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1. Full Text Chemical substructures that enrich for biological activity
by Klekota, Justin and Roth, Frederick P
Bioinformatics, ISSN 1367-4803, 11/2008, Volume 24, Issue 21, pp. 2518 - 2525
Motivation: Certain chemical substructures are present in many drugs. This has led to the claim of 'privileged' substructures which are predisposed to... 
PRIVILEGED STRUCTURES | IRON CHELATORS | DRUG DISCOVERY | BIOCHEMICAL RESEARCH METHODS | CYCLIC-PEPTIDES | SMALL-MOLECULE INHIBITOR | LIBRARIES | PROTEIN COUPLED RECEPTORS | POTENT | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | COMBINATORIAL SYNTHESIS | MATHEMATICAL & COMPUTATIONAL BIOLOGY | OPTIMIZATION | Animals | Combinatorial Chemistry Techniques | Humans | Cells, Cultured | Drug Design | Pharmaceutical Preparations - chemistry | Ligands | Structure-Activity Relationship | Databases, Factual | Index Medicus | Original Papers
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2. Full Text Response to "MHC-dependent mate choice in humans: Why genomic patterns from the HapMap European American data set support the hypothesis" (DOI: 10.1002/bies.201100150)
by Derti, A and Roth, FP
BIOESSAYS, ISSN 0265-9247, 07/2012, Volume 34, Issue 7, pp. 576 - 577
MHC | HapMap | mate selection | BIOCHEMISTRY & MOLECULAR BIOLOGY | BIOLOGY | major histocompatibility locus | Genetic aspects | Mate selection | Research | Human genome | European Americans
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3. Full Text Protein Domain-Level Landscape of Cancer-Type-Specific Somatic Mutations
: e1004147
by Fan Yang and Evangelia Petsalaki and Thomas Rolland and David E Hill and Marc Vidal and Frederick P Roth
PLoS Computational Biology, ISSN 1553-734X, 03/2015, Volume 11, Issue 3
  Identifying driver mutations and their functional consequences is critical to our understanding of cancer. Towards this goal, and because domains are the... 
Medical research | Mutation | Kinases | Genes
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4. Full Text Defining Genetic Interaction
by Ramamurthy Mani and Robert P. St. Onge and John L. Hartman and Guri Giaever and Frederick P. Roth
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 3/2008, Volume 105, Issue 9, pp. 3461 - 3466
Sometimes mutations in two genes produce a phenotype that is surprising in light of each mutation's individual effects. This phenomenon, which defines genetic... 
Quantitative genetics | Yeasts | Microbial genetics | Phenotypes | Genes | Medical genetics | Genetics | Mathematical functions | Genetic mutation | Population genetics | Epistasis | Gene function | Fitness | YEAST SACCHAROMYCES-CEREVISIAE | PATHWAYS | RECOMBINATION | epistasis | fitness | MULTIDISCIPLINARY SCIENCES | BIOLOGY | gene function | NETWORKS | SPECTRUM | DELETERIOUS MUTATIONS | GENOME | Models, Theoretical | Metabolic Networks and Pathways - genetics | Phenotype | Saccharomyces cerevisiae - genetics | Reproduction - genetics | Models, Genetic | Mutation | Fitness (Genetics) | Research | Properties | Genetic epistasis | Proteins | Genotype & phenotype | Cells | Index Medicus | Biological Sciences
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5. Full Text The Genetic Landscape of a Cell
by Michael Costanzo and Anastasia Baryshnikova and Jeremy Bellay and Yungil Kim and Eric D. Spear and Carolyn S. Sevier and Huiming Ding and Judice L. Y. Koh and Kiana Toufighi and Sara Mostafavi and Jeany Prinz and Robert P. St. Onge and Benjamin VanderSluis and Taras Makhnevych and Franco J. Vizeacoumar and Solmaz Alizadeh and Sondra Bahr and Renee L. Brost and Yiqun Chen and Murat Cokol and Raamesh Deshpande and Zhijian Li and Zhen-Yuan Lin and Wendy Liang and Michaela Marback and Jadine Paw and Bryan-Joseph San Luis and Ermira Shuteriqi and Amy Hin Yan Tong and Nydia van Dyk and Iain M. Wallace and Joseph A. Whitney and Matthew T. Weirauch and Guoqing Zhong and Hongwei Zhu and Walid A. Houry and Michael Brudno and Sasan Ragibizadeh and Balázs Papp and Csaba Pál and Frederick P. Roth and Guri Giaever and Corey Nislow and Olga G. Troyanskaya and Howard Bussey and Gary D. Bader and Anne-Claude Gingras and Quaid D. Morris and Philip M. Kim and Chris A. Kaiser and Chad L. Myers and Brenda J. Andrews and Charles Boone
Science, ISSN 0036-8075, 1/2010, Volume 327, Issue 5964, pp. 425 - 431
A genome-scale genetic interaction map was constructed by examining 5.4 million gene-gene pairs for synthetic genetic interactions, generating quantitative... 
