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 19

System / cell line: sections ✕ Assay: mass ✕ Clear

Different approaches to Imaging Mass Cytometry data analysis.

PMID 37092034 · PMC10115470 · Bioinformatics advances · 2023 · 8 claims · 5 setups

Has reproduction

Imaging Mass Cytometry (IMC) is a high-multiplexing imaging platform capable of simultaneously detecting and visualizing up to 40 different protein targets in tissue sections.

ffpe imc imaging raw channel
The use of laser capture microscopy in proteomics research--a review.

PMID 15502248 · PMC3839334 · Disease markers · 2004 · 8 claims · 8 setups

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LCM allows purification of specific, histologically defined cell populations from heterogeneous tissue for downstream proteomic analysis

breast prostate esophageal head maldi-tof automated two-dimensional
Comprehensive genomic analysis reveals clinically relevant molecular distinctions between thymic carcinomas and thymomas.

PMID 19861435 · PMC2783876 · Clinical cancer research : an official journal of the American Association for Cancer Research · 2009 · 7 claims · 7 setups

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Comprehensive genomic analysis shows thymic carcinomas are molecularly distinct from thymomas

resected thymic previously mass dideoxynucleotide array
Longitudinal analysis of early stage sarcopenia in aging rhesus monkeys.

PMID 18983905 · PMC2693938 · Experimental gerontology · 2009 · 8 claims · 6 setups

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mtDNA deletion mutations induce ETS enzyme abnormalities (COXneg/SDHhyp phenotypes) linked to intra-fiber atrophy and fiber loss

rhesus vastus muscle single dual hematoxylin immunohistochemistry
Global proteome analysis of Leptospira interrogans.

PMID 19663501 · PMC2757032 · Journal of proteome research · 2009 · 8 claims · 5 setups

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563 proteins were identified in L. interrogans via combined iTRAQ and 2DGE proteomic analysis

leptospira serum liver itraq two-dimensional immunoblot
Liver fatty acid binding protein expression in colorectal neoplasia.

PMID 15138477 · PMC2409459 · British journal of cancer · 2004 · 8 claims · 5 setups

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L-FABP is consistently lost/decreased in colorectal cancer compared with paired normal colon tissue

paired excised formalin-fixed normal gel maldi-tof immunohistochemistry
The identification and characterization of a novel protein, c19orf10, in the synovium.

PMID 17362502 · PMC1906808 · Arthritis research & therapy · 2007 · 8 claims · 8 setups

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c19orf10 is a novel protein produced in significant amounts by fibroblast-like synoviocytes (FLSs), identified via proteomic analysis

fibroblast-like coli balb chicken two-dimensional recombinant monoclonal
A proteomic approach to differentiate histologically classified stable and unstable plaques from human carotid arteries.

PMID 18715566 · PMC2659534 · Atherosclerosis · 2009 · 6 claims · 4 setups

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Stable and unstable carotid plaque extracts show distinct 2D-PAGE protein expression profiles, with nine proteins significantly differing in abundance between the two groups

carotid excised 2-dimensional maldi-tof western
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
Mutations in the C-terminus of the X protein of hepatitis B virus regulate Wnt-5a expression in hepatoma Huh7 cells: cDNA microarray and proteomic analyses.

PMID 18477650 · PMC2443277 · Carcinogenesis · 2008 · 8 claims · 7 setups

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HBx C-terminal deletion mutants (HBx3'-30 and HBx3'-40) produce differentially expressed gene and protein profiles in transfected Huh7 HCC cells, mostly involving transcriptional regulation, oncogenes/tumor suppressors, cell junctions, signal transduction, metabolism and immune response

huh7 frozen hcc genomic cdna two-dimensional western
Two-dimensional electrophoretic comparison of metastatic and non-metastatic human breast tumors using in vitro cultured epithelial cells derived from the cancer tissues.

PMID 18416831 · PMC2377273 · BMC cancer · 2008 · 6 claims · 4 setups

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Three protein spots were significantly altered in abundance between metastase-positive and metastase-negative breast cancer patient groups

excised formalin-fixed log-normalized two-dimensional liquid immunohistochemistry
Differential proteome analysis of the preeclamptic placenta using optimized protein extraction.

PMID 19756160 · PMC2742651 · Journal of biomedicine & biotechnology · 2010 · 8 claims · 5 setups

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Solubilization with urea/CHAPS combined with dichloromethane/methanol or acidified acetone precipitation gives the best 2D-PAGE protein separation for placental tissue

placental excised placenta 1d-page 2d-page maldi-tof
Synaptic proteins linked to HIV-1 infection and immunoproteasome induction: proteomic analysis of human synaptosomes.

