Zobrazeno 1 - 10
of 326
pro vyhledávání: '"PANGENOMICS"'
Autor:
Vincenzo Bonnici, Davide Chicco
Publikováno v:
BioData Mining, Vol 17, Iss 1, Pp 1-14 (2024)
Abstract Pangenomics is a relatively new scientific field which investigates the union of all the genomes of a clade. The word pan means everything in ancient Greek; the term pangenomics originally regarded genomes of bacteria and was later intended
Externí odkaz:
https://doaj.org/article/89cd64c88a384513b17f51cd500af8be
Autor:
Mingwei Liu, Fan Zhang, Huimin Lu, Hongzhang Xue, Xiaorui Dong, Zhikang Li, Jianlong Xu, Wensheng Wang, Chaochun Wei
Publikováno v:
BMC Genomics, Vol 25, Iss 1, Pp 1-12 (2024)
Abstract Graph-based pangenome is gaining more popularity than linear pangenome because it stores more comprehensive information of variations. However, traditional linear genome browser has its own advantages, especially the tremendous resources acc
Externí odkaz:
https://doaj.org/article/d2f400da4a894782a9cd07a4923c9738
Publikováno v:
Genome Biology, Vol 25, Iss 1, Pp 1-28 (2024)
Abstract Many bioinformatics methods seek to reduce reference bias, but no methods exist to comprehensively measure it. Biastools analyzes and categorizes instances of reference bias. It works in various scenarios: when the donor’s variants are kno
Externí odkaz:
https://doaj.org/article/c936d679c84f4a0e8c5983cd97575663
Publikováno v:
Algorithms for Molecular Biology, Vol 19, Iss 1, Pp 1-14 (2024)
Abstract FM-indexes are crucial data structures in DNA alignment, but searching with them usually takes at least one random access per character in the query pattern. Ferragina and Fischer [1] observed in 2007 that word-based indexes often use fewer
Externí odkaz:
https://doaj.org/article/5d545f4b58b649eaad33789914714512
Autor:
Tariq Aziz, Muhammad Naveed, Muhammad Aqib Shabbir, Ayaz Ali Khan, Abid Sarwar, Taqweem Ul Haq, Yang Zhennai, Metab Alharbi, Abdullah F. Alasmari, Thamer H. Albekairi
Publikováno v:
CyTA - Journal of Food, Vol 22, Iss 1 (2024)
ABSTRACTLactiplantibacillus plantarum is a probiotic starter culture that improves the flavor and nutritional content of fermented foods. It also shows potential in enhancing mucosal and systemic immunity, which contributes to overall health. We aime
Externí odkaz:
https://doaj.org/article/de58228e9aca432aacdfde91ad5070be
Publikováno v:
Frontiers in Bioinformatics, Vol 4 (2024)
We generalize a problem of finding maximum-scoring segment sets, previously studied by Csűrös (IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2004, 1, 139–150), from sequences to graphs. Namely, given a vertex-weighted graph G
Externí odkaz:
https://doaj.org/article/0336da1d90dc4a41ab516f4d108ab586
Publikováno v:
BMC Genomics, Vol 24, Iss 1, Pp 1-11 (2023)
Abstract Background Enterococcus faecalis is the most commonly isolated enterococcal species in clinical infection. This bacterium is notorious for its ability to share genetic content within and outside of its species. With this increased proficienc
Externí odkaz:
https://doaj.org/article/07dcc838e4ed4e72b7b22553d4db51d1
Publikováno v:
Genome Biology, Vol 24, Iss 1, Pp 1-19 (2023)
Abstract Background As a single reference genome cannot possibly represent all the variation present across human individuals, pangenome graphs have been introduced to incorporate population diversity within a wide range of genomic analyses. Several
Externí odkaz:
https://doaj.org/article/75120c1ff0e047c09e3f59223dc3ef0f
Autor:
Nicola Alexandra Vogel, Joshua Daniel Rubin, Mikkel Swartz, Juliette Vlieghe, Peter Wad Sackett, Anders Gorm Pedersen, Mikkel Winther Pedersen, Gabriel Renaud
Publikováno v:
Methods in Ecology and Evolution, Vol 14, Iss 11, Pp 2717-2727 (2023)
Abstract Ancient environmental DNA (aeDNA) is a crucial source of information for past environmental reconstruction. However, the computational analysis of aeDNA involves the inherited challenges of ancient DNA (aDNA) and the typical difficulties of
Externí odkaz:
https://doaj.org/article/09b21941026444d18e49b5d6423847a1
Autor:
Jonathan J. Giacomini, Julian Torres-Morales, Jonathan Tang, Floyd E. Dewhirst, Gary G. Borisy, Jessica L. Mark Welch
Publikováno v:
Microbiology Spectrum, Vol 12, Iss 4 (2024)
ABSTRACTHaemophilus and Aggregatibacter are two of the most common bacterial genera in the human oral cavity, encompassing both commensals and pathogens of substantial ecological and medical significance. In this study, we conducted a metapangenomic
Externí odkaz:
https://doaj.org/article/496910f9b12348f898f2349298cfdca1