Quantitative genetics | Genetic mapping | Microbial genetics | Gene interaction | Genes | Drug interactions | Medical genetics | Evolutionary genetics | Genetics | Human genetics | Research Article | PATHWAYS | PROTEIN | EVOLUTION | EXOCYTOSIS | MULTIDISCIPLINARY SCIENCES | INTERACTION NETWORKS | TRANSFER-RNA | SACCHAROMYCES-CEREVISIAE | MAP | INTERACTOME | REVEALS | Gene Duplication | Gene Expression Regulation, Fungal | Saccharomyces cerevisiae - physiology | Saccharomyces cerevisiae - genetics | Computational Biology | Saccharomyces cerevisiae Proteins - genetics | Gene Regulatory Networks | Protein Interaction Mapping | Saccharomyces cerevisiae - metabolism | Genetic Fitness | Genome, Fungal | Metabolic Networks and Pathways | Saccharomyces cerevisiae Proteins - metabolism | Genes, Fungal | Mutation | Evaluation | Chromosome mapping | Pleiotropy | Genetic aspects | Structure | Brewer's yeast | Genotype & phenotype | Yeast | Cellular biology | Genomics | Index Medicus
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6. Full Text Independently Evolved Virulence Effectors Converge onto Hubs in a Plant Immune System Network
by M. Shahid Mukhtar and Anne-Ruxandra Carvunis and Matija Dreze and Petra Epple and Jens Steinbrenner and Jonathan Moore and Murat Tasan and Mary Galli and Tong Hao and Marc T. Nishimura and Samuel J. Pevzner and Susan E. Donovan and Lila Ghamsari and Balaji Santhanam and Viviana Romero and Matthew M. Poulin and Fana Gebreab and Bryan J. Gutierrez and Stanley Tam and Dario Monachello and Mike Boxem and Christopher J. Harbort and Nathan McDonald and Lantian Gai and Huaming Chen and Yijian He and Jean Vandenhaute and Frederick P. Roth and David E. Hill and Joseph R. Ecker and Marc Vidal and Jim Beynon and Pascal Braun and Jeffery L. Dang and European Union Effectoromics Conso and European Union Effectoromics Consortium
Science, ISSN 0036-8075, 7/2011, Volume 333, Issue 6042, pp. 596 - 601
Plants generate effective responses to infection by recognizing both conserved and variable pathogen-encoded molecules. Pathogens deploy virulence effector... 
Proteins | Pathogens | Receptors | RESEARCH ARTICLES | Arabidopsis proteins | Drug interactions | Virulence | Plant immunity | Connectivity | Infections | Host pathogen relationships | ARABIDOPSIS-THALIANA | DEFENSE RESPONSES | VIRUS | ARMS-RACE | MULTIDISCIPLINARY SCIENCES | INFECTION | DISEASE RESISTANCE | GENOME | PATHOGENS | Plant Immunity | Genes, Plant | Plant Diseases - immunology | Arabidopsis - immunology | Immunity, Innate | Pseudomonas syringae - pathogenicity | Arabidopsis - metabolism | Protein Interaction Mapping | Arabidopsis - genetics | Host-Pathogen Interactions | Oomycetes - pathogenicity | Arabidopsis - microbiology | Bacterial Proteins - metabolism | Virulence Factors - metabolism | Receptors, Immunologic - metabolism | Evolution, Molecular | Physiological aspects | Plant defenses | Virulence (Microbiology) | Research | Health aspects | Immune system | Evolutionary biology | Flowers & plants | Convergence | Index Medicus
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7. Full Text Taking exception to human eugenics
by Roth, Frederick P and Wakeley, John
Genetics, ISSN 0016-6731, 10/2016, Volume 204, Issue 2, pp. 821 - 823
  Specifically, by treating disease and reducing variation in the number of children per person, we reduce the impact of genetics on survival and procreation,... 
SPONTANEOUS MUTATION | GENETICS & HEREDITY | Eugenics | History, 20th Century | Humans | Ethics | Population | Genetic engineering | Medical technology | Mutation | Myopia | Letters
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8. Full Text Systematic exploration of synergistic drug pairs
by Cokol, Murat and Chua, Hon Nian and Tasan, Murat and Mutlu, Beste and Weinstein, Zohar B and Suzuki, Yo and Nergiz, Mehmet E and Costanzo, Michael and Baryshnikova, Anastasia and Giaever, Guri and Nislow, Corey and Myers, Chad L and Andrews, Brenda J and Boone, Charles and Roth, Frederick P
Molecular Systems Biology, ISSN 1744-4292, 2011, Volume 7, Issue 1, pp. 544 - n/a
Drug synergy allows a therapeutic effect to be achieved with lower doses of component drugs. Drug synergy can result when drugs target the products of genes... 
