Works Published in 2013

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Displaying works 1 - 20 of 48 in total

Sorted by most recent date added to the index first, which may not be the same as publication date order.

2013 journal article

A method for detecting hidden additivity in two-factor unreplicated experiments

Computational Statistics & Data Analysis, 67, 95–104.

co-author countries: United States of America 🇺🇸
author keywords: Interaction effects; Latent variables; Non-additivity
Sources: Crossref, ORCID
Added: September 5, 2020

2013 journal article

Integrative Chemical–Biological Read-Across Approach for Chemical Hazard Classification

Chemical Research in Toxicology, 26(8), 1199–1208.

By: Y. Low*, A. Sedykh, D. Fourches*, A. Golbraikh, M. Whelan*, I. Rusyn, A. Tropsha

co-author countries: Italy 🇮🇹 United States of America 🇺🇸
MeSH headings : Animals; Anti-Bacterial Agents / chemistry; Anti-Bacterial Agents / toxicity; Anticonvulsants / chemistry; Anticonvulsants / toxicity; Bacteria / metabolism; Benzbromarone / chemistry; Benzbromarone / toxicity; Carbamazepine / chemistry; Carbamazepine / toxicity; Chloramphenicol / chemistry; Chloramphenicol / toxicity; Databases, Chemical; Gout Suppressants / chemistry; Gout Suppressants / toxicity; Hazardous Substances / classification; Hazardous Substances / toxicity; Liver / drug effects; Quantitative Structure-Activity Relationship; Rats; Transcriptome / drug effects
Source: Crossref
Added: August 28, 2020

2013 journal article

Predicting Binding Affinity of CSAR Ligands Using Both Structure-Based and Ligand-Based Approaches

Journal of Chemical Information and Modeling, 53(8), 1915–1922.

co-author countries: Ukraine 🇺🇦 United States of America 🇺🇸
MeSH headings : Databases, Pharmaceutical; Drug Discovery / methods; Ligands; Molecular Docking Simulation; Protein Binding; Quantitative Structure-Activity Relationship; Support Vector Machine
Source: Crossref
Added: August 28, 2020

2013 journal article

Discovery of Novel Antimalarial Compounds Enabled by QSAR-Based Virtual Screening

Journal of Chemical Information and Modeling, 53(2), 475–492.

By: L. Zhang*, D. Fourches*, A. Sedykh*, H. Zhu*, A. Golbraikh, S. Ekins*, J. Clark*, M. Connelly* ...

co-author countries: United States of America 🇺🇸
MeSH headings : Antimalarials / chemistry; Antimalarials / pharmacology; Drug Discovery / methods; Humans; Malaria, Falciparum / drug therapy; Models, Biological; Plasmodium falciparum / drug effects; Quantitative Structure-Activity Relationship
Source: Crossref
Added: August 28, 2020

2013 journal article

Using Graph Indices for the Analysis and Comparison of Chemical Datasets

Molecular Informatics, 32(9-10), 827–842.

co-author countries: United States of America 🇺🇸
author keywords: Chemical dataset graph; Graph indices; QSAR; ADDAGRA
Source: Crossref
Added: August 28, 2020

2013 journal article

Unified Analysis of Secondary Traits in Case–Control Association Studies

Journal of the American Statistical Association, 108(502), 566–576.

co-author countries: India 🇮🇳 United States of America 🇺🇸
author keywords: GWAS; Profile likelihood; Pseudo-likelihood; Retrospective study; Secondary phenotype; Semiparametric method
Source: Crossref
Added: August 28, 2020

2013 journal article

The Genotype-Tissue Expression (GTEx) project

Nature Genetics, 45(6), 580–585.

