMID 41838773 · PMC13008255 · PLoS computational biology · 2026 · 8 claims · 7 setups

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singIST provides explainable quantitative measures of disease model similarity to a human reference at the pathway, cell type, and gene levels

skin ear simulated scrna-seq simulation
Single-cell multiomics profiling reveals heterogeneous transcriptional programs and microenvironment in DSRCTs.

PMID 38781959 · PMC11228554 · Cell reports. Medicine · 2024 · 8 claims · 8 setups

Has reproduction · 76

DSRCT tumor cells cluster into consistent subpopulations with partially overlapping lineage- and metabolism-related transcriptional programs across patients and samples

fresh matched archived dsrct scrna-seq single-nucleus bulk
Loss of SOCS1 in Donor T Cells Exacerbates Intestinal GVHD by Driving a Chemokine-Dependent Pro-Inflammatory Immune Microenvironment.

PMID 41580972 · PMC13042394 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 8 setups

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T cell-specific Socs1 loss intrinsically drives pro-inflammatory T cell differentiation independent of antigen stimulation, with the strongest effects in CD8+ T cells

cd45+ splenic cd8+ sorted single-cell flow bulk
Development of a pediatric immune cell atlas and characterization of CD4+ T cells in food allergy.

PMID 42025535 · PMC13105851 · Pediatric allergy and immunology : official publication of the European Society of Pediatric Allergy and Immunology · 2026 · 8 claims · 8 setups

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A pediatric single-cell PBMC reference atlas was developed from 57 healthy children across 8 public scRNA-seq studies.

pbmcs cd3+ cd4+ memory scrna-seq pseudobulk bulk
The liver as an immunological barrier redefined by single-cell analysis.

PMID 32176810 · PMC7218664 · Immunology · 2020 · 8 claims · 8 setups

Has reproduction · 100

Emerging single-cell technologies have advanced or redefined understanding of the liver's immunological barrier function

liver c57bl sorted pdgfrb-gfp scrna-seq single-molecule
Tumor-specific but immunosuppressive CD39(+)CD8(+) T cells exhibit double-faceted roles in clear cell renal cell carcinoma.

PMID 40961944 · PMC12629791 · Cell reports. Medicine · 2025 · 8 claims · 8 setups

Has reproduction · 88

CD39+CD8+ TILs constitute a terminally exhausted, tumor-antigen-specific subset of CD8+ T cells

memory sorted caix-specific cd39+pd-1bright scrna-seq bulk mhc
A pan-cancer single cell landscape reveals heterogeneity and functional diversity of double-negative T cells.

PMID 41484771 · PMC12882460 · Molecular cancer · 2026 · 7 claims · 5 setups

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Integration of pan-cancer scRNA-seq data yields a comprehensive single-cell atlas of 157,025 high-quality DNT cells across 23 cancer types.

tumor dnt ffpe mc38 scrna-seq tcr multiplex
Single-cell landscape of piglet lung response with Actinobacillus pleuropneumoniae.

PMID 41843736 · PMC13014559 · Virulence · 2026 · 8 claims · 8 setups

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scRNA-seq of piglet lungs identified 18 cell subpopulations with distinct phenotypes in infected vs control lungs

piglet monocytes bronchoalveolar single-cell hematoxylin-and-eosin immunohistochemistry
ZFP148 is a transcriptional repressor of cytolytic effector CD8(+) T cell differentiation.

PMID 41896465 · PMC13043298 · Nature immunology · 2026 · 8 claims · 8 setups

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ZFP148 is enriched in CD8+ T progenitor (T PRO) cells and its expression declines during differentiation into effector (T EFF) and exhausted (T EX) cells

p14 splenic cd8+ b16-gp scrna-seq flow tcr
Single-cell and spatial transcriptomics analyses reveal tumor microenvironment-driven proliferation of NF2-associated vestibular schwannomas.

PMID 41957607 · PMC13200446 · Journal of neuroinflammation · 2026 · 8 claims · 7 setups

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NF2-VS tumors comprise 12 major cell lineages with distinct TME composition between Gardner and Wishart phenotypes

vestibular fresh nf2-vs fibroblast scrna-seq spatial multiplex
The AICL-KLRF1 axis supports CD4-CD8 T cell communication and cytokine competence in pre-exhausted CD8(+) T cells.

PMID 41851343 · PMC13121605 · EMBO reports · 2026 · 8 claims · 8 setups

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Progressive expression of KLRB1, KLRG1, GPR56, and KLRF1 tracks CD8+ T cell differentiation stages (TN, TCM, TEM, TEMRA), mirroring the pattern previously shown in CD4+ T cells

unstimulated cd3+-enriched enriched cd8+ flow sorting-based spatial
Distinct phenotypes and repertoires of bronchoalveolar and airway mucosal T cells in health and allergic asthma.

