Results 11 to 20 of about 118,581 (310)
BISR-RNAseq: an efficient and scalable RNAseq analysis workflow with interactive report generation [PDF]
BMC Bioinformatics, 2019 Background RNA sequencing has become an increasingly affordable way to profile gene expression patterns. Here we introduce a workflow implementing several open-source softwares that can be run on a high performance computing environment.
Venkat Sundar Gadepalli +4 more
doaj +3 more sources
BMC Genomics, 2023 Background RNA sequencing has become the mainstay for studies of gene expression. Still, analysis of rare cells with random hexamer priming – to allow analysis of a broader range of transcripts – remains challenging.
Charlotte Gustafsson +5 more
doaj +4 more sources
Rnaseq: Mrna To Illumina Library [PDF]
Protocol Exchange, 2015 This protocol details the RNAseq sample preparation starting with mRNA and ending with quality control of finished libraries. This protocol was used specifically for virus mRNA samples related to ORFeome lab group.
Marcia Sanders +2 more
openaire +2 more sources
Bayesian Biomarker Discovery for RNAseq Data [PDF]
Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, 2018 RNAseq has become a popular technology for biomarker discovery. However, in many applications, such as single cell sequencing, zero counts comprise a considerable portion of data. Here we propose a new RNAseq model that explicitly models zero counts and solve a previously proposed feature selection framework, called Optimal Bayesian Filter (OBF), for ...
Ali Foroughi Pour, Lori A. Dalton
openaire +1 more source
Massive Parallel Alignment of RNA-seq Reads in Serverless Computing
Big Data and Cognitive Computing, 2023 In recent years, the use of Cloud infrastructures for data processing has proven useful, with a computing potential that is not affected by the limitations of a local infrastructure.
Pietro Cinaglia +2 more
doaj +1 more source
Nanopore direct RNA sequencing maps the complexity of Arabidopsis mRNA processing and m6A modification [PDF]
, 2020 Understanding genome organization and gene regulation requires insight into RNA transcription, processing and modification. We adapted nanopore direct RNA sequencing to examine RNA from a wild-type accession of the model plant Arabidopsis thaliana and a ...
Barton, Geoffrey J. +8 more
core +3 more sources
Transcriptomic profiling against Globodera pallida in resistant and susceptible potato roots
Revista Peruana de Biología, 2020 Globodera pallida is a white potato cyst nematode present in the Andes, which causes huge losses to Peruvian farmers. An RNA-seq analysis allowed the identification of candidate genes that could mediate resistance against this pathogen.
Hans Carreño +4 more
doaj +1 more source
Arkas: Rapid reproducible RNAseq analysis [PDF]
F1000Research, 2017 The recently introduced Kallisto pseudoaligner has radically simplified the quantification of transcripts in RNA-sequencing experiments. We offer cloud-scale RNAseq pipelines Arkas-Quantification , and Arkas-Analysis available within Illumina’s ...
Anthony R. Colombo +2 more
openaire +2 more sources
Journal of the American Society for Horticultural Science, 2023 The Oomycete plant pathogen, Phytophthora capsici, causes root, crown, and fruit rot of winter squash (Cucurbita moschata) and limits production. Some C.
Safa A. Alzohairy +4 more
doaj +1 more source
Quantitative nucleotide level analysis of regulation of translation in response to depolarization of cultured neural cells [PDF]
, 2017 Studies on regulation of gene expression have contributed substantially to understanding mechanisms for the long-term activity-dependent alterations in neural connectivity that are thought to mediate learning and memory.
Dalal, Jasbir S +5 more
core +2 more sources