Assembly, annotation, and integration of UNIGENE clusters into the human genome draft

Genome Research
D ZhuoB Yuan

Abstract

The recent release of the first draft of the human genome provides an unprecedented opportunity to integrate human genes and their functions in a complete positional context. However, at least three significant technical hurdles remain: first, to assemble a complete and nonredundant human transcript index; second, to accurately place the individual transcript indices on the human genome; and third, to functionally annotate all human genes. Here, we report the extension of the UNIGENE database through the assembly of its sequence clusters into nonredundant sequence contigs. Each resulting consensus was aligned to the human genome draft. A unique location for each transcript within the human genome was determined by the integration of the restriction fingerprint, assembled genomic contig, and radiation hybrid (RH) maps. A total of 59,500 UNIGENE clusters were mapped on the basis of at least three independent criteria as compared with the 30,000 human genes/ESTs currently mapped in Genemap'99. Finally, the extension of the human transcript consensus in this study enabled a greater number of putative functional assignments than the 11,000 annotated entries in UNIGENE. This study reports a draft physical map with annotations for a m...Continue Reading

References

Oct 5, 1990·Journal of Molecular Biology·S F AltschulD J Lipman
Aug 1, 1995·Nature Genetics·M S Boguski, G D Schuler
Dec 1, 1994·Nature Genetics·J Y TsaiL M Silver
Sep 30, 1994·Science·M S BoguskiD E Bassett
Sep 1, 1996·Genome Research·L D HillierM Marra
May 1, 1997·Genome Research·Gregory D Schuler
Jan 10, 1998·Genome Research·M A MarraR H Waterston
May 16, 1998·Genome Research·S J Wheelan, M S Boguski
May 16, 1998·Genome Research·P Richterich
Sep 2, 1998·Genome Research·E E Eichler
Oct 23, 1998·Science·P DeloukasD R Bentley
Dec 11, 1999·Nucleic Acids Research·W C BarkerC Wu
Dec 11, 1999·Nucleic Acids Research·A Bairoch, R Apweiler
Dec 11, 1999·Nucleic Acids Research·J QuackenbushJ Upton
Dec 11, 1999·Nucleic Acids Research·A BatemanE L Sonnhammer
Dec 30, 1999·Genome Research·A A MironovM S Gelfand
Apr 4, 2000·Bioinformatics·V L JunkerA Bairoch
Jun 3, 2000·Nature Genetics·B Ewing, P Green
Jul 13, 2000·American Journal of Human Genetics·J D WrenH R Garner

❮ Previous
Next ❯

Citations

Apr 25, 2002·Proceedings of the National Academy of Sciences of the United States of America·Douglas Kyung NamSan Ming Wang
Sep 6, 2002·Genome Research·Mihaela ZavolanTerry Gaasterland
Nov 1, 2002·Nucleic Acids Research·Patricia AyoubiRolf A Prade
Feb 13, 2003·Nucleic Acids Research·Antonello RomaniSaverio Alberti
Jun 26, 2003·Nucleic Acids Research·Agnes Hotz-WagenblattSándor Suhai
Feb 6, 2004·Genome Research·Vamsi VeeramachaneniIzabela Makałowska
Apr 3, 2004·Genome Biology·Svetlana A Shabalina, Nikolay A Spiridonov
Aug 5, 2004·Nucleic Acids Research·Jeremy LeipzigSteffen Heber
Mar 1, 2006·BMC Cancer·Bingjian LüJian Chen
Nov 6, 2010·Nucleic Acids Research·Pier L MartelliGraziano Pesole
Sep 25, 2003·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·John S Mattick
Dec 17, 2008·Mammalian Genome : Official Journal of the International Mammalian Genome Society·Dajeong LimHeebal Kim
Feb 15, 2020·Briefings in Bioinformatics·Ziaurrehman TanoliMarkus Vähä-Koskela
Mar 27, 2021·Molecular Genetics and Genomics : MGG·Boyin JiaHengxing Ba
May 17, 2014·Journal of Proteome Research·Sakdithep ChaiyaritVisith Thongboonkerd
May 5, 2001·Genome Research·E D Green, A Chakravarti

❮ 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.