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).

• Immunoregulatory Roles of Tumor-Originated Pericytes Identified by Single-Cell Analysis in Glioblastoma.

  PMID 41001759 · PMC12713092 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025 · 8 claims · 8 setups

  Has reproduction

  CD146 (MCAM) is a superior surface marker for sorting GBM pericytes, labeling nearly all PDGFRβ+ pericytes with strong specificity, unlike NG2 which labels fewer vessel-associated pericytes.

  facs-sorted frozen dissociated scrna-seq scrna-seq immunofluorescence fluorescence-activated

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

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

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  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

• Notch3 regulates pericyte phenotypic plasticity in colorectal cancer.

  PMID 41618002 · PMC12960917 · Communications biology · 2026 · 8 claims · 8 setups

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  Murine tumor pericytes originate from normal tissue-resident pericytes that proliferate inside tumors

  aom crc pdgfrβ-creert2 notch3-creert2 scrna-seq facs lineage

• Paneth cell SIRT1 deficiency increases intestinal stress resistance by modulating the gut microbiota.

  PMID 41826553 · PMC13076647 · EMBO reports · 2026 · 8 claims · 8 setups

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  Generated a novel Paneth-cell-specific SIRT1 knockout mouse model (SIRT1 PKO, Sirt1 f/f;Defa6-Cre+)

  small immune facs-sorted ileum single-cell facs qpcr

• 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

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  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

• PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data.

  PMID 30951143 · PMC6450036 · Database : the journal of biological databases and curation · 2019 · 7 claims · 7 setups

  Has reproduction · 80

  PanglaoDB is a web server providing pre-processed and pre-computed analyses of published mouse and human scRNA-seq experiments through a user-friendly interface.

  randomly single-cell single scrna-seq cell-type orthogonal

• Cell fixation and preservation for droplet-based single-cell transcriptomics.

  PMID 28526029 · PMC5438562 · BMC biology · 2017 · 7 claims · 8 setups

  Has reproduction · 91

  Methanol fixation stabilizes and preserves dissociated cells for weeks without compromising single-cell RNA-seq data quality

  hek293 dissociated facs-sorted hek drop-seq bulk trizol

• Deconvolving cell-type-specific gene expression profiles from bulk RNA-seq samples.

  PMID 41886524 · PMC13038110 · PLoS computational biology · 2026 · 8 claims · 6 setups

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  BLUE, a U-Net-based deep learning model with dual branches (U-Net for GEPs, MLP for proportions), accurately predicts cell-type proportions and cell-type-specific gene expression profiles from bulk RNA-seq.

  pbmc pancreatic aml scrna-seq-derived real scrna-seq

• Chemotherapy-induced reactive myelopoiesis promotes expansion of immunosuppressive neutrophil-like monocytes in mice and humans.

  PMID 41945895 · PMC13232731 · JCI insight · 2026 · 8 claims · 8 setups

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  Monocytes from lymphoma patients receiving CTX-containing chemotherapy show variable, often chemotherapy-induced or -enhanced, immunosuppressive activity against T cells

  pbmcs bone sorted facs-sorted scrna-seq flow atac-seq

• 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

• A latent activated olfactory stem cell state revealed by single-cell transcriptomic and epigenomic profiling.

  PMID 41512864 · PMC12903091 · Stem cell reports · 2026 · 7 claims · 8 setups

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  HBC-derived regeneration proceeds via three distinct lineages (rHBC, Sus, mOSN) marked by sequential, lineage-specific transcription factor (TF) expression cascades.

  lineage-traced hbcs* icam1+ scrna-seq trajectory-based seurat

• Single-Cell Mitochondrial Lineage Tracing Decodes Fate Decision and Spatial Clonal Architecture in Human Hematopoietic Organoids.

  PMID 41560697 · PMC13042525 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 8 setups

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  Mitochondrial somatic mutations from scRNA-seq can be repurposed as endogenous genetic barcodes for lineage tracing in hPSC-derived organoids.

  hpsc hemo larry-barcoded pdgfrα+ scrna-seq mitochondrial cospar

• Host-derived interleukin-1α drives tumor immunosuppression by reprogramming tumor-associated myeloid cells.

  PMID 41547846 · PMC12910057 · NPJ breast cancer · 2026 · 8 claims · 8 setups

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  Deletion of host Il1α causes rejection/regression of transplanted breast tumors

  h605 pymt tumor-infiltrating two-week orthotopic flow single-cell

• Prophylactic Inhaled Pattern Recognition Receptor Agonists Reprogram Lung Epithelial Response and Prevent Type 2 Allergic Inflammation.

  PMID 41891295 · PMC13022946 · European journal of immunology · 2026 · 8 claims · 7 setups

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  Pam2ODN pretreatment reduces airway Th2 polarization and eosinophilic inflammation without affecting Th1, Th17, or Treg responses

  balf lung mediastinal facs-sorted flow bulk scrna-seq

• Glioblastoma invasion into different organoid hosts reveals cell-intrinsic and proliferative migratory programs.

  PMID 41959666 · PMC13059114 · iScience · 2026 · 8 claims · 8 setups

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  GB cells invade both neural and endodermal organoid hosts (lineage-independent), whereas non-malignant neural progenitor cells show markedly reduced infiltration

  gbm1 gfp-gbm1 facs-sorted post-invasion image-based immunofluorescence single-cell

• Persistence of alveolar fibroblast-derived ADAMTS4+ cells in a preclinical model of delayed pulmonary fibrosis resolution.

  PMID 42103706 · PMC13156320 · Nature communications · 2026 · 8 claims · 8 setups

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  Lipofibroblasts (LIFs/AF1) differentiate into myofibroblasts during fibrogenesis, with the reverse (MyoFB-to-LIF) trajectory occurring during fibrosis resolution

  aged live facs-sorted scrna-seq h&e masson's rnascope

• Multimodal single-cell protein and RNA profiling unveils dysregulated immature neutrophil dynamics in gestational diabetes mellitus.

  PMID 41501166 · PMC12936121 · Communications biology · 2026 · 8 claims · 6 setups

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  A combination of CD10−CD49d+Igκ+ surface markers identifies an immature low-density neutrophil (LDN) subset that is distinct from CD10+ mature high-density neutrophils (HDNs)

  peripheral facs-sorted decidua pregnant infinityflow conventional may-grünwald