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 20

System / cell line: proteins ✕ Assay: fluid ✕ Clear

Sys-BodyFluid: a systematical database for human body fluid proteome research.

PMID 18978022 · PMC2686600 · Nucleic acids research · 2009 · 6 claims · 4 setups

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Sys-BodyFluid is a web-based database integrating proteomic data from 11 human body fluids (plasma/serum, urine, cerebrospinal fluid, saliva, bronchoalveolar lavage fluid, synovial fluid, nipple aspirate fluid, tear fluid, seminal fluid, milk, amniotic fluid), containing over 10,000 proteins

body curated proteins literature sequence cross-body-fluid
A Chronic Fatigue Syndrome - related proteome in human cerebrospinal fluid.

PMID 16321154 · PMC1326206 · BMC neurology · 2005 · 7 claims · 6 setups

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CFS, PGI and fibromyalgia are highly overlapping symptom complexes likely reflecting a shared underlying pathophysiological mechanism rather than distinct diseases

pooled individual cerebrospinal subjects capillary trypsin elisa
Identification of 491 proteins in the tear fluid proteome reveals a large number of proteases and protease inhibitors.

PMID 16901338 · PMC1779605 · Genome biology · 2006 · 8 claims · 4 setups

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491 proteins were identified in human tear fluid using in-gel digestion and LC-MS/MS/MS3 on LTQ-FT and LTQ-Orbitrap instruments

closed-eye tear analysis sds-page in-solution gene
Shotgun proteomic analysis of cerebrospinal fluid using off-gel electrophoresis as the first-dimension separation.

PMID 18778093 · PMC4582942 · Journal of proteome research · 2008 · 6 claims · 4 setups

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OGE first-dimension fractionation enabled identification of 156 unique CSF proteins compared to 115 identified using SCX fractionation on the same CSF pool

pooled csf spectra shotgun trypsin peptide
Disease-specific proteins from rheumatoid arthritis patients.

PMID 16778393 · PMC2729955 · Journal of Korean medical science · 2006 · 8 claims · 6 setups

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Fibronectin, semaphorin 7A precursor, growth factor receptor-bound protein 7 (GRB7), and immunoglobulin µ chain specifically associate with antibodies purified from RA synovial fluid

synovium synovial synoviocytes western affinity antibody-affinity
Pulmonary biomarkers based on alterations in protein expression after exposure to arsenic.

PMID 17450228 · PMC1852690 · Environmental health perspectives · 2007 · 5 claims · 6 setups

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Chronic low-dose As exposure (10/50 ppb) consistently alters expression of specific proteins (RAGE, GST-omega-1, contraspin, ApoA-I, ApoA-IV, peroxiredoxin-6, enolase-1) in mouse lung-lining fluid.

c57bl balf induced first 2-d multidimensional western
Antibody protein array analysis of the tear film cytokines.

PMID 18677223 · PMC3786218 · Optometry and vision science : official publication of the American Academy of Optometry · 2008 · 7 claims · 4 setups

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Tear fluid contains factors with affinity for plastic, capture antibodies, and IgG that create matrix effects profoundly impacting dot ELISA/array reliability

tear normalized antibody 12-plex two-step
Bioengineering a humanized acne microenvironment model: proteomics analysis of host responses to Propionibacterium acnes infection in vivo.

PMID 18651708 · PMC2699546 · Proteomics · 2008 · 8 claims · 6 setups

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A dermis-based cell-trapped system (DBCTS) with human sebocytes inserted into a subcutaneous tissue chamber creates a humanized acne microenvironment in mice

chamber infiltrated de-epidermized sebocyte cfu sandwich immunofluorescence
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
Identification of disease markers in human cerebrospinal fluid using lipidomic and proteomic methods.

PMID 16410651 · PMC3851111 · Disease markers · 2006 · 8 claims · 3 setups

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Lipids comprise the bulk of the dry mass of the brain and serve structural, insulating, energy-storage, and signaling/inflammatory-mediator roles.

brain cerebrospinal electrospray liquid selected
Integrated proteomic analysis of human cancer cells and plasma from tumor bearing mice for ovarian cancer biomarker discovery.

PMID 19936259 · PMC2775948 · PloS one · 2009 · 8 claims · 8 setups

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Integrated proteomic analysis of a cancer mouse model and human cancer cell populations provides an effective approach to identify potential circulating protein biomarkers.

k-ras ovarian lists tumor quantitative pathway immunoblot
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
The process chain for peptidomic biomarker discovery.

