Alignment-free Transcriptomic and Metatranscriptomic Comparison Using Sequencing Signatures with Variable Length Markov Chains
Published 2016 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Alignment-free Transcriptomic and Metatranscriptomic Comparison Using Sequencing Signatures with Variable Length Markov Chains
Authors
Keywords
-
Journal
Scientific Reports
Volume 6, Issue 1, Pages -
Publisher
Springer Nature
Online
2016-11-23
DOI
10.1038/srep37243
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Fast and sensitive taxonomic classification for metagenomics with Kaiju
- (2016) Peter Menzel et al. Nature Communications
- MetaTrans: an open-source pipeline for metatranscriptomics
- (2016) Xavier Martinez et al. Scientific Reports
- Polyester: simulating RNA-seq datasets with differential transcript expression
- (2015) Alyssa C. Frazee et al. BIOINFORMATICS
- Inference of Markovian properties of molecular sequences from NGS data and applications to comparative genomics
- (2015) Jie Ren et al. BIOINFORMATICS
- CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers
- (2015) Rachid Ounit et al. BMC GENOMICS
- Comparison of Metatranscriptomic Samples Based on k-Tuple Frequencies
- (2014) Ying Wang et al. PLoS One
- Unraveling the Stratification of an Iron-Oxidizing Microbial Mat by Metatranscriptomics
- (2014) Achim Quaiser et al. PLoS One
- Marine algae and land plants share conserved phytochrome signaling systems
- (2014) D. Duanmu et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): Illuminating the Functional Diversity of Eukaryotic Life in the Oceans through Transcriptome Sequencing
- (2014) Patrick J. Keeling et al. PLOS BIOLOGY
- Kraken: ultrafast metagenomic sequence classification using exact alignments
- (2014) Derrick E Wood et al. GENOME BIOLOGY
- A comprehensive metatranscriptome analysis pipeline and its validation using human small intestine microbiota datasets
- (2013) Milkha M Leimena et al. BMC GENOMICS
- Alignment-Free Sequence Comparison Based on Next-Generation Sequencing Reads
- (2013) Kai Song et al. JOURNAL OF COMPUTATIONAL BIOLOGY
- Comparison of metagenomic samples using sequence signatures
- (2012) Bai Jiang et al. BMC GENOMICS
- Metagenomic microbial community profiling using unique clade-specific marker genes
- (2012) Nicola Segata et al. NATURE METHODS
- Comparative metatranscriptomics identifies molecular bases for the physiological responses of phytoplankton to varying iron availability
- (2012) A. Marchetti et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Diet Drives Convergence in Gut Microbiome Functions Across Mammalian Phylogeny and Within Humans
- (2011) B. D. Muegge et al. SCIENCE
- Comparing and aggregating partially resolved trees
- (2011) Mukul S. Bansal et al. THEORETICAL COMPUTER SCIENCE
- Alignment-Free Sequence Comparison (II): Theoretical Power of Comparison Statistics
- (2010) Lin Wan et al. JOURNAL OF COMPUTATIONAL BIOLOGY
- A human gut microbial gene catalogue established by metagenomic sequencing
- (2010) Junjie Qin et al. NATURE
- Alignment-Free Sequence Comparison (I): Statistics and Power
- (2009) Gesine Reinert et al. JOURNAL OF COMPUTATIONAL BIOLOGY
- Metatranscriptomics reveals unique microbial small RNAs in the ocean’s water column
- (2009) Yanmei Shi et al. NATURE
- Markov model plus k-word distributions: a synergy that produces novel statistical measures for sequence comparison
- (2008) Qi Dai et al. BIOINFORMATICS
- Comparison study on k-word statistical measures for protein: From sequence to 'sequence space'
- (2008) Qi Dai et al. BMC BIOINFORMATICS
Find Funding. Review Successful Grants.
Explore over 25,000 new funding opportunities and over 6,000,000 successful grants.
ExploreAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started