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).

• Molecular subtype of recurrent implantation failure reveals distinct endometrial etiology of female infertility.

  PMID 40660214 · PMC12257665 · Journal of translational medicine · 2025 · 8 claims · 8 setups

  Has reproduction · 68

  RIF endometrial samples segregate into two reproducible molecular subtypes: an immune-driven subtype (RIF-I) and a metabolic-driven subtype (RIF-M)

  endometrial in-house bulk rif-degs meta-analysis sequencing immune

• A reference profile-free deconvolution method to infer cancer cell-intrinsic subtypes and tumor-type-specific stromal profiles.

  PMID 32111252 · PMC7049190 · Genome medicine · 2020 · 8 claims · 8 setups

  Has reproduction · 91

  DeClust is a reference-profile-free deconvolution method that incorporates molecular subtyping directly into the deconvolution process, outputting cohort-level cancer subtype and stromal reference profiles rather than per-individual profiles

  tcga simulated muscle-invasive ccrcc computational simulation-based deconvolution

• Machine learning-based identification of biomarkers and drugs in immunologically cold and hot pancreatic adenocarcinomas.

  PMID 39152432 · PMC11328457 · Journal of translational medicine · 2024 · 7 claims · 8 setups

  Has reproduction · 42

  PAAD tumors can be consensus-clustered into immunologically hot and cold subtypes based on CIBERSORT-derived immune cell fractions, with significantly different survival outcomes.

  paad degs bulk consensus tumor

• Identification and validation of prognostic genes associated with M2 macrophage and heme metabolism in lung adenocarcinoma through bulk and single-cell RNA sequencing analysis.

  PMID 41787185 · PMC13076703 · Discover oncology · 2026 · 8 claims · 8 setups

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  EPB41, ACP5, PPOX, RBM38, and TRIM58 were identified as prognostic genes for LUAD

  tcga-luad gse131907 clinical cibersort gsea spearman

• AJUBA: The Master Regulator Bridging EMT and Immune Evasion in Colorectal Cancer.

  PMID 41814682 · PMC13140425 · Mediators of inflammation · 2026 · 8 claims · 8 setups

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  AJUBA is markedly upregulated in CRC across multiple transcriptomic cohorts and is enriched in epithelial cells with activated EMT features

  tcga-crc crc paired hct116 bulk single-cell spatial

• Comprehensive analysis for the role of macrophage-driven genes in abdominal aortic aneurysm.

  PMID 41815567 · PMC12973086 · Cardiovascular diagnosis and therapy · 2026 · 8 claims · 8 setups

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  SMU1 is identified as a novel macrophage-related gene associated with AAA development, serving as a potential diagnostic biomarker and therapeutic target

  aaa macrophage-related merged gwas single-cell bulk rt-qpcr

• Targeted and personalized immunotherapy in lung adenocarcinoma: single-cell RNA sequencing of MAFF+ tumor cells and the therapeutic potential of FOS.

  PMID 40936936 · PMC12420628 · Frontiers in immunology · 2025 · 7 claims · 8 setups

  Has reproduction · 71

  A highly stem-like C0 MAFF+ tumor cell subtype dominates invasive LUAD, producing chemokines and activating lipid metabolism

  luad tumor a549 single-cell infercnv pseudotime

• A P4HA2 hypoxia signature derived from single cell atlas stratifies conserved subtypes with prognostic significance in cervical squamous cell carcinoma.

  PMID 41559646 · PMC12910786 · BMC cancer · 2026 · 6 claims · 8 setups

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  A tumor cell metaprogram (MP7) identified from scRNA-seq of CSCC shows elevated hypoxia, invasion, metastasis, proliferation, and angiogenesis scores compared to other metaprograms.

  cscc tcga-cscc mp7 siha single-cell bulk gene

• Machine learning-driven transcriptomic and single-cell profiling of programed cell death patterns in colon cancer.

  PMID 41854308 · PMC13009810 · Science progress · 2026 · 8 claims · 8 setups

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  Disulfidptosis and anoikis are consistently identified as the most robust prognostic PCD patterns in colon cancer across six independent machine learning algorithms

  colon coad ssgsea-based machine differential

• Single-cell analysis highlights the role of CD4(+) IFN-I-related T cells in Behcet's uveitis during Interferonα-2a therapy.

  PMID 42021381 · PMC13238117 · Biology direct · 2026 · 6 claims · 8 setups

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  CD4+ IFN-I-related T cells are significantly decreased in active BD patients and restored after IFNα-2a therapy

  pbmcs sorted skin scrna-seq scrna-seq bulk cell-cell

• Pan-cancer evaluation of regulated cell death to predict overall survival and immune checkpoint inhibitor response.

