[HTML][HTML] Computational tools for viral metagenomics and their application in clinical research
There are 100 times more virions than eukaryotic cells in a healthy human body. The
characterization of human-associated viral communities in a non-pathological state and the …
characterization of human-associated viral communities in a non-pathological state and the …
Good laboratory practice for clinical next-generation sequencing informatics pipelines
AS Gargis, L Kalman, DP Bick, C Da Silva… - Nature …, 2015 - nature.com
We report principles and guidelines (Supplementary Note) that were developed by the Next-
Generation Sequencing: Standardization of Clinical Testing II (Nex-StoCT II) informatics …
Generation Sequencing: Standardization of Clinical Testing II (Nex-StoCT II) informatics …
Discovery of Virus-Host interactions using bioinformatic tools
C Marques-Pereira, M Pires, IS Moreira - Methods in Cell Biology, 2022 - Elsevier
Viruses are a diverse biological group capable of infecting several hosts such as bacteria,
plants, and animals, including humans. Viral infections constitute a threat to the human …
plants, and animals, including humans. Viral infections constitute a threat to the human …
Improving alignment accuracy on homopolymer regions for semiconductor-based sequencing technologies
W Feng, S Zhao, D Xue, F Song, Z Li, D Chen, B He… - BMC genomics, 2016 - Springer
Abstract Background Ion Torrent and Ion Proton are semiconductor-based sequencing
technologies that feature rapid sequencing speed and low upfront and operating costs …
technologies that feature rapid sequencing speed and low upfront and operating costs …
Using state machines to model the Ion Torrent sequencing process and to improve read error rates
D Golan, P Medvedev - Bioinformatics, 2013 - academic.oup.com
Motivation: The importance of fast and affordable DNA sequencing methods for current day
life sciences, medicine and biotechnology is hard to overstate. A major player is Ion Torrent …
life sciences, medicine and biotechnology is hard to overstate. A major player is Ion Torrent …
Methods and systems for nucleic acid sequence analysis
N Homer - US Patent 8,594,951, 2013 - Google Patents
(54) METHODS AND SYSTEMS FOR NUCLEIC OTHER PUBLICATIONS ACID SEQUENCE
ANALYSIS Brockman, William et al.,“Quality scores and SNP detection in sequencing-by …
ANALYSIS Brockman, William et al.,“Quality scores and SNP detection in sequencing-by …
The performance of homopolymer detection using dichromatic and tetrachromatic fluorogenic next-generation sequencing platforms
HJ Chen, B Wang, LL Cai, YR Zhang, YS Shu, W Liu… - BMC genomics, 2024 - Springer
Objectives Homopolymer (HP) sequencing is error-prone in next-generation sequencing
(NGS) assays, and may induce false insertion/deletions and substitutions. This study aimed …
(NGS) assays, and may induce false insertion/deletions and substitutions. This study aimed …
Highly improved homopolymer aware nucleotide-protein alignments with 454 data
F Lysholm - BMC bioinformatics, 2012 - Springer
Background Roche 454 sequencing is the leading sequencing technology for producing
long read high throughput sequence data. Unlike most methods where sequencing errors …
long read high throughput sequence data. Unlike most methods where sequencing errors …
[PDF][PDF] Algorithms and tools for the analysis of high throughput DNA sequencing data
M Martin - 2014 - core.ac.uk
High-throughput DNA sequencing technologies make it possible to determine the order of
the nucleotides adenine, cytosine, guanine and thymine in DNA samples, resulting in …
the nucleotides adenine, cytosine, guanine and thymine in DNA samples, resulting in …
Methods and systems for nucleic acid sequence analysis
N Homer - US Patent 9,824,180, 2017 - Google Patents
Disclosed are new and improved methods and systems for nucleic acid sequence analysis
that can analyze data indicative of natural by-products of nucleotide incorporation events …
that can analyze data indicative of natural by-products of nucleotide incorporation events …