Zobrazeno 1 - 10
of 25
pro vyhledávání: '"Caner Bağcı"'
Publikováno v:
BMC Bioinformatics, Vol 21, Iss S13, Pp 1-12 (2020)
Abstract Background Advances in mobile sequencing devices and laptop performance make metagenomic sequencing and analysis in the field a technologically feasible prospect. However, metagenomic analysis pipelines are usually designed to run on servers
Externí odkaz:
https://doaj.org/article/1172cc8277974f0da85c5310ca7980e9
Autor:
Krithika Arumugam, Caner Bağcı, Irina Bessarab, Sina Beier, Benjamin Buchfink, Anna Górska, Guanglei Qiu, Daniel H. Huson, Rohan B. H. Williams
Publikováno v:
Microbiome, Vol 7, Iss 1, Pp 1-13 (2019)
Abstract Background Short-read sequencing technologies have long been the work-horse of microbiome analysis. Continuing technological advances are making the application of long-read sequencing to metagenomic samples increasingly feasible. Results We
Externí odkaz:
https://doaj.org/article/d60251a67da748c2b61f15ad036a30a4
Autor:
Sofia Esquivel-Elizondo, Caner Bağcı, Monika Temovska, Byoung Seung Jeon, Irina Bessarab, Rohan B. H. Williams, Daniel H. Huson, Largus T. Angenent
Publikováno v:
Frontiers in Microbiology, Vol 11 (2021)
Bulk production of medium-chain carboxylates (MCCs) with 6–12 carbon atoms is of great interest to biotechnology. Open cultures (e.g., reactor microbiomes) have been utilized to generate MCCs in bioreactors. When in-line MCC extraction and preventi
Externí odkaz:
https://doaj.org/article/448933f4321b484cbe982c343c19358a
Autor:
Daniel H. Huson, Benjamin Albrecht, Caner Bağcı, Irina Bessarab, Anna Górska, Dino Jolic, Rohan B. H. Williams
Publikováno v:
Biology Direct, Vol 13, Iss 1, Pp 1-17 (2018)
Abstract Background There are numerous computational tools for taxonomic or functional analysis of microbiome samples, optimized to run on hundreds of millions of short, high quality sequencing reads. Programs such as MEGAN allow the user to interact
Externí odkaz:
https://doaj.org/article/74967af252c749e0983e6a72f7fddd37
Publikováno v:
Genomics, Proteomics & Bioinformatics, Vol 12, Iss 5, Pp 228-238 (2014)
MicroRNAs (miRNAs) were discovered two decades ago, yet there is still a great need for further studies elucidating their genesis and targeting in different phyla. Since experimental discovery and validation of miRNAs is difficult, computational pred
Externí odkaz:
https://doaj.org/article/986158ef1e9d4789a914f0aa44a987c5
Autor:
Caner Bağcı, Jens Allmer
Publikováno v:
PLoS ONE, Vol 11, Iss 1, p e0145065 (2016)
BACKGROUND:MicroRNAs (miRNAs) are short RNA sequences that guide post-transcriptional regulation of gene expression via complementarity to their target mRNAs. Discovered only recently, miRNAs have drawn a lot of attention. Multiple protein complexes
Externí odkaz:
https://doaj.org/article/c6def2e7d5c94e8fb9cc07c1ed761dfe
Publikováno v:
Metagenomic Data Analysis ISBN: 9781071630716
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::1ca8598cc7df6cf28bf8c709a14a713d
https://doi.org/10.1007/978-1-0716-3072-3_11
https://doi.org/10.1007/978-1-0716-3072-3_11
Publikováno v:
BMC Bioinformatics, Vol 21, Iss S13, Pp 1-12 (2020)
BMC Bioinformatics
BMC Bioinformatics
Background Advances in mobile sequencing devices and laptop performance make metagenomic sequencing and analysis in the field a technologically feasible prospect. However, metagenomic analysis pipelines are usually designed to run on servers and in t
In microbiome analysis, one main approach is to align metagenomic sequencing reads against a protein-reference database such as NCBI-nr, and then to perform taxonomic and functional binning based on the alignments. This approach is embodied, for exam
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::0f7569dfb47b2c2114097946d22a0760
https://doi.org/10.1101/2021.11.23.469797
https://doi.org/10.1101/2021.11.23.469797
Publikováno v:
Genome Biology and Evolution
Microbial studies typically involve the sequencing and assembly of draft genomes for individual microbes or whole microbiomes. Given a draft genome, one first task is to determine its phylogenetic context, that is, to place it relative to the set of