By: J. Lonsdale, J. Thomas, M. Salvatore, R. Phillips, E. Lo, S. Shad, R. Hasz*, G. Walters* ...

co-author countries: Switzerland 🇨🇭 Spain 🇪🇸 United Kingdom of Great Britain and Northern Ireland 🇬🇧 United States of America 🇺🇸
MeSH headings : Consensus Development Conferences, NIH as Topic; Gene Expression; Gene Expression Profiling; Genome-Wide Association Study; Government Programs / ethics; Government Programs / legislation & jurisprudence; Humans; Molecular Sequence Annotation; Organ Specificity; Quantitative Trait Loci; Tissue Banks; United States
Source: Crossref
Added: August 28, 2020

2013 journal article

Assessment of beating parameters in human induced pluripotent stem cells enables quantitative in vitro screening for cardiotoxicity

Toxicology and Applied Pharmacology, 273(3), 500–507.

By: O. Sirenko, E. Cromwell, C. Crittenden, J. Wignall*, F. Wright* & I. Rusyn*

co-author countries: United States of America 🇺🇸
author keywords: iPSC; Calcium flux; Cardiotoxicity; hERG; Phenotypic screening; Predictive toxicology
MeSH headings : Area Under Curve; Cardiotoxins / pharmacology; Cell Survival / drug effects; Cells, Cultured; Drug Evaluation, Preclinical / methods; Drug-Related Side Effects and Adverse Reactions / diagnosis; Heart Diseases / chemically induced; Heart Diseases / diagnosis; Heart Diseases / pathology; High-Throughput Screening Assays; Humans; Induced Pluripotent Stem Cells / drug effects; Induced Pluripotent Stem Cells / metabolism; Myocytes, Cardiac / drug effects; Myocytes, Cardiac / metabolism; Myocytes, Cardiac / physiology; Phenotype; Risk Assessment
Source: Crossref
Added: August 28, 2020

2013 journal article

Space-time clustering and the permutation moments of quadratic forms

Stat, 2(1), 292–302.

co-author countries: China 🇨🇳 United States of America 🇺🇸
author keywords: exact testing; resampling; statistical computing
Source: Crossref
Added: August 28, 2020

2013 journal article

The Value of Statistical or Bioinformatics Annotation for Rare Variant Association With Quantitative Trait

Genetic Epidemiology, 37(7), 666–674.

By: A. Byrnes*, M. Wu*, F. Wright*, M. Li* & Y. Li*

co-author countries: United States of America 🇺🇸
author keywords: rare variants; association; weighting; variable selection; variant annotation
MeSH headings : Computational Biology; Genetic Variation / genetics; Genome-Wide Association Study; Genomics; Genotype; Humans; Models, Genetic; Molecular Sequence Annotation; Phenotype; Polymorphism, Single Nucleotide / genetics; Quantitative Trait Loci
Source: Crossref
Added: August 28, 2020

2013 journal article

Using the emerging Collaborative Cross to probe the immune system

Genes & Immunity, 15(1), 38–46.

By: J. Phillippi*, Y. Xie*, D. Miller*, T. Bell*, Z. Zhang*, A. Lenarcic*, D. Aylor*, S. Krovi* ...

co-author countries: United States of America 🇺🇸
author keywords: Collaborative Cross; Fc epsilon R; QTL
MeSH headings : Animals; B-Lymphocytes / physiology; CD11c Antigen / metabolism; CD8-Positive T-Lymphocytes / physiology; Genetic Variation; Genome-Wide Association Study; Haplotypes; Immunogenetics / methods; Lymphocyte Subsets / physiology; Mice; Mice, Inbred Strains / genetics; Mice, Inbred Strains / immunology; Quantitative Trait Loci; Receptors, IgE / metabolism; T-Lymphocytes / physiology
Source: Crossref
Added: August 28, 2020

2013 journal article

Genetically Determined Severity of Anti-Myeloperoxidase Glomerulonephritis

The American Journal of Pathology, 182(4), 1219–1226.

By: H. Xiao*, D. Ciavatta*, D. Aylor*, P. Hu*, F. de Villena*, R. Falk*, J. Jennette*

co-author countries: United States of America 🇺🇸
MeSH headings : Animals; Antibodies, Antineutrophil Cytoplasmic / immunology; Bone Marrow Cells / pathology; Chimera; Crosses, Genetic; Female; Genetic Linkage; Genome / genetics; Genotype; Glomerulonephritis / genetics; Glomerulonephritis / immunology; Glomerulonephritis / pathology; Immunoglobulin G / immunology; Male; Mice; Mice, Inbred Strains; Neutrophil Activation / genetics; Peroxidase / genetics; Peroxidase / immunology; Polymorphism, Single Nucleotide / genetics
Source: Crossref
Added: August 28, 2020

2013 journal article

Solution NMR studies of the plant peptide hormone CEP inform function

FEBS Letters, 587(24), 3979–3985.