PMID 16410650 · PMC3850862 · Disease markers · 2006 · 8 claims · 3 setups

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Peptidomics (comprehensive analysis of peptides and small proteins <20 kDa) fills a methodological gap left by standard proteomics, which mainly addresses proteins in the ~10-200 kDa range.

general body patients 2d-gel peptidomics peptidomic
93rd Annual Meeting of the American Association for Cancer Research, San Francisco, CA, USA, 6-10 April 2002.

PMID 12100742 · PMC138737 · Breast cancer research : BCR · 2002 · 8 claims · 8 setups

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Serial analysis of gene expression identifies genes preferentially expressed in ductal carcinoma in situ

breast laser serum bladder cdna western seldi-tof
Genomic Description of 'Candidatus Abyssubacteria,' a Novel Subsurface Lineage Within the Candidate Phylum Hydrogenedentes.

PMID 30210471 · PMC6121073 · Frontiers in microbiology · 2018 · 8 claims · 7 setups

Has reproduction · 91

SURF_5 and SURF_17 are the first full genomes of a novel bacterial lineage, 'Candidatus Abyssubacteria,' within the candidate phylum Hydrogenedentes

deep co-assembled surf_17 surf_5 whole-genome novo 16s
Contribution of oncoproteomics to cancer biomarker discovery.

PMID 17407558 · PMC1852117 · Molecular cancer · 2007 · 6 claims · 8 setups

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Oncoproteomic biomarker panels (2-DE/MS-based) show higher sensitivity and specificity than currently used single tumor markers across multiple cancer types (Table 1)

serum bladder nipple colorectal 2-de isotope-coded immunoblotting
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
Gene and transcript abundances of bacterial type III secretion systems from the rumen microbiome are correlated with methane yield in sheep.

PMID 28789673 · PMC5549432 · BMC research notes · 2017 · 7 claims · 7 setups

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Gene and transcript abundances of bacterial type III secretion system (T3SS) genes are positively correlated with methane yield in sheep

rumen reassembled succinivibrio dextrinosolvens metagenomic metatranscriptomic 16s
Autoantibody profiling for the study and treatment of autoimmune disease.

PMID 12223102 · PMC128938 · Arthritis research · 2002 · 8 claims · 8 setups

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Custom-fabricated antigen microarrays (spotted on poly-L-lysine-coated glass slides) enable multiplex profiling of autoantibody responses in autoimmune disease sera.

serum antigen-antibody antigens fetal spotted elisa microarray
Surface-enhanced laser desorption/ionization time-of-flight proteomic profiling of breast carcinomas identifies clinicopathologically relevant groups of patients similar to previously defined clusters from cDNA expression.

PMID 18510725 · PMC2481497 · Breast cancer research : BCR · 2008 · 7 claims · 7 setups

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Unsupervised hierarchical clustering of 130 SELDI-TOF peaks yielded six peak clusters and five distinct groups of breast cancer patients.

lysates breast microarrays imac-preseparated seldi-tof pilot immunohistochemistry

Experiments

Sys-BodyFluid: a systematical database for human body fluid proteome research.

A Chronic Fatigue Syndrome - related proteome in human cerebrospinal fluid.

Identification of 491 proteins in the tear fluid proteome reveals a large number of proteases and protease inhibitors.

Shotgun proteomic analysis of cerebrospinal fluid using off-gel electrophoresis as the first-dimension separation.

Disease-specific proteins from rheumatoid arthritis patients.

Pulmonary biomarkers based on alterations in protein expression after exposure to arsenic.

Antibody protein array analysis of the tear film cytokines.

Bioengineering a humanized acne microenvironment model: proteomics analysis of host responses to Propionibacterium acnes infection in vivo.

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

Identification of disease markers in human cerebrospinal fluid using lipidomic and proteomic methods.

Integrated proteomic analysis of human cancer cells and plasma from tumor bearing mice for ovarian cancer biomarker discovery.

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

The process chain for peptidomic biomarker discovery.

93rd Annual Meeting of the American Association for Cancer Research, San Francisco, CA, USA, 6-10 April 2002.

Genomic Description of 'Candidatus Abyssubacteria,' a Novel Subsurface Lineage Within the Candidate Phylum Hydrogenedentes.

Contribution of oncoproteomics to cancer biomarker discovery.

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

Gene and transcript abundances of bacterial type III secretion systems from the rumen microbiome are correlated with methane yield in sheep.

Autoantibody profiling for the study and treatment of autoimmune disease.

Surface-enhanced laser desorption/ionization time-of-flight proteomic profiling of breast carcinomas identifies clinicopathologically relevant groups of patients similar to previously defined clusters from cDNA expression.