OrthoDisease: a database of human disease orthologs

Human Mutation
Kevin P O'BrienErik L L Sonnhammer

Abstract

One of the greatest promises of genome sequencing projects is to further the understanding of human diseases and to develop new therapies. Model organism genomes have been sequenced in parallel to human genomes to provide effective tools for the investigation of human gene function. Many of their genes share a common ancestry and function with human genes, and this is particularly true for orthologous genes. Here we present OrthoDisease, a comprehensive database of model organism genes that are orthologous to human disease genes. OrthoDisease was constructed by applying the Inparanoid ortholog detection algorithm to disease genes derived from the Online Mendelian Inheritance in Man database (OMIM). Pairwise whole genome/proteome comparisons between Homo sapiens and six other organisms were performed to identify ortholog clusters. OMIM numbers were extracted from the OMIM Morbid Map and were converted to gene sequences using the Locuslink mim2loc and loc2acc tables. These were mapped to Inparanoid ortholog clusters using Blast. The number of ortholog clusters in OrthoDisease with each respective species is currently: M. musculus, 1,354; D. melanogaster, 724; C. elegans, 533; A. thaliana, 398; S. cerevisiae, 290; and E. coli, 153...Continue Reading

References

Jun 1, 1970·Systematic Zoology·W M Fitch
Nov 1, 1995·Journal of Molecular Evolution·A L Hughes
Jun 1, 1997·Current Opinion in Genetics & Development·J Ahringer
Sep 1, 1997·Nucleic Acids Research·S F AltschulD J Lipman
Dec 11, 1999·Nucleic Acids Research·R L TatusovE V Koonin
Dec 11, 1999·Nucleic Acids Research·D R MaglottK D Pruitt
Jan 19, 2000·Trends in Genetics : TIG·K D PruittD R Maglott
Mar 11, 2000·Annals of Medicine·A A Aboobaker, M L Blaxter
Mar 24, 2000·Science·G M RubinS Lewis
May 12, 2001·The Journal of Investigative Dermatology·K P O'BrienM Ståhle-Bäckdahl
Dec 18, 2001·Journal of Molecular Biology·M RemmE L Sonnhammer
Dec 26, 2001·Nucleic Acids Research·Ada HamoshVictor A McKusick
Dec 26, 2001·Nucleic Acids Research·Samson ChienMichael Gribskov
Feb 12, 2002·Bioinformatics·Christian E V Storm, Erik L L Sonnhammer
Mar 5, 2002·Human Molecular Genetics·Kati AsumalahtiUNKNOWN Psoriasis Consortium
Sep 6, 2002·Genome Research·Victoria NembawareCathal Seoighe
Oct 9, 2002·Genome Research·Jason E StajichEwan Birney
Nov 26, 2002·Trends in Genetics : TIG·Erik L L Sonnhammer, Eugene V Koonin
Jan 10, 2003·Nucleic Acids Research·Brigitte BoeckmannMichel Schneider
May 15, 2003·International Journal of Experimental Diabesity Research·Loïc LerouxRajiv L Joshi
Jun 26, 2003·Nucleic Acids Research·Elisabeth GasteigerAmos Bairoch
Sep 4, 2003·Genome Research·Li LiDavid S Roos
Dec 19, 2003·Nucleic Acids Research·David L WheelerLukas Wagner
Dec 19, 2003·Nucleic Acids Research·Alex BatemanSean R Eddy
Dec 19, 2003·Nucleic Acids Research·Todd W HarrisLincoln D Stein

❮ Previous
Next ❯

Citations

May 14, 2011·Briefings in Bioinformatics·Kristoffer ForslundErik L L Sonnhammer
Dec 21, 2004·Nucleic Acids Research·Kevin P O'BrienErik L L Sonnhammer
Dec 26, 2007·Nucleic Acids Research·Carol J BultUNKNOWN Mouse Genome Database Group
May 29, 2010·Nucleic Acids Research·Divya SardanaAnil G Jegga
Aug 7, 2007·Annual Review of Genetics·Kara Dolinski, David Botstein
May 2, 2013·PLoS Computational Biology·Yana Bromberg
Aug 24, 2012·Briefings in Functional Genomics·Ko-Fan Chen, Damian C Crowther
Dec 18, 2013·Advanced Drug Delivery Reviews·Linda P O'ReillyStephen C Pak
Apr 12, 2014·Molecular Biology and Evolution·Emmanuel J P DouzeryVincent Ranwez
Dec 1, 2008·Expert Opinion on Drug Discovery·Geoff E Stilwell, Bethany Westlund
Jan 20, 2016·Current Genetics·Isabella Sarto-Jackson, Lubomir Tomaska
Feb 9, 2011·Chemico-biological Interactions·Michael KisielaEdmund Maser
Sep 30, 2008·Trends in Genetics : TIG·Arnold KuzniarJack A M Leunissen
Jun 15, 2007·Biochimica Et Biophysica Acta·Wei-Tse HsuMarc R Wilkins
Apr 21, 2007·The International Journal of Biochemistry & Cell Biology·Meena Kishore SakharkarShazib Pervaiz
Jul 1, 2006·Drug Discovery Today. Technologies·Andrey AlexeyenkoErik L L Sonnhammer
Apr 20, 2010·Journal of Proteomics·Sabine P Schrimpf, Michael O Hengartner
Apr 11, 2015·PLoS Computational Biology·Giulia MenconiIsabella Sbrana
Aug 3, 2017·Journal of Dental Research·R Grecco Machado, B Frank Eames
May 5, 2006·Nature Reviews. Drug Discovery·Titus Kaletta, Michael O Hengartner
Mar 22, 2014·Genetics·Stephanie E MohrNorbert Perrimon
Dec 2, 2017·FASEB Journal : Official Publication of the Federation of American Societies for Experimental Biology·Ghulam Jeelani PirEckhard Mandelkow
Apr 23, 2008·Current Protocols in Human Genetics·Michael G Smith, Michael Snyder

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.