Results 31 to 40 of about 1,734,932 (307)
DSAP: deep-sequencing small RNA analysis pipeline [PDF]
Nucleic Acids Research, 2010 DSAP is an automated multiple-task web service designed to provide a total solution to analyzing deep-sequencing small RNA datasets generated by next-generation sequencing technology. DSAP uses a tab-delimited file as an input format, which holds the unique sequence reads (tags) and their corresponding number of copies generated by the Solexa ...
Huang, Po-Jung +6 more
openaire +2 more sources
RNA-sequence analysis of human B-cells [PDF]
Genome Research, 2011 RNA-sequencing (RNA-seq) allows quantitative measurement of expression levels of genes and their transcripts. In this study, we sequenced complementary DNA fragments of cultured human B-cells and obtained 879 million 50-bp reads comprising 44 Gb of sequence.
Jonathan M, Toung +3 more
openaire +2 more sources
Streamlining Quantitative Analysis of Long RNA Sequencing Reads [PDF]
International Journal of Molecular Sciences, 2020 Transcriptome analyses allow for linking RNA expression profiles to cellular pathways and phenotypes. Despite improvements in sequencing methodology, whole transcriptome analyses are still tedious, especially for methodologies producing long reads. Currently, available data analysis software often lacks cost- and time-efficient workflows.
Sebastian Oeck +3 more
openaire +5 more sources
Tracking Cryptosporidium parvum by Sequence Analysis of Small Double-Stranded RNA
Emerging Infectious Diseases, 2001 We sequenced a 173-nucleotide fragment of the small double-stranded viruslike RNA of Cryptosporidium parvum isolates from 23 calves and 38 humans. Sequence diversity was detected at 17 sites.
Lihua Xiao +3 more
doaj +1 more source
Ribovore: ribosomal RNA sequence analysis for GenBank submissions and database curation
BMC Bioinformatics, 2021 Background The DNA sequences encoding ribosomal RNA genes (rRNAs) are commonly used as markers to identify species, including in metagenomics samples that may combine many organismal communities.
Alejandro A. Schäffer +7 more
doaj +1 more source
A computational method for estimating the PCR duplication rate in DNA and RNA-seq experiments. [PDF]
, 2017 BackgroundPCR amplification is an important step in the preparation of DNA sequencing libraries prior to high-throughput sequencing. PCR amplification introduces redundant reads in the sequence data and estimating the PCR duplication rate is important to
Bansal, Vikas
core +2 more sources
The First Complete Genome Sequence of a Novel Tetrastichus brontispae RNA Virus-1 (TbRV-1)
Viruses, 2019 The complete sequence of a novel RNA virus isolated from Tetrastichus brontispae (TbRV-1) was determined to be 12,239 nucleotides in length with five non-overlapping, linearly arranged coding sequences (CDS), potentially encoding nucleoproteins ...
E Meng +8 more
doaj +1 more source
Egyptian Informatics Journal, 2023 In an attempt to improve the analysis DNA sequence, a new intelligent deep analysis algorithm called reduce frequency bast on fast frequency graph mining (RF-FFGM) is established; This algorithm at the beginning converts the DNA sequence into RNA ...
Zena A. Kadhuim, Samaher Al-Janabi
doaj +1 more source
PRADA: pipeline for RNA sequencing data analysis [PDF]
Bioinformatics, 2014 Abstract Summary: Technological advances in high-throughput sequencing necessitate improved computational tools for processing and analyzing large-scale datasets in a systematic automated manner. For that purpose, we have developed PRADA (Pipeline for RNA-Sequencing Data Analysis), a flexible, modular and highly scalable software ...
Wandaliz, Torres-García +9 more
openaire +2 more sources
Geometric combinatorics and computational molecular biology: branching polytopes for RNA sequences
, 2016 Questions in computational molecular biology generate various discrete optimization problems, such as DNA sequence alignment and RNA secondary structure prediction.
Drellich, Elizabeth +5 more
core +1 more source