List of works - Benjamin King

A CTD-Pfizer collaboration: manual curation of 88,000 scientific articles text mined for drug-disease and drug-phenotype interactions.

scientific article published on 28 November 2013

A Conserved MicroRNA Regulatory Circuit Is Differentially Controlled during Limb/Appendage Regeneration

scientific article

A Fluorescence-Based Assay for Proteinuria Screening in Larval Zebrafish (Danio rerio)

scientific article

A Uniform System for the Annotation of Vertebrate microRNA Genes and the Evolution of the Human microRNAome

scientific article

A natural deletion of the HoxC cluster in elasmobranch fishes

scientific article published on December 2011

A polymorphism in New Zealand inbred mouse strains that inactivates phosphatidylcholine transfer protein

scientific article

A role for the CXCR4-CXCL12 axis in the little skate, Leucoraja erinacea

scientific article published on 11 April 2018

Abnormal Osmotic Avoidance Behavior in C. elegans Is Associated with Increased Hypertonic Stress Resistance and Improved Proteostasis

scientific article

Advancing Exposure Science through Chemical Data Curation and Integration in the Comparative Toxicogenomics Database

scientific article (publication date: October 2016)

Altered growth characteristics of skin fibroblasts from wild-derived mice, and genetic loci regulating fibroblast clone size

scientific article published in June 2006

Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs

scientific article (publication date: 5 December 2002)

CD2AP regulates SUMOylation of CIN85 in podocytes

scientific article published on 27 December 2011

Calcium activated K⁺ channels in the electroreceptor of the skate confirmed by cloning. Details of subunits and splicing

scientific article

Cdcs1 a major colitis susceptibility locus in mice; subcongenic analysis reveals genetic complexity

scientific article

Characterization of human embryonic stem cell lines by the International Stem Cell Initiative

scientific article

Clusters of ancestrally related genes that show paralogy in whole or in part are a major feature of the genomes of humans and other species

scientific article

Community annotation and bioinformatics workforce development in concert--Little Skate Genome Annotation Workshops and Jamborees

scientific article

Comparative transcriptomic profiling of hydrogen peroxide signaling networks in zebrafish and human keratinocytes: Implications toward conservation, migration and wound healing

scientific article published on 5 February 2016

Connecting sequence and biology in the laboratory mouse

scientific article

Cortisol-treated zebrafish embryos develop into pro-inflammatory adults with aberrant immune gene regulation.

scientific article published on 21 July 2016

Datgan, a reusable software system for facile interrogation and visualization of complex transcription profiling data

scientific article

Detection of canonical A-to-G editing events at 3' UTRs and microRNA target sites in human lungs using next-generation sequencing

scientific article published on 15 October 2015

Empirical free energy as a target function in docking and design: application to HIV-1 protease inhibitors

scientific article published in April 1996

Endogenous retinoids in the pathogenesis of alopecia areata

scientific article

Evidence of a large-scale functional organization of Mammalian chromosomes

article

Evidence of a large-scale functional organization of mammalian chromosomes

scientific article

Functional and Comparative Genomic Analysis of the Piebald Deletion Region of Mouse Chromosome 14

article

Functional annotation of a full-length mouse cDNA collection

scientific article (publication date: 8 February 2001)

Gene Expression Changes Associated With the Developmental Plasticity of Sea Urchin Larvae in Response to Food Availability.

scientific article

Generating Gene Ontology-Disease Inferences to Explore Mechanisms of Human Disease at the Comparative Toxicogenomics Database

scientific article

Genetic analysis of albuminuria in a cross between C57BL/6J and DBA/2J mice

article

Genomic-sequence comparison of two unrelated isolates of the human gastric pathogen Helicobacter pylori

scientific article

Global gene profiling of aging lungs in Atp8b1 mutant mice

scientific article

Graphical representations of the class I MHC cleft

scientific article published in September 1993

In silico characterization of the insect diapause-associated protein couch potato (CPO) in Calanus finmarchicus (Crustacea: Copepoda).

scientific article published on 27 November 2012

Integrating computationally assembled mouse transcript sequences with the Mouse Genome Informatics (MGI) database

scientific article

Meiotic behavior of aneuploid chromatin in mouse models of Down syndrome.