By: B. Bobay, P. Digennaro, E. Scholl, N. Imin, M. Djordjevic & D. McK Bird

Contributors: B. Bobay, P. Digennaro, E. Scholl, N. Imin, M. Djordjevic & D. McK Bird

author keywords: NMR; Molecular dynamic; CEP; Root-knot nematode; Peptide; CLE; Meloidogyne
MeSH headings : Amino Acid Sequence; Animals; Genome, Plant / physiology; Host-Parasite Interactions / physiology; Models, Molecular; Molecular Dynamics Simulation; Molecular Mimicry / physiology; Molecular Sequence Data; Nuclear Magnetic Resonance, Biomolecular; Plant Diseases / genetics; Plant Diseases / parasitology; Plant Growth Regulators / chemistry; Plant Growth Regulators / physiology; Plants / genetics; Plants / metabolism; Root Nodules, Plant / metabolism; Root Nodules, Plant / parasitology; Sequence Homology, Amino Acid; Tylenchoidea / genetics; Tylenchoidea / metabolism
Source: ORCID
Added: January 30, 2020

2013 journal article

Using in vitro high throughput screening assays to identify potential endocrine-disrupting chemicals.

Environmental Health Perspectives, 121(1), 7–14.

By: D. Rotroff*, D. Dix, K. Houck, T. Knudsen, M. Martin, K. McLaurin, D. Reif*, K. Crofton* ...

co-author countries: United States of America 🇺🇸

Contributors: D. Rotroff*, D. Dix, K. Houck, T. Knudsen, M. Martin, K. McLaurin, D. Reif*, K. Crofton* ...

author keywords: androgen; endocrine; estrogen; high throughput; in vitro; ToxCast
MeSH headings : Androgens / analysis; Endocrine Disruptors / analysis; Estrogens / analysis; High-Throughput Screening Assays / methods; United States; United States Environmental Protection Agency
Source: ORCID
Added: May 14, 2019

2013 journal article

ToxPi GUI: an interactive visualization tool for transparent integration of data from diverse sources of evidence.

Bioinformatics, 29(3), 402–403.

By: D. Reif*, M. Sypa*, E. Lock*, F. Wright*, A. Wilson*, T. Cathey*, R. Judson*, I. Rusyn*, Bioinformatics

co-author countries: United States of America 🇺🇸

Contributors: D. Reif*, M. Sypa*, E. Lock*, F. Wright*, A. Wilson*, T. Cathey*, R. Judson*, I. Rusyn*

MeSH headings : Computer Graphics; Software; Toxicity Tests / methods; User-Computer Interface
Source: ORCID
Added: May 14, 2019

2013 journal article

Real-time growth kinetics measuring hormone mimicry for ToxCast chemicals in T-47D human ductal carcinoma cells.

Chemical Research in Toxicology, 26(7), 1097–1107.

By: D. Rotroff*, D. Dix*, K. Houck*, R. Kavlock*, T. Knudsen*, M. Martin*, D. Reif*, A. Richard* ...

co-author countries: United States of America 🇺🇸

Contributors: D. Rotroff*, D. Dix*, K. Houck*, R. Kavlock*, T. Knudsen*, M. Martin*, D. Reif*, A. Richard* ...

MeSH headings : Breast Neoplasms / metabolism; Breast Neoplasms / pathology; Carcinoma, Ductal, Breast / metabolism; Carcinoma, Ductal, Breast / pathology; Cell Line, Tumor; Cell Proliferation / drug effects; Environmental Pollutants / toxicity; Female; High-Throughput Screening Assays; Hormones / metabolism; Humans; Kinetics; Molecular Mimicry; Receptors, Estrogen / metabolism; Time Factors; Toxicity Tests
Source: ORCID
Added: May 14, 2019

2013 journal article

Perspectives on validation of high-throughput assays supporting 21st century toxicity testing.

