Transcriptomics in the RNA-seq era
PA McGettigan - Current opinion in chemical biology, 2013 - Elsevier
The transcriptomics field has developed rapidly with the advent of next-generation
sequencing technologies. RNA-seq has now displaced microarrays as the preferred method …
sequencing technologies. RNA-seq has now displaced microarrays as the preferred method …
[HTML][HTML] Anvi'o: an advanced analysis and visualization platform for 'omics data
Advances in high-throughput sequencing and 'omics technologies are revolutionizing
studies of naturally occurring microbial communities. Comprehensive investigations of …
studies of naturally occurring microbial communities. Comprehensive investigations of …
Separating homeologs by phasing in the tetraploid wheat transcriptome
Background The high level of identity among duplicated homoeologous genomes in
tetraploid pasta wheat presents substantial challenges for de novo transcriptome assembly …
tetraploid pasta wheat presents substantial challenges for de novo transcriptome assembly …
Re-assembly, quality evaluation, and annotation of 678 microbial eukaryotic reference transcriptomes
Background De novo transcriptome assemblies are required prior to analyzing RNA
sequencing data from a species without an existing reference genome or transcriptome …
sequencing data from a species without an existing reference genome or transcriptome …
SLIMM: species level identification of microorganisms from metagenomes
Identification and quantification of microorganisms is a significant step in studying the alpha
and beta diversities within and between microbial communities respectively. Both …
and beta diversities within and between microbial communities respectively. Both …
Dynamic read mapping and online consensus calling for better variant detection
K Břinda, V Boeva, G Kucherov - arXiv preprint arXiv:1605.09070, 2016 - arxiv.org
Variant detection from high-throughput sequencing data is an essential step in identification
of alleles involved in complex diseases and cancer. To deal with these massive data …
of alleles involved in complex diseases and cancer. To deal with these massive data …
Transcriptome assembly and visualization for RNA-sequencing data
KM Nip - 2023 - open.library.ubc.ca
Since its introduction, RNA-sequencing has allowed us to interrogate the transcriptome of an
organism, thereby advancing our understanding of cell biology and diseases. Typically, raw …
organism, thereby advancing our understanding of cell biology and diseases. Typically, raw …
Fusarium circinatum–host interaction: ecological and molecular aspects of the pathogenic and endophytic association
L Hernández Escribano - 2019 - oa.upm.es
Fusarium circinatum Nirenberg & O'Donnell es el agente causante de la enfermedad del
chancro resinoso del pino, reconocida como una de las enfermedades de coníferas más …
chancro resinoso del pino, reconocida como una de las enfermedades de coníferas más …
Optimizing Parameters for High-quality Metagenomic Assembly
A Kumar - 2015 - rave.ohiolink.edu
De novo assembly of metagenomic sequence data presents us with various computational
challenges in assembling short DNA fragments into larger sequences. An efficient assembly …
challenges in assembling short DNA fragments into larger sequences. An efficient assembly …
Cyberinfrastructure resources enabling creation of the loblolly pine reference transcriptome
Today's genomics technologies generate more sequence data than ever before possible,
and at substantially lower costs, serving researchers across biological disciplines in …
and at substantially lower costs, serving researchers across biological disciplines in …