PMID 41519381 · PMC12983186 · Mucosal immunology · 2026 · 8 claims · 6 setups

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BAL and endobronchial brush sampling capture phenotypically and clonally distinct T cell populations

sorted paired bal subjects single-cell fluorescence-activated methacholine
ISG15-driven immune modulation and tumor progression in breast cancer metastasis: insights from single-cell and spatial transcriptomics.

PMID 41639695 · PMC12958617 · BMC medicine · 2026 · 8 claims · 8 setups

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CSC proportion is elevated in lymph node metastatic tumor tissue (BRCA_LNMT) compared to primary tumor (BRCA_PT)

4t1 brca tcga-brca top single-cell spatial bulk
Tumour-intrinsic features shape T cell differentiation through precursor to symptomatic multiple myeloma.

PMID 41644568 · PMC12982522 · Nature communications · 2026 · 8 claims · 6 setups

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MM is not characterized by T cell exhaustion but by antigen-driven terminal memory differentiation, unlike solid cancers

bone cd69+ cd8+ smm single-cell cite-seq gene
TOPK Suppresses the CD8(+) T Cell Antitumor Immunity via Modulation of IRF5 Expression.

PMID 41868885 · PMC13003159 · Cancer communications (London, England) · 2026 · 8 claims · 8 setups

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A TOPK+ subset of tumor-infiltrating CD8+ T cells exists in melanoma at higher frequency than in normal lymph nodes and shows suppressed cytotoxic/cytokine programs.

tumor-infiltrating melanoma b16-f10 unspecified scrna-seq flow multiplex
Reprogramming of stroma-derived chemokine networks drives the loss of tissue organization in nodal B cell lymphoma.

PMID 41882179 · PMC13035477 · Nature cancer · 2026 · 8 claims · 8 setups

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LN-resident stromal cells (FRCs, BECs, LECs) drive chemokine-based lymphocyte zonation, and disruption of this system underlies the loss of tissue organization in nodal B cell lymphoma

rln healthy bulk fl-ln scrna-seq multiplex bulk
Opioid-induced transcriptional reprogramming of cerebrospinal fluid immune cells is associated with neuroinflammatory signaling in antiretroviral treated SIV-infected rhesus macaques.

PMID 42010620 · PMC13227897 · Journal of neuroinflammation · 2026 · 8 claims · 5 setups

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Morphine-dependent macaques show increased CD4+ TCM and Treg cell proportions and decreased CD8+ TEM cell proportions in CSF at the pre-infection timepoint compared to saline controls

csf scrna-seq necropsy single-cell flow cell-cell

Experiments

PD-1 antibody-bound progenitor-exhausted CD8(+) T cells in lymph nodes boost PD-1-blockade anti-tumor immunity in gastrointestinal cancer.

Evaluating the practical aspects and performance of commercial single-cell RNA sequencing technologies.

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

singIST: An integrative method for comparative single-cell transcriptomics between disease models and humans.

Single-cell multiomics profiling reveals heterogeneous transcriptional programs and microenvironment in DSRCTs.

Loss of SOCS1 in Donor T Cells Exacerbates Intestinal GVHD by Driving a Chemokine-Dependent Pro-Inflammatory Immune Microenvironment.

Development of a pediatric immune cell atlas and characterization of CD4+ T cells in food allergy.

The liver as an immunological barrier redefined by single-cell analysis.

Tumor-specific but immunosuppressive CD39(+)CD8(+) T cells exhibit double-faceted roles in clear cell renal cell carcinoma.

A pan-cancer single cell landscape reveals heterogeneity and functional diversity of double-negative T cells.

Single-cell landscape of piglet lung response with Actinobacillus pleuropneumoniae.

ZFP148 is a transcriptional repressor of cytolytic effector CD8(+) T cell differentiation.

Single-cell and spatial transcriptomics analyses reveal tumor microenvironment-driven proliferation of NF2-associated vestibular schwannomas.

The AICL-KLRF1 axis supports CD4-CD8 T cell communication and cytokine competence in pre-exhausted CD8(+) T cells.

Distinct phenotypes and repertoires of bronchoalveolar and airway mucosal T cells in health and allergic asthma.

ISG15-driven immune modulation and tumor progression in breast cancer metastasis: insights from single-cell and spatial transcriptomics.

Tumour-intrinsic features shape T cell differentiation through precursor to symptomatic multiple myeloma.

TOPK Suppresses the CD8(+) T Cell Antitumor Immunity via Modulation of IRF5 Expression.

Reprogramming of stroma-derived chemokine networks drives the loss of tissue organization in nodal B cell lymphoma.

Opioid-induced transcriptional reprogramming of cerebrospinal fluid immune cells is associated with neuroinflammatory signaling in antiretroviral treated SIV-infected rhesus macaques.