  PMID 38538696 · PMC10973470 · NPJ precision oncology · 2024 · 8 claims · 8 setups

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  RCD score, defined as the sum of ssGSEA scores of 18 RCD signatures, quantifies overall RCD signaling in a sample

  tcga gtex scrna-seq cancer bulk scrna-seq transcriptomic

• Multi-Omic Profiling of T Cell-Mediated Rejection After Kidney Transplantation Reveals B Cell Receptor Repertoire Expansion and Its Prognostic Relevance.

  PMID 41467897 · PMC12752722 · FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2026 · 8 claims · 8 setups

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  The BCR repertoire, particularly the IgG isotype, is significantly expanded in TCMR compared to stable renal function (STA) across independent renal transplant cohorts

  kidney healthy lp-1 bcr bulk triple

• Spatial transcriptome and single-cell sequencing reveal the role of nucleotide metabolism in breast cancer progression and tumor microenvironment.

  PMID 41613532 · PMC12847018 · Frontiers in oncology · 2025 · 7 claims · 8 setups

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  Tumor cells show significantly upregulated nucleotide metabolic activity, allowing stratification into NUhighepi and NUlowepi subgroups

  tcga-brca breast scrna-seq epithelial ssgsea single-cell cell-cell

• Integrative omics and experimental validation reveal METTL17 and SLC27A1 as biomarkers and potential therapeutic targets in chronic kidney disease.

  PMID 41766913 · PMC12946038 · Frontiers in immunology · 2026 · 8 claims · 8 setups

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  METTL17 and SLC27A1 are identified as consistently dysregulated key genes bridging mitochondrial dysfunction and macrophage polarization in CKD

  kidney peripheral uuo bulk single-cell cibersort

• Dissecting tumor heterogeneity in colorectal cancer: uncovering the role of BCL2L1(+) cells through single-cell analysis.

  PMID 41958675 · PMC13056825 · Frontiers in immunology · 2026 · 8 claims · 8 setups

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  scRNA-seq identifies five CRC tumor cell subtypes, with the C4 BCL2L1+ subtype predominantly enriched in liver metastases and showing enhanced proliferation, metabolic reprogramming, and anti-apoptotic activity

  crc epcs malignant tcga scrna-seq infercnv cytotrace

• MAZ-mediated tumor progression and immune evasion in hormone receptor-positive breast cancer: Targeting tumor microenvironment and PCLAF+ subtype-specific therapy.

  PMID 39805182 · PMC11780959 · Translational oncology · 2025 · 6 claims · 8 setups

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  A C3 PCLAF+ tumor cell subtype identified by scRNA-seq shows high proliferation/differentiation potential and is linked to aggressive tumor behavior and poor prognosis in HR+BC

  hr+bc mda-mb-361 tcga scrna-seq cellchat pyscenic

• Identification and validation of key PANoptosis-related genes via integrative machine learning and single-cell sequencing in AILI.

  PMID 41858622 · PMC12995703 · iScience · 2026 · 8 claims · 8 setups

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  Cdkn1a and Pdk1 are key PANoptosis-related genes with high diagnostic potential for AILI

  liver training bulk wgcna machine

• T Cells With Activated STAT4 Drive the High-Risk Rejection State to Renal Allograft Failure After Kidney Transplantation.

  PMID 35844542 · PMC9283858 · Frontiers in immunology · 2022 · 8 claims · 8 setups

  Has reproduction · 78

  Unsupervised UMAP/Leiden clustering of 2,611 microarray datasets reveals 6 rejection states that diverge from traditional Banff clinical classification

  kidney scrna-seq microarray meblack microarray single-cell scissor

• Unveiling the immunometabolic landscape of colorectal cancer through PANoptosis-related gene expression.

  PMID 41601652 · PMC12832467 · Frontiers in immunology · 2025 · 8 claims · 8 setups

  Has reproduction · 41

  PANoptosis-related genes show significant expression heterogeneity across CRC samples, with apoptosis-related genes comprising the largest proportion (87.4%)

  crc hct116 bulk bulk single-cell rt-qpcr

• LRP1 as a potential diagnostic and immunomodulatory target in endometriosis: evidence from multi-omics and single-cell analyses.

  PMID 42064072 · PMC13124487 · Frontiers in immunology · 2026 · 8 claims · 8 setups

  Has reproduction · 49

  LRP1 is a hub gene with the highest diagnostic performance among 30 candidate hub genes identified by machine learning

  ectopic geo gse5108 training microarray wgcna machine