(Q37431258)

20 August 2017

Alignment-free Transcriptomic and Metatranscriptomic Comparison Using Sequencing Signatures with Variable Length Markov Chains (English)

1 reference

20 August 2017

0 references

1 reference

Weinan Liao

1

1 reference

20 August 2017

Jie Ren

2

1 reference

20 August 2017

Kun Wang

3

1 reference

20 August 2017

Shun Wang

4

1 reference

20 August 2017

Feng Zeng

5

1 reference

20 August 2017

Ying Wang

6

1 reference

20 August 2017

Fengzhu Sun

7

1 reference

20 August 2017

language of work or name

English

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publication date

23 November 2016

1 reference

20 August 2017

1 reference

20 August 2017

6

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20 August 2017

37243

1 reference

https://scigraph.springernature.com/pub.10.1038/srep37243

20 August 2017

0 references

cites work

MetaTrans: an open-source pipeline for metatranscriptomics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Fast and sensitive taxonomic classification for metagenomics with Kaiju

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Inference of Markovian properties of molecular sequences from NGS data and applications to comparative genomics.

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers.

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Marine algae and land plants share conserved phytochrome signaling systems.

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Unraveling the stratification of an iron-oxidizing microbial mat by metatranscriptomics

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): illuminating the functional diversity of eukaryotic life in the oceans through transcriptome sequencing

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Kraken: ultrafast metagenomic sequence classification using exact alignments

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Comparison of metatranscriptomic samples based on k-tuple frequencies

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

A comprehensive metatranscriptome analysis pipeline and its validation using human small intestine microbiota datasets

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Alignment-free sequence comparison based on next-generation sequencing reads

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Comparison of metagenomic samples using sequence signatures

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Metagenomic microbial community profiling using unique clade-specific marker genes

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Comparative metatranscriptomics identifies molecular bases for the physiological responses of phytoplankton to varying iron availability

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Diet drives convergence in gut microbiome functions across mammalian phylogeny and within humans

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

A human gut microbial gene catalogue established by metagenomic sequencing

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Alignment-free sequence comparison (I): statistics and power

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Metatranscriptomics reveals unique microbial small RNAs in the ocean's water column

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Comparison study on k-word statistical measures for protein: from sequence to 'sequence space'.

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Introducing TreeClimber, a test to compare microbial community structures

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Distributional regimes for the number of k-word matches between two random sequences

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

MRBAYES: Bayesian inference of phylogenetic trees

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Compositional biases of bacterial genomes and evolutionary implications

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Identification of common molecular subsequences

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Basic local alignment search tool

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Polyester: simulating RNA-seq datasets with differential transcript expression

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Alignment-free sequence comparison (II): theoretical power of comparison statistics

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Markov model plus k-word distributions: a synergy that produces novel statistical measures for sequence comparison

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

A statistical method for alignment-free comparison of regulatory sequences.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

Whole proteome prokaryote phylogeny without sequence alignment: a K-string composition approach.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5120338

On Information and Sufficiency

2 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FSREP37243

Principal component analysis

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FSREP37243

Long-term changes in plankton community structure and productivity in the North Pacific Subtropical Gyre: The domain shift hypothesis

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FSREP37243

21 January 2018

Identifiers

DOI

10.1038/SREP37243

1 reference

20 August 2017

1 reference

20 August 2017

PubMed publication ID

27876823

1 reference