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).

• The role of proteomics in depression research.

  PMID 19997739 · PMC2940035 · European archives of psychiatry and clinical neuroscience · 2010 · 8 claims · 8 setups

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  Proteomics offers a complementary, functional-endpoint approach that can elucidate MDD pathophysiological mechanisms and biomarkers beyond transcriptomic/targeted studies

  postmortem schizophrenia frontal hypothalamus gel shotgun proteome

• Proteomic analyses of the effects of drugs of abuse on monocyte-derived mature dendritic cells.

  PMID 19811410 · PMC2812871 · Immunological investigations · 2009 · 6 claims · 7 setups

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  Cocaine differentially regulates expression of several functional classes of proteins (apoptosis, protein folding, kinase activity, metabolism, signal transduction) in monocyte-derived mature dendritic cells

  monocyte-derived excised difference hplc-tandem western

• Integrating proteomic, transcriptional, and interactome data reveals hidden components of signaling and regulatory networks.

  PMID 19638617 · PMC2889494 · Science signaling · 2009 · 8 claims · 6 setups

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  Pathway reconstruction can be modeled as a prize-collecting Steiner tree problem, balancing penalties for excluding terminal nodes against costs for including edges, controlled by a parameter β.

  saccharomyces phosphoproteomic expression curated

• Shared and unique phosphoproteomics responses in skeletal muscle from exercise models and in hyperammonemic myotubes.

  PMID 36345342 · PMC9636548 · iScience · 2022 · 8 claims · 7 setups

  Has reproduction · 100

  Comparative phosphoproteomics of hyperammonemic myotubes and exercise-model muscle identifies shared enriched pathways: PKA, calcium signaling, MAPK signaling, and protein homeostasis.

  c2c12 hyperammonemic phosphoproteomics immunoblot comparative

• Proteomic analysis of serum in lung cancer induced by 3-methylcholanthrene.

  PMID 19794824 · PMC2753780 · Journal of biomedicine & biotechnology · 2009 · 7 claims · 4 setups

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  141 protein spots are differentially expressed between normal rat sera and MCA-induced lung cancer rat sera (82 overexpressed, 59 underexpressed)

  serum lung excised two-dimensional maldi-tof-ms histopathology

• Three-dimensional neuroblastoma cell culture: proteomic analysis between monolayer and multicellular tumor spheroids.

  PMID 18797883 · PMC2804865 · Pediatric surgery international · 2008 · 7 claims · 3 setups

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  18 protein spots were differentially over-expressed in neuroblastoma spheroids compared to monolayers

  neuroblastoma excised monolayer 2-d lc-ms fractionation

• Shotgun proteomics and biomarker discovery.

  PMID 12364816 · PMC3851423 · Disease markers · 2002 · 8 claims · 7 setups

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  Shotgun (LC/LC-MS/MS, e.g. MudPIT) proteomic approaches show advantages over gel-based techniques in speed, sensitivity, scope of analysis, and dynamic range.

  urine yeast cysteine-containing hemoglobin 2d-ge lc-ms imac

• Identification of proteins differentially expressed in the conventional renal cell carcinoma by proteomic analysis.

  PMID 15953868 · PMC2782202 · Journal of Korean medical science · 2005 · 6 claims · 4 setups

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  Eight proteins from 11 differentially expressed spots were identified in conventional RCC versus normal kidney tissue by 2D-PAGE and MALDI-TOF-MS

  conventional trypsin-digested lysates 2d-page maldi-tof bradford

• Proteomics as a tool for biomarker discovery.

  PMID 18057524 · PMC3851415 · Disease markers · 2007 · 8 claims · 7 setups

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  A useful clinical biomarker must be easily attainable, have adequate sensitivity, have adequate specificity, and lead to patient benefit through intervention

  serum laser ovarian seldi-tof two-dimensional gene

• Multidimensional proteomics analysis of amniotic fluid to provide insight into the mechanisms of idiopathic preterm birth.

  PMID 18431506 · PMC2315798 · PloS one · 2008 · 7 claims · 7 setups

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  A novel 5-peak SELDI proteomic signature (Q-profile) in the 10-12.5 kDa mass range identifies a subgroup of women at risk for preterm birth without intra-amniotic inflammation or bleeding.

  amniotic excised spot differentially seldi-tof fluorescence robotic

• Proteomic-based identification of haptoglobin-1 precursor as a novel circulating biomarker of ovarian cancer.

