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).
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Has reproduction · 43
Integration of Dual Stress Transcriptomes and Major QTLs from a Pair of Genotypes Contrasting for Drought and Chronic Nitrogen Starvation Identifies Key Stress Responsive Genes in Rice.
PMID 34089405 · PMC8179884 · Rice (New York, N.Y.) · 2021 · 8 claims · 7 setups
N22 performs better under dual (low N + low water) stress owing to better root architecture, chlorophyll/porphyrin synthesis and oxidative stress management
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Has reproduction · 50
Interaction between SNAI2 and MYOD enhances oncogenesis and suppresses differentiation in Fusion Negative Rhabdomyosarcoma.
PMID 33420019 · PMC7794422 · Nature communications · 2021 · 8 claims · 8 setups
SNAI2 is highly expressed in FN-RMS tumors and cell lines compared to normal tissue
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Has reproduction · 95
Single-cell transcriptomics and chromatin accessibility profiling elucidate the kidney-protective mechanism of mineralocorticoid receptor antagonists.
PMID 37906287 · PMC10760974 · The Journal of clinical investigation · 2024 · 8 claims · 7 setups
Mineralocorticoid (DOCA) effects are established through open chromatin and target gene expression primarily in principal and connecting tubule cells, and to a lesser extent in distal convoluted tubule (DCT2) cells.
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Has reproduction · 69
Fluent genomics with plyranges and tximeta.
PMID 32528659 · PMC7243206 · F1000Research · 2020 · 6 claims · 3 setups
A three-step fluent genomics workflow (import, model, integrate) using plyranges and tximeta provides a coherent, reproducible framework for integrating RNA-seq and ATAC-seq data within the Bioconductor ecosystem.
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Has reproduction · 95
TFAP2 paralogs facilitate chromatin access for MITF at pigmentation and cell proliferation genes.
PMID 35580127 · PMC9159589 · PLoS genetics · 2022 · 8 claims · 8 setups
Pigmentation genes are only expressed in mitfa-expressing zebrafish melanocyte-lineage cells that also express tfap2 paralogs
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Has reproduction · 54
Single-Cell Transcriptome Analysis Revealed Heterogeneity and Identified Novel Therapeutic Targets for Breast Cancer Subtypes.
PMID 37190091 · PMC10137100 · Cells · 2023 · 8 claims · 8 setups
Single-cell transcriptomic analysis of EPCAM+Lin- epithelial cells identified unique gene signatures/markers that distinguish ER+, HER2+, ER+HER2+, and TNBC molecular subtypes
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Has reproduction · 90
pysradb: A Python package to query next-generation sequencing metadata and data from NCBI Sequence Read Archive.
PMID 31114675 · PMC6505635 · F1000Research · 2019 · 7 claims · 4 setups
pysradb provides a command-line interface to query metadata and download raw sequencing data from NCBI SRA using the SRAdb SQLite database.
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Has reproduction · 76
Single-cell multiomics profiling reveals heterogeneous transcriptional programs and microenvironment in DSRCTs.
PMID 38781959 · PMC11228554 · Cell reports. Medicine · 2024 · 8 claims · 8 setups
DSRCT tumor cells cluster into consistent subpopulations with partially overlapping lineage- and metabolism-related transcriptional programs across patients and samples
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Has reproduction · 90
Cell type differences in human cytomegalovirus transcription and epigenetic regulation with insights into major immediate-early enhancer-promoter control.
PMID 40758707 · PMC12333995 · PLoS pathogens · 2025 · 8 claims · 7 setups
Six viral promoters (UL5, UL72, EP3, UL57-AS, US16-AS, US30-S) are ≥50-fold more active in D-NT2 than in HFF at 96 h post-infection and are classified as viral long promoters.
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Has reproduction · 10
FOXM1 inhibitor, RCM‑1, enhances venetoclax mediated apoptosis through downregulation of ATP2B4 in rhabdomyosarcoma.
PMID 41789627 · PMC12987556 · International journal of oncology · 2026 · 8 claims · 8 setups
Combination therapy of RCM-1 and venetoclax inhibits RMS tumor growth more efficiently than venetoclax alone in an animal model by decreasing proliferation and inducing apoptosis
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Has reproduction · 10
Effect of PAIP1 on the metastatic potential and prognostic significance in oral squamous cell carcinoma.
PMID 35153296 · PMC8841500 · International journal of oral science · 2022 · 8 claims · 8 setups
PAIP1 mRNA and protein levels are upregulated in OSCC/HNSCC compared to normal tissue.
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Has reproduction · 36
A Novel Algicidal Bacterium, Microbulbifer sp. YX04, Triggered Oxidative Damage and Autophagic Cell Death in Phaeocystis globosa, Which Causes Harmful Algal Blooms.
PMID 35019679 · PMC8754136 · Microbiology spectrum · 2022 · 8 claims · 9 setups
Microbulbifer sp. YX04 shows high algicidal activity against P. globosa, peaking at 93.2% in the declining growth phase
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Has reproduction
Systematic analysis of CNGCs in cotton and the positive role of GhCNGC32 and GhCNGC35 in salt tolerance.
PMID 35931984 · PMC9356423 · BMC genomics · 2022 · 7 claims · 8 setups
114 CNGC genes were identified across 4 cotton species (G. arboreum 20, G. raimondii 20, G. hirsutum 38, G. barbadense 36), clustering into 5 groups (I, II, III, IVa, IVb).
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Has reproduction · 59
Downregulation of Splicing Factor PTBP1 Curtails FBXO5 Expression to Promote Cellular Senescence in Lung Adenocarcinoma.
PMID 39057099 · PMC11276454 · Current issues in molecular biology · 2024 · 8 claims · 8 setups
PTBP1 is significantly upregulated across multiple cancer types including LUAD, and higher PTBP1 levels are associated with worse LUAD patient survival