Full-length transcriptome assembly from RNA-Seq data without a reference genome (Q24620766)

21

0 references

Chad Nusbaum

18

0 references

Andreas Gnirke

14

0 references

Evan Mauceli

12

0 references

Nir Friedman

20

0 references

Nicholas Rhind

15

0 references

Nir Hacohen

13

Nir Hacohen

0 references

Raktima Raychowdhury

9

Raktima Raychowdhury

0 references

Amir Giladi

6

Ido Amit

0 references

Joshua Levin

4

Joshua Z Levin

0 references

Xian Adiconis

7

Xian Adiconis

0 references

Bruce Birren

17

Bruce W Birren

0 references

Qiandong Zeng

10

Qiandong Zeng

0 references

Brian J Haas

2

Brian J Haas

0 references

author name string

Manfred G Grabherr

1

0 references

Moran Yassour

3

0 references

Dawn A Thompson

5

0 references

Lin Fan

8

0 references

Zehua Chen

3

11

0 references

Federica di Palma

Comparative functional genomics of the fission yeasts

16

0 references

language of work or name

English

0 references

publication date

July 2011

0 references

published in

Nature Biotechnology

0 references

volume

29

0 references

issue

7

0 references

page(s)

644-52

0 references

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

TopHat: discovering splice junctions with RNA-Seq

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

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

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

The Universal Protein Resource (UniProt): an expanding universe of protein information

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

BLAT—The BLAST-Like Alignment Tool

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

An Eulerian path approach to DNA fragment assembly

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Alternative isoform regulation in human tissue transcriptomes

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

SOAP2: an improved ultrafast tool for short read alignment

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Bidirectional promoters generate pervasive transcription in yeast

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

De novo identification of repeat families in large genomes

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Understanding alternative splicing: towards a cellular code

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

GMAP: a genomic mapping and alignment program for mRNA and EST sequences

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Alternative splicing: increasing diversity in the proteomic world

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

De novo assembly and analysis of RNA-seq data.

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Strand-specific RNA sequencing reveals extensive regulated long antisense transcripts that are conserved across yeast species

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Comprehensive comparative analysis of strand-specific RNA sequencing methods

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

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

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Genome-wide synteny through highly sensitive sequence alignment: Satsuma

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Transcriptome analysis by strand-specific sequencing of complementary DNA.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

De novo transcriptome assembly with ABySS.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

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

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

ALLPATHS: de novo assembly of whole-genome shotgun microreads

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

GeneDB: a resource for prokaryotic and eukaryotic organisms

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Comprehensive isolation of meiosis-specific genes identifies novel proteins and unusual non-coding transcripts in Schizosaccharomyces pombe

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Characterization of rec7, an early meiotic recombination gene in Schizosaccharomyces pombe.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Natural history and evolutionary principles of gene duplication in fungi

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Beware of mis-assembled genomes

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

The Schizosaccharomyces pombe spo6+ gene encoding a nuclear protein with sequence similarity to budding yeast Dbf4 is required for meiotic second division and sporulation.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3571712

Advancing RNA-Seq analysis

28 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21572440

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Prediction and Entropy of Printed English

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNBT.1883

inferred from DOI database lookup

7 January 2021

based on heuristic

Identifiers

DOI

10.1038/NBT.1883

1 reference

Dimensions Publication ID

1015803168

0 references

1 reference

1 reference

PubMed publication ID

21572440

1 reference