(Q34195296)

31 July 2017

Cutoffs and k-mers: implications from a transcriptome study in allopolyploid plants (English)

1 reference

31 July 2017

0 references

6

Peter Lockhart

1 reference

31 July 2017

1

Nicole Gruenheit

1 reference

31 July 2017

5

Claudia Voelckel

1 reference

31 July 2017

Oliver Deusch

2

1 reference

31 July 2017

Christian Esser

series ordinal

3

1 reference

31 July 2017

Matthias Becker

series ordinal

4

1 reference

31 July 2017

language of work or name

English

0 references

publication date

14 March 2012

1 reference

31 July 2017

1 reference

31 July 2017

13

1 reference

31 July 2017

92

1 reference

https://scigraph.springernature.com/pub.10.1186/1471-2164-13-92

31 July 2017

0 references

cites work

How to apply de Bruijn graphs to genome assembly

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Expression profiling without genome sequence information in a non-model species, Pandalid shrimp (Pandalus latirostris), by next-generation sequencing

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Next-generation transcriptome assembly

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

RNA-Seq analysis and de novo transcriptome assembly of Hevea brasiliensis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

De novo assembly and characterization of the carrot transcriptome reveals novel genes, new markers, and genetic diversity

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Short read Illumina data for the de novo assembly of a non-model snail species transcriptome (Radix balthica, Basommatophora, Pulmonata), and a comparison of assembler performance

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

De novo sequence assembly and characterization of the floral transcriptome in cross- and self-fertilizing plants

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

The Arabidopsis lyrata genome sequence and the basis of rapid genome size change

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Ancestral polyploidy in seed plants and angiosperms

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

A gene duplication/loss event in the ribulose-1,5-bisphosphate-carboxylase/oxygenase (rubisco) small subunit gene family among accessions of Arabidopsis thaliana

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

De novo assembly of chickpea transcriptome using short reads for gene discovery and marker identification

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

De novo assembly and characterization of root transcriptome using Illumina paired-end sequencing and development of cSSR markers in sweet potato (Ipomoea batatas)

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

De novo transcriptome sequencing in Anopheles funestus using Illumina RNA-seq technology

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Applications of next generation sequencing in molecular ecology of non-model organisms

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

De novo assembly and analysis of RNA-seq data.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Optimization of de novo transcriptome assembly from next-generation sequencing data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

A multifaceted study of stigma/style cysteine-rich adhesin (SCA)-like Arabidopsis lipid transfer proteins (LTPs) suggests diversified roles for these LTPs in plant growth and reproduction

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Uncovering the complexity of transcriptomes with RNA-Seq.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Speciation genetics: current status and evolving approaches.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

The flowering world: a tale of duplications

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Benchmarking next-generation transcriptome sequencing for functional and evolutionary genomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

De novo transcriptome assembly with ABySS.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Transcript length bias in RNA-seq data confounds systems biology

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

ABySS: a parallel assembler for short read sequence data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Annotating genomes with massive-scale RNA sequencing

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Mapping and quantifying mammalian transcriptomes by RNA-Seq

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

High-throughput functional annotation and data mining with the Blast2GO suite

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

A spatial dissection of the Arabidopsis floral transcriptome by MPSS.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Velvet: algorithms for de novo short read assembly using de Bruijn graphs

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

The Arabidopsis Information Resource (TAIR): gene structure and function annotation.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Identification of non-specific lipid transfer protein-1 as a calmodulin-binding protein in Arabidopsis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

CAP3: A DNA sequence assembly program

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

Widespread genome duplications throughout the history of flowering plants

28 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-92

Assembly algorithms for next-generation sequencing data

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-92

De novo characterization of a whitefly transcriptome and analysis of its gene expression during development.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-92

De novo assembled expressed gene catalog of a fast-growing Eucalyptus tree produced by Illumina mRNA-Seq.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-92

A Pleistocene inter-tribal allopolyploidization event precedes the species radiation of Pachycladon (Brassicaceae) in New Zealand.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-92

Full-length transcriptome assembly from RNA-Seq data without a reference genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-92

Adaptation of Hansenula polymorpha to methanol: a transcriptome analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-92

MODIFIED VACUOLE PHENOTYPE1 is an Arabidopsis myrosinase-associated protein involved in endomembrane protein trafficking

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-92

Structural organization and a standardized nomenclature for plant endo-1,4-beta-glucanases (cellulases) of glycosyl hydrolase family 9.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-92

The gene controlling the quantitative trait locus EPITHIOSPECIFIER MODIFIER1 alters glucosinolate hydrolysis and insect resistance in Arabidopsis

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-92

Stability of AtVSP in the insect digestive canal determines its defensive capability.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-92

Probing the structure of Lhca3 by mutation analysis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-92

Transcriptional profiling of an Fd-GOGAT1/GLU1 mutant in Arabidopsis thaliana reveals a multiple stress response and extensive reprogramming of the transcriptome

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

BLAT—The BLAST-Like Alignment Tool

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378427

28 October 2018

Identifiers

DOI

10.1186/1471-2164-13-92

1 reference

Dimensions Publication ID

31 July 2017

0 references

1 reference

31 July 2017

1 reference