PMID 19693676 · PMC2824116 · Journal of neuroimmune pharmacology : the official journal of the Society on NeuroImmune Pharmacology · 2010 · 8 claims · 7 setups

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Proteomic screening of human synaptosomes identifies a set of proteins differentially expressed in HIV/AIDS brain

frontal excised synaptosome paraffin-embedded 2d-page maldi-tof western
Proteomics technologies and challenges.

PMID 17893073 · PMC5054093 · Genomics, proteomics & bioinformatics · 2007 · 8 claims · 8 setups

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The proteome reflects the dynamic state of a cell, tissue, or organism more accurately than the genome, so proteomics is expected to yield better disease markers for diagnosis and therapy monitoring.

serum myeloid formalin-fixed general maldi-tof phage maldi
Genomic and proteomic profiling I: leiomyomas in African Americans and Caucasians.

PMID 17716379 · PMC2063502 · Reproductive biology and endocrinology : RB&E · 2007 · 7 claims · 6 setups

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268 genes (177 over-expressed, 91 under-expressed) are differentially expressed in leiomyomas of African Americans compared to Caucasians (P<0.01, 2-fold cutoff)

paired same excised paraffin-embedded microarray realtime 2d-page
Proteomic analysis of RCL2 paraffin-embedded tissues.

PMID 19012729 · PMC4506168 · Journal of cellular and molecular medicine · 2008 · 8 claims · 8 setups

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RCL2-fixed paraffin-embedded (RCL2P) tissue consistently gives the highest protein yield compared to FFPE and frozen tissue across extraction protocols

normal rcl2p ffpe frozen yield 1-dimensional 2-dimensional
Neuroscience in the era of functional genomics and systems biology.

PMID 19829370 · PMC3645852 · Nature · 2009 · 8 claims · 7 setups

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Omics/discovery-based approaches do not eschew hypotheses but elevate hypothesis testing to high-throughput hypothesis generation and prioritization.

developing hippocampus bac-transgenic fetal situ gene bac-transgenic
CD70 (TNFSF7) is expressed at high prevalence in renal cell carcinomas and is rapidly internalised on antibody binding.

PMID 16892042 · PMC2360640 · British journal of cancer · 2006 · 6 claims · 6 setups

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CD70 was identified by proteomic analysis of plasma membrane preparations as highly expressed in A498 and SW839 RCC-derived cell lines

a498 frozen normal proteomics flow immunohistochemistry
Tissue proteomics reveals differential and compartment-specific expression of the homologs transgelin and transgelin-2 in lung adenocarcinoma and its stroma.

PMID 19848416 · PMC2789179 · Journal of proteome research · 2009 · 6 claims · 6 setups

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Transgelin (TAGLN), transgelin-2 (TAGLN2), and cyclophilin A (PPIA) are overexpressed in lung adenocarcinoma tissue compared to matched normal lung

matched excised additional formalin-fixed 2-d lc-ms quantitative

Experiments

Different approaches to Imaging Mass Cytometry data analysis.

The use of laser capture microscopy in proteomics research--a review.

Comprehensive genomic analysis reveals clinically relevant molecular distinctions between thymic carcinomas and thymomas.

Longitudinal analysis of early stage sarcopenia in aging rhesus monkeys.

Global proteome analysis of Leptospira interrogans.

Liver fatty acid binding protein expression in colorectal neoplasia.

The identification and characterization of a novel protein, c19orf10, in the synovium.

A proteomic approach to differentiate histologically classified stable and unstable plaques from human carotid arteries.

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

Mutations in the C-terminus of the X protein of hepatitis B virus regulate Wnt-5a expression in hepatoma Huh7 cells: cDNA microarray and proteomic analyses.

Two-dimensional electrophoretic comparison of metastatic and non-metastatic human breast tumors using in vitro cultured epithelial cells derived from the cancer tissues.

Differential proteome analysis of the preeclamptic placenta using optimized protein extraction.

Synaptic proteins linked to HIV-1 infection and immunoproteasome induction: proteomic analysis of human synaptosomes.

Proteomics technologies and challenges.

Genomic and proteomic profiling I: leiomyomas in African Americans and Caucasians.

Proteomic analysis of RCL2 paraffin-embedded tissues.

Neuroscience in the era of functional genomics and systems biology.

CD70 (TNFSF7) is expressed at high prevalence in renal cell carcinomas and is rapidly internalised on antibody binding.

Tissue proteomics reveals differential and compartment-specific expression of the homologs transgelin and transgelin-2 in lung adenocarcinoma and its stroma.