scientific article

MicroRNAs support a turtle + lizard clade ⬇️

scientific article

MicroRNAs support the monophyly of enteropneust hemichordates

scientific article

Modulation of TNFα Activity by the microRNA Let-7 Coordinates Zebrafish Heart Regeneration

scientific article published on 10 April 2019

Molecular clustering identifies complement and endothelin induction as early events in a mouse model of glaucoma

scientific article

NOD x 129.H2(g7) backcross delineates 129S1/SvImJ-derived genomic regions modulating type 1 diabetes development in mice

scientific article published on 31 March 2009

Natural selection canalizes expression variation of environmentally induced plasticity-enabling genes

scientific article

Patterns and mechanisms of genome organization in the mouse

scientific article published on September 2006

Prefoldin 5 is required for normal sensory and neuronal development in a murine model

scientific article

Prioritizing studies on regeneration in nontraditional model organisms

scientific article published on 7 December 2016

Profiling microRNA expression in Atlantic killifish (Fundulus heteroclitus) gill and responses to arsenic and hyperosmotic stress

scientific article published on 12 November 2018

Quantitative trait loci affecting phenotypic variation in the vacuolated lens mouse mutant, a multigenic mouse model of neural tube defects

article

Ranking transitive chemical-disease inferences using local network topology in the comparative toxicogenomics database

scientific article

Rearrangement in the Hypervariable Region of JC Polyomavirus Genomes Isolated from Patient Samples and Impact on Transcription Factor-Binding Sites and Disease Outcomes

scientific article published on 20 May 2022

RegenDbase: a comparative database of noncoding RNA regulation of tissue regeneration circuits across multiple taxa.

scientific article published on 29 May 2018

SkateBase, an elasmobranch genome project and collection of molecular resources for chondrichthyan fishes

scientific article

The Alström syndrome protein, ALMS1, interacts with α-actinin and components of the endosome recycling pathway

scientific article

The Comparative Toxicogenomics Database's 10th year anniversary: update 2015.

scientific article

The Comparative Toxicogenomics Database: update 2011.

scientific article

The Comparative Toxicogenomics Database: update 2013.

scientific article

The Comparative Toxicogenomics Database: update 2017

scientific article (publication date: 4 January 2017)

The Interrelationships of Placental Mammals and the Limits of Phylogenetic Inference ⬇️

scientific article

The Mouse Genome Database (MGD): integrating biology with the genome.

scientific article

The landscape of extreme genomic variation in the highly adaptable Atlantic killifish

scientific article published on 13 February 2017

Through Regulation of TCR Expression Levels, an Idd7 Region Gene(s) Interactively Contributes to the Impaired Thymic Deletion of Autoreactive Diabetogenic CD8+ T Cells in Nonobese Diabetic Mice

article

Toward consilience in reptile phylogeny: miRNAs support an archosaur, not lepidosaur, affinity for turtles

scientific article

Widespread genomic breaks generated by activation-induced cytidine deaminase are prevented by homologous recombination

scientific article

medna-metadata: an open-source data management system for tracking environmental DNA samples and metadata

scientific article published in 2022

miRNAs: small genes with big potential in metazoan phylogenetics

scientific article

List of works by Benjamin King

A CTD-Pfizer collaboration: manual curation of 88,000 scientific articles text mined for drug-disease and drug-phenotype interactions.

A Conserved MicroRNA Regulatory Circuit Is Differentially Controlled during Limb/Appendage Regeneration

A Fluorescence-Based Assay for Proteinuria Screening in Larval Zebrafish (Danio rerio)

A Uniform System for the Annotation of Vertebrate microRNA Genes and the Evolution of the Human microRNAome

A natural deletion of the HoxC cluster in elasmobranch fishes

A polymorphism in New Zealand inbred mouse strains that inactivates phosphatidylcholine transfer protein

A role for the CXCR4-CXCL12 axis in the little skate, Leucoraja erinacea

Abnormal Osmotic Avoidance Behavior in C. elegans Is Associated with Increased Hypertonic Stress Resistance and Improved Proteostasis

Advancing Exposure Science through Chemical Data Curation and Integration in the Comparative Toxicogenomics Database

Altered growth characteristics of skin fibroblasts from wild-derived mice, and genetic loci regulating fibroblast clone size

Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs

CD2AP regulates SUMOylation of CIN85 in podocytes

Calcium activated K⁺ channels in the electroreceptor of the skate confirmed by cloning. Details of subunits and splicing

Cdcs1 a major colitis susceptibility locus in mice; subcongenic analysis reveals genetic complexity

Characterization of human embryonic stem cell lines by the International Stem Cell Initiative

Clusters of ancestrally related genes that show paralogy in whole or in part are a major feature of the genomes of humans and other species

Community annotation and bioinformatics workforce development in concert--Little Skate Genome Annotation Workshops and Jamborees

Comparative transcriptomic profiling of hydrogen peroxide signaling networks in zebrafish and human keratinocytes: Implications toward conservation, migration and wound healing

Connecting sequence and biology in the laboratory mouse

Cortisol-treated zebrafish embryos develop into pro-inflammatory adults with aberrant immune gene regulation.

