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 26

System / cell line: relative ✕ Assay: tandem ✕ Clear

Short tandem repeats in human exons: a target for disease mutations.

PMID 18789129 · PMC2543027 · BMC genomics · 2008 · 8 claims · 6 setups

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STRs are present in exons of 92% of known human genes, unlike longer tandem repeats which are rare in exons

reference genome genes genome-wide indel disease
Proteomic analysis of nipple aspirate fluid from women with early-stage breast cancer using isotope-coded affinity tags and tandem mass spectrometry reveals differential expression of vitamin D binding protein.

PMID 16542425 · PMC1431555 · BMC cancer · 2006 · 8 claims · 5 setups

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ICAT tandem MS can identify and quantify differences in specific protein expression between NAF from tumor-bearing and disease-free breasts

paired icat-labeled spectra naf icat sds-page liquid
Enlarged parietal foramina caused by mutations in the homeobox genes ALX4 and MSX2: from genotype to phenotype.

PMID 16319823 · PMC1477589 · European journal of human genetics : EJHG · 2006 · 7 claims · 8 setups

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ALX4 and MSX2 mutations contribute approximately equally to PFM/CB and cause skull defects that are usually clinically indistinguishable

pfm selected point-mutation-negative family dhplc bidirectional multiplex
Nucleotide oligomerization domain-2 interacts with 2'-5'-oligoadenylate synthetase type 2 and enhances RNase-L function in THP-1 cells.

PMID 19853919 · PMC2787966 · Molecular immunology · 2009 · 7 claims · 6 setups

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OAS2 is identified as a novel NOD2-binding partner in THP-1 cells by tandem affinity purification and mass spectrometry

thp-1 hek293 tandem co-immunoprecipitation oas2
Satellog: a database for the identification and prioritization of satellite repeats in disease association studies.

PMID 15949044 · PMC1181805 · BMC bioinformatics · 2005 · 7 claims · 6 setups

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Satellog is a database cataloging all pure 1-16 unit satellite repeats in the human genome with supplementary polymorphism, gene-location, and expression data for prioritizing repeats in disease-association studies.

reference unigene ensembl normal tandem polymorphism gene
Quantitative proteomics analysis of maternal plasma in Down syndrome pregnancies using isobaric tagging reagent (iTRAQ).

PMID 19902006 · PMC2774473 · Journal of biomedicine & biotechnology · 2010 · 8 claims · 5 setups

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iTRAQ labelling combined with 4800 MALDI TOF/TOF can detect quantitative differences in the maternal plasma proteome between DS and euploid pregnancies

maternal tryptic scx-fractionated identified itraq immunodepletion strong
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
Stable isotope labeling tandem mass spectrometry (SILT): integration with peptide identification and extension to data-dependent scans.

PMID 18774841 · PMC2707264 · Journal of proteome research · 2008 · 8 claims · 5 setups

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Using MS/MS ion intensities with stable isotope labeling (SILT) decreases the effects of contamination from unrelated co-eluting compounds compared to precursor ion intensity methods.

astrocytes hepg2 app695δnl labeled nano-lc sds-page immunoprecipitation
Identification of androgen-coregulated protein networks from the microsomes of human prostate cancer cells.

PMID 14709176 · PMC395736 · Genome biology · 2003 · 8 claims · 5 setups

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Distinct cellular processes are coregulated by androgen while others are essentially unaffected in LNCaP cells

lncap computational icat western hypergeometric
System-based proteomic analysis of the interferon response in human liver cells.

PMID 15287976 · PMC507879 · Genome biology · 2004 · 7 claims · 4 setups

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ICAT-based quantitative proteomics identified 1,364 proteins in Huh7 cells at <5% false-positive rate, with 54 induced and 24 repressed >2-fold by IFN treatment

huh7 computational icat gene interaction
A rational approach for discovering and validating cancer markers in very small samples using mass spectrometry and ELISA microarrays.

PMID 15502246 · PMC3839270 · Disease markers · 2004 · 8 claims · 4 setups

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A two-stage strategy combining MS proteomics for discovery and ELISA microarrays for validation can identify and characterize cancer markers in very small samples

complex naf minute clc-fticr tandem elisa
Proteomics of human neurodegenerative diseases.

PMID 18800015 · PMC2710115 · Journal of neuropathology and experimental neurology · 2008 · 8 claims · 8 setups

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Proteomic techniques applied to autopsy brain and CSF from patients with neurodegenerative diseases provide insight into pathogenesis and enable biomarker discovery

detergent-extractable thioflavin-s-stained tau-2-immunostained snca-immunoreactive 2-dimensional laser lc-ms-ms
Glycomics and disease markers.

