Hepatitis B Virus Regulatory Sequence Database (HBVRegDB)

           

 

   
 

HBVRegDB related sites

Related Databases and Additional Tools, Sources of Information for Affected Individuals
LinkDescription
HBV sequence and genotyping data from HepSeq (UK) HBV epidemiological database
HBV genotyping from NCBI (USA) HBV genotyping system by similarity search from NCBI
HBV multiple sequence alignments from HDV databaseHBV sequence database Japan, sequences and alignments of HBV genes and genomes.
HBV analyses from BioAfrica (RSA) HBV data from BioAfrica
'HBV' and 'database' publications through PubMedNCBI HBV database related publications
Citation search of Stuyver et al Hepatology 2001Citation search
Resources for those affected by HBV (NZ) Hepatitis B Foundation, New Zealand
Editorial in NZMJ (NZ)Article from NZMJ on HBV in NZ
Hepatitis B Foundation (USA)HBV Foundation (USA)
Sources and tools for annotations
LinkDescription
Phylogenetically conserved OHV RNA structureHBV alignment and potential functional elements from Vienna
Real and potential overlapping ORFs in HBVMLGOD prediction of overlapping ORFs
GBrowse: The Generic Genome BrowserThe Generic Genome Browser is a combination of database and interactive web page for manipulating and displaying annotations on genomes.
BioPerlA collection of Perl modules that facilitate the development of Perl scripts for bioinformatics applications.
BlastN, BlastX, and TBlastXThe Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.
CDS-PlotconProgramme for detecting enhanced conservation in coding sequences.
Scan for Matches (PatScan)PatScan is a pattern matcher which searches protein or nucleotide (DNA, RNA, tRNA etc.) sequence archives for instances of a pattern which you input.
Open Reading Frames (getorf)Finds and extracts open reading frames (ORFs). This programm is part of the EMBOSS software package.
AlidotAlidot is part of the Vienna RNA software package. The program alidot is designed to detect conserved RNA secondary structures in small data sets of related RNA sequences.
Technical Information about HBVRegDB
LinkDescription
GBrowse configuration fileConfiguration file tells GBrowse what glyphs to use to render each of the feature types. The format of these configuration files are described in GBrowse Documentation. See the GBrowse CONFIGURE_HOW_TO.txt file for details.
CONFIGURE_HOW_TO.txtThis is a documentat about how to configure the GBrowse application.