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Protocols

HepSEQ specifications

Information


Unique identifier OMICS_03071
Name HepSEQ
Restrictions to use None
Maintained No

Taxon


  • Viruses
    • Hepatitis B virus

Publication for HepSEQ

HepSEQ citations

 (4)
library_books

G1896A Precore Mutation and Association With HBeAg Status, Genotype and Clinical Status in Patients With Chronic Hepatitis B

2015
PMCID: 4644636
PMID: 26587040
DOI: 10.5812/hepatmon.31490

[…] V complete nucleotide and 17 partial nucleotide sequences were obtained by PCR amplification and sequencing. (GenBank Accession numbers: KJ803752-KJ803827). Genotyping of the full genome sequences by HEPSEQ software revealed a distribution of 49.46%, 48.39% and 2.15% of genotypes C, B, and D, respectively; whereas, phylogenetic and jumping profile Hidden Markov Model (jpHMM) analysis identified si […]

call_split

HBV genotypes and response to tenofovir disoproxil fumarate in HIV/HBV coinfected persons

2015
PMCID: 4495698
PMID: 26152237
DOI: 10.1186/s12876-015-0308-0
call_split See protocol

[…] cation of DNA with a nested PCR approach was used. DNA of the HBpol region was amplified with primers described by Stuyver and coworkers [], and sequenced as described above. Data were analyzed using HepSEQ database, a web-accessible, quality-based, molecular, clinical and epidemiological database for hepatitis B. While analyzing the nested amplification product of 341 bp long, the HepSEQ database […]

library_books

S Gene Mutants Occurrence Among Hepatitis B Carriers in Malaysia

2014
PMCID: 4329239
PMID: 25737728
DOI: 10.5812/hepatmon.22565

[…] btained by PCR amplification and sequencing. The sequences were deposited into the GenBank (Accession numbers: KJ803752-KJ803827‏).Genotyping of the HBV full length and partial sequences based on the HEPSEQ software revealed a distribution of 49.46%, 48.39% and 2.15% of genotypes C,B, and D ,respectively. The phylogenetic tree for 76 full-length isolates revealed similar clusters of genotypes with […]

library_books

Molecular Epidemiology and Genotyping of Hepatitis B Virus of HBsAg Positive Patients in Oman

2014
PLoS One
PMCID: 4023993
PMID: 24835494
DOI: 10.1371/journal.pone.0097759

[…] ing method with 1,000 bootstrap replicates. Evolutionary distances were computed using the Maximum Composite Likelihood method . For independent confirmation, the genotyping online tool at http://www.hepseq.org was utilized. HBV reference strains in GenBank were HBV-A: HM011485, X02763; HBV-B: D00329; HBV-C: X01587; HBV-D: V01460; HBV-E: X75657; HBV-F: X75658; HBV-G: AF16050; and HBV-H: AY090457 ( […]


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HepSEQ institution(s)
Centre for Infections, Health Protection Agency, Colindale, London, UK

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