[HTML][HTML] Physico-chemical conversion of lignocellulose: inhibitor effects and detoxification strategies: a mini review
D Kim - Molecules, 2018 - mdpi.com
A pretreatment of lignocellulosic biomass to produce biofuels, polymers, and other
chemicals plays a vital role in the biochemical conversion process toward disrupting the …
chemicals plays a vital role in the biochemical conversion process toward disrupting the …
HISAT: a fast spliced aligner with low memory requirements
HISAT (hierarchical indexing for spliced alignment of transcripts) is a highly efficient system
for aligning reads from RNA sequencing experiments. HISAT uses an indexing scheme …
for aligning reads from RNA sequencing experiments. HISAT uses an indexing scheme …
[HTML][HTML] TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
TopHat is a popular spliced aligner for RNA-sequence (RNA-seq) experiments. In this
paper, we describe TopHat2, which incorporates many significant enhancements to TopHat …
paper, we describe TopHat2, which incorporates many significant enhancements to TopHat …
Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype
The human reference genome represents only a small number of individuals, which limits its
usefulness for genotyping. We present a method named HISAT2 (hierarchical indexing for …
usefulness for genotyping. We present a method named HISAT2 (hierarchical indexing for …
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
Recent advances in high-throughput cDNA sequencing (RNA-seq) can reveal new genes
and splice variants and quantify expression genome-wide in a single assay. The volume …
and splice variants and quantify expression genome-wide in a single assay. The volume …
Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown
High-throughput sequencing of mRNA (RNA-seq) has become the standard method for
measuring and comparing the levels of gene expression in a wide variety of species and …
measuring and comparing the levels of gene expression in a wide variety of species and …
[HTML][HTML] Beneficial Effects of Monascus sp. KCCM 10093 Pigments and Derivatives: A Mini Review
The production of Monascus pigments and related byproducts, via microbial fermentation,
has been broadly utilized as coloring by traditional food industries and as a natural textile …
has been broadly utilized as coloring by traditional food industries and as a natural textile …
Centrifuge: rapid and sensitive classification of metagenomic sequences
Centrifuge is a novel microbial classification engine that enables rapid, accurate, and
sensitive labeling of reads and quantification of species on desktop computers. The system …
sensitive labeling of reads and quantification of species on desktop computers. The system …
[HTML][HTML] TopHat-Fusion: an algorithm for discovery of novel fusion transcripts
D Kim, SL Salzberg - Genome biology, 2011 - Springer
TopHat-Fusion is an algorithm designed to discover transcripts representing fusion gene
products, which result from the breakage and re-joining of two different chromosomes, or …
products, which result from the breakage and re-joining of two different chromosomes, or …
Biomaterials to model and measure epithelial cancers
The use of biomaterials has substantially contributed to both our understanding of
tumorigenesis and our ability to identify and capture tumour cells in vitro and in vivo. Natural …
tumorigenesis and our ability to identify and capture tumour cells in vitro and in vivo. Natural …