  PMID 15199385 · PMC2364749 · British journal of cancer · 2004 · 7 claims · 7 setups

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  Six serum protein spots (~40 kDa, pI 5.9–6.6) significantly overexpressed in grade 1, 2 and 3 ovarian cancer patients were identified by MALDI-TOFMS and n-ESIQ(q)TOFMS as isoforms of haptoglobin-1 precursor (HAP1)

  serum tryptic 2de-separated paraffin-embedded two-dimensional affi-gel maldi-tofms

• Characterisation and protein expression profiling of annexins in colorectal cancer.

  PMID 18071363 · PMC2361450 · British journal of cancer · 2008 · 7 claims · 5 setups

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  Annexins A1, A2, A4 and A11 are overexpressed in primary colorectal cancer compared with normal colon

  dukes colorectal immunised whole-cell gel immunohistochemistry elisa

• A proteomic analysis of IVF follicular fluid in women

  PMID 18980758 · PMC3916005 · Fertility and sterility · 2009 · 8 claims · 4 setups

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  2D-PAGE proteomic evaluation of follicular fluid can identify potential biomarkers distinguishing good versus poor IVF responders in matched patient pairs

  follicular excised clinical polyacrylamide liquid direct

• Caloric Restriction Reprograms Adipose Tissues in Rhesus Monkeys.

  PMID 41042069 · PMC12686577 · Aging cell · 2025 · 8 claims · 8 setups

  Has reproduction · 66

  At baseline, SAT and VAT transcriptomes are highly similar, with only ~1% of genes (30 genes, adjusted p<0.05) differentially expressed between depots in Controls

  subcutaneous sat rhesus bulk gsea xcell

• Proteomic characterization of HIV-modulated membrane receptors, kinases and signaling proteins involved in novel angiogenic pathways.

  PMID 19712456 · PMC2754444 · Journal of translational medicine · 2009 · 7 claims · 5 setups

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  31 HIV-modulated cellular proteins were identified as functionally associated with signaling events involved in angiogenesis

  rh9 hiv-infected identified subtractive mass enzyme-linked

• Biomarkers of lupus nephritis determined by serial urine proteomics.

  PMID 18596723 · PMC2614389 · Kidney international · 2008 · 7 claims · 6 setups

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  SELDI-TOF-MS screening of the LMW urine proteome identifies protein ions that are differentially expressed across phases of the lupus nephritis flare cycle (baseline, pre-flare, flare, post-flare)

  low-molecular-weight lmw urine kidney seldi-tof-ms on-chip capillary

• Characterization of detergent-insoluble proteins in ALS indicates a causal link between nitrative stress and aggregation in pathogenesis.

  PMID 19956584 · PMC2780298 · PloS one · 2009 · 8 claims · 8 setups

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  The Triton X-100-insoluble fraction (TIF) from spinal cord of G93A SOD1 mice is enriched in specific proteins (cytoskeletal, chaperone, mitochondrial, metabolic, signaling) compared to WT mice, already at a preclinical stage.

  spinal tif lumbar ventral gel maldi-tof western

• Lost in the world of functional genomics, systems biology, and translational research: is there life after the Milstein award?

  PMID 17681845 · PMC1994668 · Cytokine & growth factor reviews · 2007 · 8 claims · 8 setups

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  Genomic and proteomic approaches provide a comprehensive view of virus-host interactions and advance understanding of innate immunity and interferon/cytokine signaling

  cd4+ hela influenza-infected liver cdna microarray mass

• The proteogenomic path towards biomarker discovery.

  PMID 18764911 · PMC2574627 · Pediatric transplantation · 2008 · 8 claims · 8 setups

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  Serum creatinine is a widely used but non-ideal biomarker for renal transplant monitoring because it lacks specificity and sensitivity for graft injury

  renal urine breast chronic microarray immunoassay gel

• Inter- and Intraspecific Venom Variation in the Reclusive Rear-Fanged Black-Striped Snakes (Coniophanes).

  PMID 41745774 · PMC12945099 · Toxins · 2026 · 8 claims · 4 setups

  Has reproduction

  This is the first characterization of the venom profiles (transcriptomic and proteomic) of the genus Coniophanes.

  duvernoy's imperialis venom fissidens novo differential quantitative