Datgan, a reusable software system for facile interrogation and visualization of complex transcription profiling data

Detection of canonical A-to-G editing events at 3' UTRs and microRNA target sites in human lungs using next-generation sequencing

Empirical free energy as a target function in docking and design: application to HIV-1 protease inhibitors

Endogenous retinoids in the pathogenesis of alopecia areata

Evidence of a large-scale functional organization of Mammalian chromosomes

Evidence of a large-scale functional organization of mammalian chromosomes

Functional and Comparative Genomic Analysis of the Piebald Deletion Region of Mouse Chromosome 14

Functional annotation of a full-length mouse cDNA collection

Gene Expression Changes Associated With the Developmental Plasticity of Sea Urchin Larvae in Response to Food Availability.

Generating Gene Ontology-Disease Inferences to Explore Mechanisms of Human Disease at the Comparative Toxicogenomics Database

Genetic analysis of albuminuria in a cross between C57BL/6J and DBA/2J mice

Genomic-sequence comparison of two unrelated isolates of the human gastric pathogen Helicobacter pylori

Global gene profiling of aging lungs in Atp8b1 mutant mice

Graphical representations of the class I MHC cleft

In silico characterization of the insect diapause-associated protein couch potato (CPO) in Calanus finmarchicus (Crustacea: Copepoda).

Integrating computationally assembled mouse transcript sequences with the Mouse Genome Informatics (MGI) database

Meiotic behavior of aneuploid chromatin in mouse models of Down syndrome.

MicroRNAs support a turtle + lizard clade ⬇️

MicroRNAs support the monophyly of enteropneust hemichordates

Modulation of TNFα Activity by the microRNA Let-7 Coordinates Zebrafish Heart Regeneration

Molecular clustering identifies complement and endothelin induction as early events in a mouse model of glaucoma

NOD x 129.H2(g7) backcross delineates 129S1/SvImJ-derived genomic regions modulating type 1 diabetes development in mice

Natural selection canalizes expression variation of environmentally induced plasticity-enabling genes

Patterns and mechanisms of genome organization in the mouse

Prefoldin 5 is required for normal sensory and neuronal development in a murine model

Prioritizing studies on regeneration in nontraditional model organisms

Profiling microRNA expression in Atlantic killifish (Fundulus heteroclitus) gill and responses to arsenic and hyperosmotic stress

Quantitative trait loci affecting phenotypic variation in the vacuolated lens mouse mutant, a multigenic mouse model of neural tube defects

Ranking transitive chemical-disease inferences using local network topology in the comparative toxicogenomics database

Rearrangement in the Hypervariable Region of JC Polyomavirus Genomes Isolated from Patient Samples and Impact on Transcription Factor-Binding Sites and Disease Outcomes

RegenDbase: a comparative database of noncoding RNA regulation of tissue regeneration circuits across multiple taxa.

SkateBase, an elasmobranch genome project and collection of molecular resources for chondrichthyan fishes

The Alström syndrome protein, ALMS1, interacts with α-actinin and components of the endosome recycling pathway

The Comparative Toxicogenomics Database's 10th year anniversary: update 2015.

The Comparative Toxicogenomics Database: update 2011.

The Comparative Toxicogenomics Database: update 2013.

The Comparative Toxicogenomics Database: update 2017

The Interrelationships of Placental Mammals and the Limits of Phylogenetic Inference ⬇️

The Mouse Genome Database (MGD): integrating biology with the genome.

The landscape of extreme genomic variation in the highly adaptable Atlantic killifish

Through Regulation of TCR Expression Levels, an Idd7 Region Gene(s) Interactively Contributes to the Impaired Thymic Deletion of Autoreactive Diabetogenic CD8+ T Cells in Nonobese Diabetic Mice

Toward consilience in reptile phylogeny: miRNAs support an archosaur, not lepidosaur, affinity for turtles

Widespread genomic breaks generated by activation-induced cytidine deaminase are prevented by homologous recombination

medna-metadata: an open-source data management system for tracking environmental DNA samples and metadata

miRNAs: small genes with big potential in metazoan phylogenetics