Literature DB >> 14681356

HERVd: the Human Endogenous RetroViruses Database: update.

Jan Paces1, Adam Pavlícek, Radek Zika, Vladimir V Kapitonov, Jerzy Jurka, Václav Paces.   

Abstract

An elaboration of HERVd (http://herv.img.cas.cz) is being carried out in two directions. One of them is the integration and better classification of families that diverge considerably from typical retroviral genomes. This leads to a more precise identification of members with individual families. The second improvement is better accessibility of the database and connection with human genome annotation.

Entities:  

Mesh：

Year:  2004        PMID： 14681356      PMCID： PMC308809          DOI： 10.1093/nar/gkh075

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  6 in total

1.  HERVd: database of human endogenous retroviruses.

Authors:  Jan Paces; Adam Pavlícek; Václav Paces
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

2.  BLAT--the BLAST-like alignment tool.

Authors:  W James Kent
Journal:  Genome Res       Date:  2002-04       Impact factor: 9.043

3.  The human genome browser at UCSC.

Authors:  W James Kent; Charles W Sugnet; Terrence S Furey; Krishna M Roskin; Tom H Pringle; Alan M Zahler; David Haussler
Journal:  Genome Res       Date:  2002-06       Impact factor: 9.043

4.  Repbase update: a database and an electronic journal of repetitive elements.

Authors:  J Jurka
Journal:  Trends Genet       Date:  2000-09       Impact factor: 11.639

5.  The UCSC Genome Browser Database.

Authors:  D Karolchik; R Baertsch; M Diekhans; T S Furey; A Hinrichs; Y T Lu; K M Roskin; M Schwartz; C W Sugnet; D J Thomas; R J Weber; D Haussler; W J Kent
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

6.  Database resources of the National Center for Biotechnology.

Authors:  David L Wheeler; Deanna M Church; Scott Federhen; Alex E Lash; Thomas L Madden; Joan U Pontius; Gregory D Schuler; Lynn M Schriml; Edwin Sequeira; Tatiana A Tatusova; Lukas Wagner
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971
  6 in total
  27 in total

1.  WAViS server for handling, visualization and presentation of multiple alignments of nucleotide or amino acids sequences.

Authors:  Radek Zika; Jan Paces; Adam Pavlícek; Václav Paces
Journal:  Nucleic Acids Res       Date:  2004-07-01       Impact factor: 16.971

2.  ERV3 and related sequences in humans: structure and RNA expression.

Authors:  Ann-Catrin Andersson; Zhihong Yun; Göran O Sperber; Erik Larsson; Jonas Blomberg
Journal:  J Virol       Date:  2005-07       Impact factor: 5.103

3.  Endogenous retroviral signatures predict immunotherapy response in clear cell renal cell carcinoma.

Authors:  Christof C Smith; Kathryn E Beckermann; Dante S Bortone; Aguirre A De Cubas; Lisa M Bixby; Samuel J Lee; Anshuman Panda; Shridar Ganesan; Gyan Bhanot; Eric M Wallen; Matthew I Milowsky; William Y Kim; W Kimryn Rathmell; Ronald Swanstrom; Joel S Parker; Jonathan S Serody; Sara R Selitsky; Benjamin G Vincent
Journal:  J Clin Invest       Date:  2018-10-02       Impact factor: 14.808

4.  Characterization of human endogenous retroviral elements in the blood of HIV-1-infected individuals.

Authors:  Rafael Contreras-Galindo; Mark H Kaplan; Angie C Contreras-Galindo; Marta J Gonzalez-Hernandez; Ilaria Ferlenghi; Fabiola Giusti; Eric Lorenzo; Scott D Gitlin; Michael H Dosik; Yasuhiro Yamamura; David M Markovitz
Journal:  J Virol       Date:  2011-10-26       Impact factor: 5.103

5.  Human Endogenous Retrovirus Type K (HERV-K) Particles Package and Transmit HERV-K-Related Sequences.

Authors:  Rafael Contreras-Galindo; Mark H Kaplan; Derek Dube; Marta J Gonzalez-Hernandez; Susana Chan; Fan Meng; Manhong Dai; Gilbert S Omenn; Scott D Gitlin; David M Markovitz
Journal:  J Virol       Date:  2015-04-29       Impact factor: 5.103

6.  Susceptibility of Human Endogenous Retrovirus Type K to Reverse Transcriptase Inhibitors.

Authors:  Rafael Contreras-Galindo; Derek Dube; Koh Fujinaga; Mark H Kaplan; David M Markovitz
Journal:  J Virol       Date:  2017-11-14       Impact factor: 5.103

Review 7.  Molecular functions of human endogenous retroviruses in health and disease.

Authors:  Maria Suntsova; Andrew Garazha; Alena Ivanova; Dmitry Kaminsky; Alex Zhavoronkov; Anton Buzdin
Journal:  Cell Mol Life Sci       Date:  2015-06-18       Impact factor: 9.261

8.  Recurrent HERV-H-mediated 3q13.2-q13.31 deletions cause a syndrome of hypotonia and motor, language, and cognitive delays.

Authors:  Andrey Shuvarikov; Ian M Campbell; Piotr Dittwald; Nicholas J Neill; Martin G Bialer; Christine Moore; Patricia G Wheeler; Stephanie E Wallace; Mark C Hannibal; Michael F Murray; Monica A Giovanni; Deborah Terespolsky; Sandi Sodhi; Matteo Cassina; David Viskochil; Billur Moghaddam; Kristin Herman; Chester W Brown; Christine R Beck; Anna Gambin; Sau Wai Cheung; Ankita Patel; Allen N Lamb; Lisa G Shaffer; Jay W Ellison; J Britt Ravnan; Paweł Stankiewicz; Jill A Rosenfeld
Journal:  Hum Mutat       Date:  2013-08-13       Impact factor: 4.878

Review 9.  Alternative tumour-specific antigens.

Authors:  Christof C Smith; Sara R Selitsky; Shengjie Chai; Paul M Armistead; Benjamin G Vincent; Jonathan S Serody
Journal:  Nat Rev Cancer       Date:  2019-07-05       Impact factor: 60.716

10.  Annotation and visualization of endogenous retroviral sequences using the Distributed Annotation System (DAS) and eBioX.

Authors:  Alvaro Martínez Barrio; Erik Lagercrantz; Göran O Sperber; Jonas Blomberg; Erik Bongcam-Rudloff
Journal:  BMC Bioinformatics       Date:  2009-06-16       Impact factor: 3.169
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