Results 21 to 30 of about 11,169 (113)

PANDAseq: paired-end assembler for illumina sequences [PDF]

BMC Bioinformatics, 2012
Abstract Background Illumina paired-end reads are used to analyse microbial communities by targeting amplicons of the 16S rRNA gene. Publicly available tools are needed to assemble overlapping paired-end reads while correcting mismatches and uncalled bases; many errors could be corrected to obtain higher sequence ...
Andre P. Masella, Andrea K. Bartram, Jakub Truszkowski, Daniel Gregory Brown, Josh D. Neufeld   +4 more
openaire   +3 more sources

Illumina Sequencing Library Construction from ChIP DNA

Bio-Protocol, 2012
The Illumina sequencing platform is very popular among next-generation sequencing platforms. However, the DNA sequencing library construction kit provided by Illumina is considerably expensive.
Wei Zheng
doaj   +1 more source

High-quality single amplicon sequencing method for illumina MiSeq platform using pool of ‘N’ (0–10) spacer-linked target specific primers without PhiX spike-in

BMC Genomics, 2023
Background Illumina sequencing platform requires base diversity in the initial 11 cycles for efficient cluster identification and colour matrix estimation. This limitation yields low-quality data for amplicon libraries having homogeneous base composition.
Tejali Naik, Mohak Sharda, Lakshminarayanan C P, Kumar Virbhadra, Awadhesh Pandit   +4 more
doaj   +1 more source

Paragraph: a graph-based structural variant genotyper for short-read sequence data

Genome Biology, 2019
Accurate detection and genotyping of structural variations (SVs) from short-read data is a long-standing area of development in genomics research and clinical sequencing pipelines.
Sai Chen, Peter Krusche, Egor Dolzhenko, Rachel M. Sherman, Roman Petrovski, Felix Schlesinger, Melanie Kirsche, David R. Bentley, Michael C. Schatz, Fritz J. Sedlazeck, Michael A. Eberle   +10 more
doaj   +1 more source

BFC: correcting Illumina sequencing errors [PDF]

Bioinformatics, 2015
Abstract Summary: BFC is a free, fast and easy-to-use sequencing error corrector designed for Illumina short reads. It uses a non-greedy algorithm but still maintains a speed comparable to implementations based on greedy methods. In evaluations on real data, BFC appears to correct more errors with fewer overcorrections in comparison to ...
openaire   +2 more sources

Chromosome-level haplotype-resolved genome assembly for Takifugu ocellatus using PacBio and Hi-C technologies

Scientific Data, 2023
Measurement(s) Whole Genome Sequencing • Chromosome assembly by Hi-C data • Whole Transcriptome Sequencing Technology Type(s) PacBio Sequel System • Hi-C • Illumina HiSeq. 2500 • Illumina NovaSeq.
Qingmin Zeng, Zhixiong Zhou, Qian He, Leibin Li, Fei Pu, Mengzhen Yan, Peng Xu   +6 more
doaj   +1 more source

A pilot study for channel catfish whole genome sequencing and de novo assembly

BMC Genomics, 2011
Background Recent advances in next-generation sequencing technologies have drastically increased throughput and significantly reduced sequencing costs.
Jiang Yanliang, Lu Jianguo, Peatman Eric, Kucuktas Huseyin, Liu Shikai, Wang Shaolin, Sun Fanyue, Liu Zhanjiang   +7 more
doaj   +1 more source

Comparison of the Illumina NextSeq 2000 and GeneMind Genolab M sequencing platforms for spatial transcriptomics

BMC Genomics, 2023
Background The Illumina sequencing systems demonstrate high efficiency and power and remain the most popular platforms. Platforms with similar throughput and quality profiles but lower costs are under intensive development. In this study, we compared two
Iamshchikov Pavel, Larionova Irina, Gerashchenko Tatiana, Piankov Denis, Koshkin Philipp, Korostelev Sergei, Denisov Evgeny   +6 more
doaj   +1 more source

nifH amplification for Illumina sequencing v1 [PDF]

, 2020
For metabarcoding purpose, the first step involves the amplification by PCR of a given gene region (for example V4 or V9 region of 18S rRNA gene) or gene itself if its size does not exceed 600bp (the longest fragment size that can be sequenced by Illumina technology).
Estelle Bigeard, Adriana Lopes Dos Santos, Catherine Ribeiro   +2 more
openaire   +1 more source

German-Wide Interlaboratory Study Compares Consistency, Accuracy and Reproducibility of Whole-Genome Short Read Sequencing

Frontiers in Microbiology, 2020
We compared the consistency, accuracy and reproducibility of next-generation short read sequencing between ten laboratories involved in food safety (research institutes, state laboratories, universities and companies) from Germany and Austria ...
Laura Uelze, Maria Borowiak, Markus Bönn, Erik Brinks, Carlus Deneke, Thomas Hankeln, Sylvia Kleta, Larissa Murr, Kerstin Stingl, Kathrin Szabo, Simon H. Tausch, Anne Wöhlke, Burkhard Malorny   +12 more
doaj   +1 more source