35 Result(s)

Article

Kee** up with the fast-moving world of crisis management

Charles W. Rice, Robin Schoen, Aristos Aristidou… in Agriculture and Human Values (2020)

Article

Comparative omics and feeding manipulations in chicken indicate a shift of the endocrine role of visceral fat towards reproduction

The mammalian adipose tissue plays a central role in energy-balance control, whereas the avian visceral fat hardly expresses leptin, the key adipokine in mammals. Therefore, to assess the endocrine role of adi...

Susanne Bornelöv, Eyal Seroussi, Sara Yosefi, Sharon Benjamini… in BMC Genomics (2018)

Article

Correspondence on Lovell et al.: identification of chicken genes previously assumed to be evolutionarily lost

Through RNA-Seq analyses, we identified 137 genes that are missing in chicken, including the long-sought-after nephrin and tumor necrosis factor genes. These genes tended to cluster in GC-rich regions that hav...

Susanne Bornelöv, Eyal Seroussi, Sara Yosefi, Ken Pendavis… in Genome Biology (2017)

Article

Systems toxicology identifies mechanistic impacts of 2-amino-4,6-dinitrotoluene (2A-DNT) exposure in Northern Bobwhite

A systems toxicology investigation comparing and integrating transcriptomic and proteomic results was conducted to develop holistic effects characterizations for the wildlife bird model, Northern bobwhite (Colinu...

Kurt A. Gust, Bindu Nanduri, Arun Rawat, Mitchell S. Wilbanks, Choo Yaw Ang… in BMC Genomics (2015)

Article

Coordinated international action to accelerate genome-to-phenome with FAANG, the Functional Annotation of Animal Genomes project

We describe the organization of a nascent international effort, the Functional Annotation of Animal Genomes (FAANG) project, whose aim is to produce comprehensive maps of functional elements in the genomes of ...

Leif Andersson, Alan L Archibald, Cynthia D Bottema, Rudiger Brauning… in Genome Biology (2015)

Article

Proteogenomic map** of Mycoplasma hyopneumoniae virulent strain 232

Mycoplasma hyopneumoniae causes respiratory disease in swine and contributes to the porcine respiratory disease complex, a major disease problem in the swine industry. The M. hyopneumoniae strain 232 genome is on...

Ken Pendarvis, Matthew P Padula, Jessica L Tacchi, Andrew C Petersen… in BMC Genomics (2014)

Article

Nuclear Factor kappa B is central to Marek’s Disease herpesvirus induced neoplastic transformation of CD30 expressing lymphocytes in-vivo

Marek’s Disease (MD) is a hyperproliferative, lymphomatous, neoplastic disease of chickens caused by the oncogenic Gallid herpesvirus type 2 (GaHV-2; MDV). Like several human lymphomas the neoplastic MD lymphoma ...

Shyamesh Kumar, Dusan Kunec, Joram J Buza, Hsin-I Chiang… in BMC Systems Biology (2012)

Article

Transcriptome profile of a bovine respiratory disease pathogen: Mannheimia haemolytica PHL213

Computational methods for structural gene annotation have propelled gene discovery but face certain drawbacks with regards to prokaryotic genome annotation. Identification of transcriptional start sites, demar...

Joseph S Reddy, Ranjit Kumar, James M Watt, Mark L Lawrence… in BMC Bioinformatics (2012)

Article

Sequencing three crocodilian genomes to illuminate the evolution of archosaurs and amniotes

The International Crocodilian Genomes Working Group (ICGWG) will sequence and assemble the American alligator (Alligator mississippiensis), saltwater crocodile (Crocodylus porosus) and Indian gharial (Gavialis ga...

John A St John, Edward L Braun, Sally R Isberg, Lee G Miles… in Genome Biology (2012)

Article

RNA-Seq-based transcriptional map of the bovine respiratory disease pathogen Histophilus somni 2336

Ranjit Kumar, Mark L Lawrence, James Watt, Amanda Cooksey… in Genome Biology (2011)

Article

RNA-Seq-based transcriptional map of the bovine respiratory disease pathogen Histophilus somni 2336

Ranjit Kumar, Mark L Lawrence, James Watt, Amanda Cooksey… in Genome Biology (2011)

Article

The Proteogenomic Map** Tool

High-throughput mass spectrometry (MS) proteomics data is increasingly being used to complement traditional structural genome annotation methods. To keep pace with the high speed of experimental data generatio...

William S Sanders, Nan Wang, Susan M Bridges, Brandon M Malone… in BMC Bioinformatics (2011)

Article

An atlas of bovine gene expression reveals novel distinctive tissue characteristics and evidence for improving genome annotation

A comprehensive transcriptome survey, or gene atlas, provides information essential for a complete understanding of the genomic biology of an organism. We present an atlas of RNA abundance for 92 adult, juveni...

Gregory P Harhay, Timothy PL Smith, Leeson J Alexander… in Genome Biology (2010)

Article

GOModeler- A tool for hypothesis-testing of functional genomics datasets

Functional genomics technologies that measure genome expression at a global scale are accelerating biological knowledge discovery. Generating these high throughput datasets is relatively easy compared to the d...

Prashanti Manda, McKinley G Freeman, Susan M Bridges, TJ Jankun-Kelly… in BMC Bioinformatics (2010)

Article

Complete genome and comparative analysis of the chemolithoautotrophic bacterium Oligotropha carboxidovorans OM5

Oligotropha carboxidovorans OM5 T. (DSM 1227, ATCC 49405) is a chemolithoautotrophic bacterium capable of utilizing CO (carbon monoxide) and fixing CO₂ (carbon dioxide). We previously published the draft genome o...

Debarati Paul, Susan M Bridges, Shane C Burgess, Yoginder S Dandass… in BMC Genomics (2010)

Article

Identification of novel non-coding small RNAs from Streptococcus pneumoniae TIGR4 using high-resolution genome tiling arrays

The identification of non-coding transcripts in human, mouse, and Escherichia coli has revealed their widespread occurrence and functional importance in both eukaryotic and prokaryotic life. In prokaryotes, studi...

Ranjit Kumar, Pratik Shah, Edwin Swiatlo, Shane C Burgess, Mark L Lawrence… in BMC Genomics (2010)

Article

Genotype-Dependent Tumor Regression in Marek’s Disease Mediated at the Level of Tumor Immunity

Marek’s disease (MD) of chickens is a unique natural model of Hodgkin’s and Non Hodgkin’s lymphomas in which the neoplastically-transformed cells over-express CD30 (CD30^hi) antigen. All chicken genotypes can be i...

Shyamesh Kumar, Joram J. Buza, Shane C. Burgess in Cancer Microenvironment (2009)

Article

Facilitating functional annotation of chicken microarray data

Modeling results from chicken microarray studies is challenging for researchers due to little functional annotation associated with these arrays. The Affymetrix GenChip chicken genome array, one of the biggest...

Teresia J Buza, Ranjit Kumar, Cathy R Gresham, Shane C Burgess… in BMC Bioinformatics (2009)