PMID 19775929 · PMC2788081 · Current opinion in chemical biology · 2009 · 8 claims · 7 setups

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Over 70% of all human proteins are glycosylated

serum glycoprotein-derived sera maldi-fticr glycan nanoflow
Proteomic analysis of integrin-associated complexes identifies RCC2 as a dual regulator of Rac1 and Arf6.

PMID 19738201 · PMC2857963 · Science signaling · 2009 · 8 claims · 8 setups

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A novel ligand-affinity/cross-linking proteomic methodology enables isolation of labile integrin-associated signaling complexes

α5+ computational k562 embryonic ligand tandem hierarchical
Prospects of telomere-to-telomere assembly in barley: Analysis of sequence gaps in the MorexV3 reference genome.

PMID 35338551 · PMC9241371 · Plant biotechnology journal · 2022 · 7 claims · 8 setups

Has reproduction · 71

Almost all centromeric sequences and 45S ribosomal DNA repeat arrays are absent from the MorexV3 pseudomolecules

barley optical chip-seq k-mer
Glycomic approach for potential biomarkers on prostate cancer: profiling of N-linked glycans in human sera and pRNS cell lines.

PMID 19126968 · PMC3827814 · Disease markers · 2008 · 8 claims · 5 setups

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Glycomic profiling of N-linked glycans in serum can reveal potential biomarkers distinguishing prostate cancer patients from controls

serum prns-1-1 n-linked maldi solid tandem
Comparative genomic profiling of Dutch clinical Bordetella pertussis isolates using DNA microarrays: identification of genes absent from epidemic strains.

PMID 18590534 · PMC2481270 · BMC genomics · 2008 · 8 claims · 6 setups

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B. pertussis strains carrying the ptxP3 allele gradually replaced ptxP1 strains and became predominant from 1998, coinciding with the Dutch pertussis resurgence

dutch additional pertussis ptxp3 multi-locus multiple-locus microarray-based
Pilot proteomic profile of differentially regulated proteins in right atrial appendage before and after cardiac surgery using cardioplegia and cardiopulmonary bypass.

PMID 18824761 · PMC2629397 · Circulation · 2008 · 8 claims · 3 setups

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CP/CPB causes multiple consistent, reproducible changes in the human myocardial (right atrial) protein profile

right excised 2-dimensional tandem sds-page
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 analyses of monocyte-derived macrophages infected with human immunodeficiency virus type 1 primary isolates from Hispanic women with and without cognitive impairment.

PMID 19115125 · PMC2947716 · Journal of neurovirology · 2009 · 7 claims · 5 setups

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HIV-1 isolates from CI patients induce a distinct macrophage proteome signature compared to isolates from NC patients and SF162

monocyte-derived mdm mdms western p24 seldi-tof sds-page

Experiments

Short tandem repeats in human exons: a target for disease mutations.

Proteomic analysis of nipple aspirate fluid from women with early-stage breast cancer using isotope-coded affinity tags and tandem mass spectrometry reveals differential expression of vitamin D binding protein.

Enlarged parietal foramina caused by mutations in the homeobox genes ALX4 and MSX2: from genotype to phenotype.

Nucleotide oligomerization domain-2 interacts with 2'-5'-oligoadenylate synthetase type 2 and enhances RNase-L function in THP-1 cells.

Satellog: a database for the identification and prioritization of satellite repeats in disease association studies.

Quantitative proteomics analysis of maternal plasma in Down syndrome pregnancies using isobaric tagging reagent (iTRAQ).

Global proteome analysis of Leptospira interrogans.

Stable isotope labeling tandem mass spectrometry (SILT): integration with peptide identification and extension to data-dependent scans.

Identification of androgen-coregulated protein networks from the microsomes of human prostate cancer cells.

System-based proteomic analysis of the interferon response in human liver cells.

A rational approach for discovering and validating cancer markers in very small samples using mass spectrometry and ELISA microarrays.

Proteomics of human neurodegenerative diseases.

Glycomics and disease markers.

Proteomic analysis of integrin-associated complexes identifies RCC2 as a dual regulator of Rac1 and Arf6.

Prospects of telomere-to-telomere assembly in barley: Analysis of sequence gaps in the MorexV3 reference genome.

Glycomic approach for potential biomarkers on prostate cancer: profiling of N-linked glycans in human sera and pRNS cell lines.

Comparative genomic profiling of Dutch clinical Bordetella pertussis isolates using DNA microarrays: identification of genes absent from epidemic strains.

Pilot proteomic profile of differentially regulated proteins in right atrial appendage before and after cardiac surgery using cardioplegia and cardiopulmonary bypass.

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

Proteomic analyses of monocyte-derived macrophages infected with human immunodeficiency virus type 1 primary isolates from Hispanic women with and without cognitive impairment.