FASTQuick: rapid and comprehensive quality assessment of raw sequence reads [PDF]
GigaScience, 2021 Abstract Background Rapid and thorough quality assessment of sequenced genomes on an ultra-high-throughput scale is crucial for successful large-scale genomic studies. Comprehensive quality assessment typically requires full genome alignment, which costs a substantial amount of computational ...
Hyun Min Kang, Fan Zhang, Kang Hyun Min
exaly +7 more sources
pRESTO: a toolkit for processing high-throughput sequencing raw reads of lymphocyte receptor repertoires [PDF]
Bioinformatics, 2014 Abstract Summary: Driven by dramatic technological improvements, large-scale characterization of lymphocyte receptor repertoires via high-throughput sequencing is now feasible. Although promising, the high germline and somatic diversity, especially of B-cell immunoglobulin repertoires, presents challenges for analysis requiring the ...
François Vigneault +2 more
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Low-Bandwidth and Non-Compute Intensive Remote Identification of Microbes from Raw Sequencing Reads
PLoS ONE, 2013 Cheap high-throughput DNA sequencing may soon become routine not only for human genomes but also for practically anything requiring the identification of living organisms from their DNA: tracking of infectious agents, control of food products, bioreactors, or environmental samples.
Ole Lund, Laurent Gautier
exaly +6 more sources
Scalable long read self-correction and assembly polishing with multiple sequence alignment
Scientific Reports, 2021 Third-generation sequencing technologies allow to sequence long reads of tens of kbp, that are expected to solve various problems. However, they display high error rates, currently capped around 10%.
Pierre Morisse +4 more
doaj +1 more source
De novo characterization of the Lycium ruthenicum transcriptome and analysis of its digital gene expression profiles during fruit development and ripening [PDF]
Archives of Biological Sciences, 2017 Lycium ruthenicum Murr., which belongs to the family Solanaceae, is a resource plant for Chinese traditional medicine and nutraceutical foods. In this study, RNA sequencing was applied to obtain raw reads of L.
Peng Yong, Ma Huiqin, Chen Shangwu
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Data in Brief, 2020 The CXCR5 (C-X-C motif chemokine receptor 5) is chemokine transmembrane receptor, acting via its ligand CXCL13 and plays a crucial role in controlling the trafficking of inflammatory cells into and from the sub-retinal space, which contributes to the ...
Madhu Sudhana Saddala +2 more
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Rapid multi-locus sequence typing direct from uncorrected long reads using Krocus [PDF]
PeerJ, 2018 Genome sequencing is rapidly being adopted in reference labs and hospitals for bacterial outbreak investigation and diagnostics where time is critical.
Andrew J. Page, Jacqueline A. Keane
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F1000Research, 2020 The Sweetleaf (Stevia rebaudiana: Asteraceae) is widely grown for use as a sweetener. We present the whole genome sequence and annotation of this species. A total of 146,838,888 paired-end reads consisting of 22.2G bases were obtained by sequencing one
Kathleen O'Neill, Stacy Pirro
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Reducing the effects of PCR amplification and sequencing artifacts on 16S rRNA-based studies. [PDF]
PLoS ONE, 2011 The advent of next generation sequencing has coincided with a growth in interest in using these approaches to better understand the role of the structure and function of the microbial communities in human, animal, and environmental health.
Patrick D Schloss +2 more
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RNA-seq data from different developmental stages of Rafflesia cantleyi floral buds
Genomics Data, 2017 Rafflesia cantleyi, known as one of the world's largest flowers, is a specialised holoparasite due to dramatic morphological modifications. It possesses highly reduced vegetative structure and only appears as a flower for sexual reproduction.
Safoora Amini +6 more
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