HDVdb: A Comprehensive Hepatitis D Virus Database

Hepatitis D virus (HDV) causes the most severe form of viral hepatitis, which may rapidly progress to liver cirrhosis and hepatocellular carcinoma (HCC). It has been estimated that 15–20 million people worldwide are suffering from the chronic HDV infection. Currently, no effective therapies are avai...

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Published inViruses Vol. 12; no. 5; p. 538
Main Authors Usman, Zainab, Velkov, Stoyan, Protzer, Ulrike, Roggendorf, Michael, Frishman, Dmitrij, Karimzadeh, Hadi
Format Journal Article
LanguageEnglish
Published Switzerland MDPI AG 14.05.2020
MDPI
Subjects
Analysis
Databases, Genetic
Development and progression
Genetic aspects
Genome, Viral
Genomic libraries
Genotypes
genotyping
Health aspects
Hepatitis D - virology
Hepatitis delta virus
Hepatitis Delta Virus - classification
Hepatitis Delta Virus - genetics
Hepatitis Delta Virus - isolation & purification
Humans
Internet
Phylogeny
Webserver
Germany
database
Webserver
hepatitis delta virus
genotyping
Online AccessGet full text
ISSN1999-4915
1999-4915
DOI10.3390/v12050538

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Abstract Hepatitis D virus (HDV) causes the most severe form of viral hepatitis, which may rapidly progress to liver cirrhosis and hepatocellular carcinoma (HCC). It has been estimated that 15–20 million people worldwide are suffering from the chronic HDV infection. Currently, no effective therapies are available to treat acute or chronic HDV infection. The remarkable sequence variability of the HDV genome, particularly within the hypervariable region has resulted in the provisional classification of eight major genotypes and various subtypes. We have developed a specialized database, HDVdb, which contains a collection of partial and complete HDV genomic sequences obtained from the GenBank and from our own patient cohort. HDVdb enables the researchers to investigate the genetic variability of all available HDV sequences, correlation of genotypes to epidemiology and pathogenesis. Additionally, it will contribute in understanding the drug resistant mutations and develop effective vaccines against HDV infection. The database can be accessed through a web interface that allows for static and dynamic queries and offers integrated generic and specialized sequence analysis tools, such as annotation, genotyping, primer prediction, and phylogenetic analyses.
AbstractList Hepatitis D virus (HDV) causes the most severe form of viral hepatitis, which may rapidly progress to liver cirrhosis and hepatocellular carcinoma (HCC). It has been estimated that 15–20 million people worldwide are suffering from the chronic HDV infection. Currently, no effective therapies are available to treat acute or chronic HDV infection. The remarkable sequence variability of the HDV genome, particularly within the hypervariable region has resulted in the provisional classification of eight major genotypes and various subtypes. We have developed a specialized database, HDVdb, which contains a collection of partial and complete HDV genomic sequences obtained from the GenBank and from our own patient cohort. HDVdb enables the researchers to investigate the genetic variability of all available HDV sequences, correlation of genotypes to epidemiology and pathogenesis. Additionally, it will contribute in understanding the drug resistant mutations and develop effective vaccines against HDV infection. The database can be accessed through a web interface that allows for static and dynamic queries and offers integrated generic and specialized sequence analysis tools, such as annotation, genotyping, primer prediction, and phylogenetic analyses.
Hepatitis D virus (HDV) causes the most severe form of viral hepatitis, which may rapidly progress to liver cirrhosis and hepatocellular carcinoma (HCC). It has been estimated that 15-20 million people worldwide are suffering from the chronic HDV infection. Currently, no effective therapies are available to treat acute or chronic HDV infection. The remarkable sequence variability of the HDV genome, particularly within the hypervariable region has resulted in the provisional classification of eight major genotypes and various subtypes. We have developed a specialized database, HDVdb (http://hdvdb.bio.wzw.tum.de/), which contains a collection of partial and complete HDV genomic sequences obtained from the GenBank and from our own patient cohort. HDVdb enables the researchers to investigate the genetic variability of all available HDV sequences, correlation of genotypes to epidemiology and pathogenesis. Additionally, it will contribute in understanding the drug resistant mutations and develop effective vaccines against HDV infection. The database can be accessed through a web interface that allows for static and dynamic queries and offers integrated generic and specialized sequence analysis tools, such as annotation, genotyping, primer prediction, and phylogenetic analyses.