Altex, 30(1), 51–66. http://europepmc.org/abstract/med/23338806

By: R. Judson, R. Kavlock, M. Martin, D. Reif, K. Houck, T. Knudsen, A. Richard, R. Tice ...

Contributors: R. Judson, R. Kavlock, M. Martin, D. Reif, K. Houck, T. Knudsen, A. Richard, R. Tice ...

Source: ORCID
Added: May 14, 2019

2013 journal article

In vitro perturbations of targets in cancer hallmark processes predict rodent chemical carcinogenesis.

Toxicological Sciences, 131(1), 40–55.

By: N. Kleinstreuer*, D. Dix*, K. Houck*, R. Kavlock*, T. Knudsen*, M. Martin*, K. Paul*, D. Reif* ...

co-author countries: United States of America 🇺🇸

Contributors: N. Kleinstreuer*, D. Dix*, K. Houck*, R. Kavlock*, T. Knudsen*, M. Martin*, K. Paul*, D. Reif* ...

author keywords: cancer hallmarks; carcinogenesis; predictive toxicology; in vitro and alternatives; bioinformatics
MeSH headings : Animals; Biomarkers, Tumor / analysis; Biomarkers, Tumor / genetics; Carcinogenicity Tests; Carcinogens / chemistry; Carcinogens / toxicity; Databases, Factual; Endpoint Determination; High-Throughput Screening Assays; In Vitro Techniques; Mice; Neoplasms / chemically induced; Neoplasms / genetics; Predictive Value of Tests; Rats; Species Specificity; Thyroid Neoplasms / chemically induced; Thyroid Neoplasms / genetics
Source: ORCID
Added: May 14, 2019

2013 journal article

Decision tree-based method for integrating gene expression, demographic, and clinical data to determine disease endotypes.

BMC Systems Biology, 7, 119.

By: C. Williams-DeVane*, D. Reif n, E. Cohen Hubal*, P. Bushel*, E. Hudgens*, J. Gallagher*, S. Edwards*

co-author countries: United States of America 🇺🇸

Contributors: C. Williams-DeVane*, D. Reif n, E. Cohen Hubal*, P. Bushel*, E. Hudgens*, J. Gallagher*, S. Edwards*

author keywords: Asthma; Endotypes; Gene Expression; Integrated analysis
MeSH headings : Adolescent; Asthma / blood; Asthma / genetics; Child; Cluster Analysis; Computational Biology / methods; Decision Trees; Demography; Gene Expression Profiling; Genome-Wide Association Study; Humans
Source: ORCID
Added: May 14, 2019

2013 journal article

Comparing metabolomic and pathologic biomarkers alone and in combination for discriminating Alzheimer’s disease from normal cognitive aging

Acta Neuropathologica Communications, 1(1), 28.

By: A. Motsinger-Reif n, H. Zhu*, M. Kling*, W. Matson*, S. Sharma*, O. Fiehn*, D. Reif n, D. Appleby* ...

co-author countries: United States of America 🇺🇸
author keywords: Alzheimer's disease; Dementias; Metabolomics; Cerebrospinal fluid biomarkers; Stepwise logistic regression
MeSH headings : Aged; Aging / cerebrospinal fluid; Aging / drug effects; Aging / pathology; Alzheimer Disease / cerebrospinal fluid; Alzheimer Disease / diagnosis; Alzheimer Disease / drug therapy; Alzheimer Disease / pathology; Amyloid beta-Peptides / cerebrospinal fluid; Area Under Curve; Biomarkers / cerebrospinal fluid; Chromatography, Liquid; Cognition; Diagnosis, Differential; Female; Gas Chromatography-Mass Spectrometry; Humans; Logistic Models; Male; Metabolomics / methods; Neuropsychological Tests; tau Proteins / cerebrospinal fluid
Source: ORCID
Added: May 14, 2019

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