drug discovery | chemical genetics | genetic interactions | drug combinations | THERAPEUTICS | NETWORK | ANTIBIOTICS | INFECTIONS | BIOCHEMISTRY & MOLECULAR BIOLOGY | GENETIC INTERACTION | DISCOVERY | RELEVANT | YEAST | COMBINATIONS | Antifungal Agents - pharmacology | Drug Synergism | Pentamidine - pharmacokinetics | Saccharomyces cerevisiae - metabolism | Drug Interactions | Saccharomyces cerevisiae - genetics | Antifungal Agents - pharmacokinetics | Tacrolimus - pharmacology | Biological Availability | Saccharomyces cerevisiae - drug effects | Tacrolimus - pharmacokinetics | Pentamidine - pharmacology | Drugs | Organic chemistry | Fungicides | Tacrolimus | Genes | Relative abundance | Exploration | Pentamidine | Bioavailability | Synergism | Index Medicus
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9. Full Text High-Quality Binary Protein Interaction Map of the Yeast Interactome Network
by Haiyuan Yu and Pascal Braun and Muhammed A. Yildirim and Irma Lemmens and Kavitha Venkatesan and Julie Sahalie and Tomoko Hirozane-Kishikawa and Fana Gebreab and Na Li and Nicolas Simonis and Tong Hao and Jean-François Rual and Amélie Dricot and Alexei Vazquez and Ryan R. Murray and Christophe Simon and Leah Tardivo and Stanley Tam and Nenad Svrzikapa and Changyu Fan and Anne-Sophie de Smet and Adriana Motyl and Michael E. Hudson and Juyong Park and Xiaofeng Xin and Michael E. Cusick and Troy Moore and Charlie Boone and Michael Snyder and Frederick P. Roth and Albert-László Barabási and Jan Tavernier and David E. Hill and Marc Vidal
Science, ISSN 0036-8075, 10/2008, Volume 322, Issue 5898, pp. 104 - 110
Current yeast interactome network maps contain several hundred molecular complexes with limited and somewhat controversial representation of direct binary... 
Datasets | Yeasts | Screening tests | Drug interactions | Molecular interactions | Principal components analysis | Connectivity | Reports | Open reading frames | Grants | Protein interaction mapping | 2-HYBRID SCREENS | REGULATORY NETWORKS | ANNOTATION | MULTIDISCIPLINARY SCIENCES | ESCHERICHIA-COLI | COMPLEXES | GENOMIC ANALYSIS | C-ELEGANS | SCALE | SACCHAROMYCES-CEREVISIAE | MASS-SPECTROMETRY | Signal Transduction | Saccharomyces cerevisiae - genetics | Computational Biology | Saccharomyces cerevisiae Proteins - genetics | Gene Regulatory Networks | Protein Interaction Mapping - standards | Saccharomyces cerevisiae - metabolism | Transcription Factors - metabolism | Protein Interaction Mapping - methods | Two-Hybrid System Techniques | Metabolic Networks and Pathways | Mass Spectrometry | Proteomics | Saccharomyces cerevisiae Proteins - metabolism | Protein Array Analysis | Protein Binding | Saccharomyces cerevisiae Proteins - isolation & purification | Proteome - metabolism | Physiological aspects | Genetic aspects | Research | Yeast fungi | Protein-protein interactions | Data analysis | Yeast | Cellular biology | Molecular biology | Spectrum analysis | Index Medicus
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10. Full Text Assessing Experimentally Derived Interactions in a Small World
by Debra S. Goldberg and Frederick P. Roth
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 4/2003, Volume 100, Issue 8, pp. 4372 - 4376
Experimentally determined networks are susceptible to errors, yet important inferences can still be drawn from them. Many real networks have also been shown to... 
Yeasts | Physical Sciences | Neighborhoods | Databases | Network topology | Drug interactions | Inference | Topology | Coefficients | Vertices | Empirical evidence | ORGANIZATION | YEAST | SCALE-FREE NETWORKS | METABOLIC NETWORKS | BEHAVIOR | MULTIDISCIPLINARY SCIENCES | PROTEIN-PROTEIN INTERACTIONS | MODEL | IDENTIFICATION | SACCHAROMYCES-CEREVISIAE | COMPLEX NETWORKS | Mathematics | Proteins - metabolism | Models, Biological | Saccharomyces cerevisiae Proteins - metabolism | Cluster Analysis | Information networks | Computer networks | Models | Proteins | Mathematical models | Index Medicus | Biological Sciences
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11. Full Text RanBP2/Nup358 Potentiates the Translation of a Subset of mRNAs Encoding Secretory Proteins
: e1001545
by Kohila Mahadevan and Hui Zhang and Abdalla Akef and Xianying A Cui and Serge Gueroussov and Can Cenik and Frederick P Roth and Alexander F Palazzo
PLoS Biology, ISSN 1544-9173, 04/2013, Volume 11, Issue 4
  In higher eukaryotes, most mRNAs that encode secreted or membrane-bound proteins contain elements that promote an alternative mRNA nuclear export (ALREX)... 
Proteins | Medical research | Plasmids | Genetics | Experiments | Exports | Cytoplasm
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