Hepatitis D virus (HDV) causes the most severe form of viral hepatitis, which may rapidly progress to liver cirrhosis and hepatocellular carcinoma (HCC). It has been estimated that 15-20 million people worldwide are suffering from the chronic HDV infection. Currently, no effective therapies are available to treat acute or chronic HDV infection. The remarkable sequence variability of the HDV genome, particularly within the hypervariable region has resulted in the provisional classification of eight major genotypes and various subtypes. We have developed a specialized database, HDVdb (http://hdvdb.bio.wzw.tum.de/), which contains a collection of partial and complete HDV genomic sequences obtained from the GenBank and from our own patient cohort. HDVdb enables the researchers to investigate the genetic variability of all available HDV sequences, correlation of genotypes to epidemiology and pathogenesis. Additionally, it will contribute in understanding the drug resistant mutations and develop effective vaccines against HDV infection. The database can be accessed through a web interface that allows for static and dynamic queries and offers integrated generic and specialized sequence analysis tools, such as annotation, genotyping, primer prediction, and phylogenetic analyses.Hepatitis D virus (HDV) causes the most severe form of viral hepatitis, which may rapidly progress to liver cirrhosis and hepatocellular carcinoma (HCC). It has been estimated that 15-20 million people worldwide are suffering from the chronic HDV infection. Currently, no effective therapies are available to treat acute or chronic HDV infection. The remarkable sequence variability of the HDV genome, particularly within the hypervariable region has resulted in the provisional classification of eight major genotypes and various subtypes. We have developed a specialized database, HDVdb (http://hdvdb.bio.wzw.tum.de/), which contains a collection of partial and complete HDV genomic sequences obtained from the GenBank and from our own patient cohort. HDVdb enables the researchers to investigate the genetic variability of all available HDV sequences, correlation of genotypes to epidemiology and pathogenesis. Additionally, it will contribute in understanding the drug resistant mutations and develop effective vaccines against HDV infection. The database can be accessed through a web interface that allows for static and dynamic queries and offers integrated generic and specialized sequence analysis tools, such as annotation, genotyping, primer prediction, and phylogenetic analyses.
Audience Academic
Author Frishman, Dmitrij
Velkov, Stoyan
Karimzadeh, Hadi
Usman, Zainab
Roggendorf, Michael
Protzer, Ulrike
AuthorAffiliation 1 Department of Bioinformatics, Wissenschaftszentrum Weihenstephan, Technische Universität München, 85354 Freising, Germany; zainabasrar@gmail.com (Z.U.); d.frishman@wzw.tum.de (D.F.)
3 Division of Clinical Pharmacology, University Hospital, LMU Munich, 80337 Munich, Germany
2 Institute of Virology, Technische Universität München, 81675 Munich, Germany; stoyan.velkov@tum.de (S.V.); protzer@tum.de (U.P.); michael.roggendorf@tum.de (M.R.)
AuthorAffiliation_xml – name: 3 Division of Clinical Pharmacology, University Hospital, LMU Munich, 80337 Munich, Germany
– name: 2 Institute of Virology, Technische Universität München, 81675 Munich, Germany; stoyan.velkov@tum.de (S.V.); protzer@tum.de (U.P.); michael.roggendorf@tum.de (M.R.)
– name: 1 Department of Bioinformatics, Wissenschaftszentrum Weihenstephan, Technische Universität München, 85354 Freising, Germany; zainabasrar@gmail.com (Z.U.); d.frishman@wzw.tum.de (D.F.)
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  fullname: Velkov, Stoyan
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Keywords database
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hepatitis delta virus
genotyping
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Snippet Hepatitis D virus (HDV) causes the most severe form of viral hepatitis, which may rapidly progress to liver cirrhosis and hepatocellular carcinoma (HCC). It...
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StartPage 538
SubjectTerms Analysis
Databases, Genetic
Development and progression
Genetic aspects
Genome, Viral
Genomic libraries
Genotypes
genotyping
Health aspects
Hepatitis D - virology
Hepatitis delta virus
Hepatitis Delta Virus - classification
Hepatitis Delta Virus - genetics
Hepatitis Delta Virus - isolation & purification
Humans
Internet
Phylogeny
Webserver
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Title HDVdb: A Comprehensive Hepatitis D Virus Database
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