(Q40306687)

http://europepmc.org/abstract/PMC/5909822

16 June 2018

title

Single-molecule sequencing and chromatin conformation capture enable de novo reference assembly of the domestic goat genome (English)

1 reference

http://europepmc.org/abstract/PMC/5909822

16 June 2018

author

Sergey Koren

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

John Schwartz

20

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Derek M Bickhart

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Joyce Lee

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Heather J Huson

12

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Alessandra Crisà

18

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

Federico Abel Ponce de León

14 June 2020

19

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

John A Hammond

21

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Steven G Schroeder

23

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Maitreya Dunham

25

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Adam Phillippy

28

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

26

Jay Shendure

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

2

Benjamin D Rosen

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

17

Jiajie Sun

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

27

Tad S Sonstegard

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

29

Curtis P Van Tassell

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

15

Jana L Hutchison

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Geoffrey C Waldbieser

22

object named as

Geoffrey C Waldbieser

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

5

Alex R Hastie

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

author name string

Brian L Sayre

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Saki Chan

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Ernest T Lam

8

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Ivan Liachko

9

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Shawn T Sullivan

10

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Joshua N Burton

11

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

John C Nystrom

13

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Christy M Kelley

14

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Yang Zhou

16

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

George E Liu

24

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Timothy P L Smith

30

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

language of work or name

English

0 references

publication date

6 March 2017

1 reference

http://europepmc.org/abstract/PMC/5909822

16 June 2018

published in

Nature Genetics

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

volume

49

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

issue

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

page(s)

643-650

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

Creative Commons Attribution 4.0 International

14 June 2020

copyright license

start time

6 March 2017

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

exact match

https://scigraph.springernature.com/pub.10.1038/ng.3802

0 references

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17 June 2018

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17 June 2018

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17 June 2018

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17 June 2018

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17 June 2018

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Assembly and diploid architecture of an individual human genome via single-molecule technologies

17 June 2018

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17 June 2018

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17 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

17 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Comparative genomic data of the Avian Phylogenomics Project

17 June 2018

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17 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Definition of the cattle killer cell Ig-like receptor gene family: comparison with aurochs and human counterparts

17 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Illumina TruSeq synthetic long-reads empower de novo assembly and resolve complex, highly-repetitive transposable elements

17 June 2018

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LUMPY: a probabilistic framework for structural variant discovery.

17 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

SSPACE-LongRead: scaffolding bacterial draft genomes using long read sequence information

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Species-level deconvolution of metagenome assemblies with Hi-C-based contact probability maps

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Analysis of 41 plant genomes supports a wave of successful genome duplications in association with the Cretaceous-Paleogene boundary

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Trimmomatic: a flexible trimmer for Illumina sequence data

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Kraken: ultrafast metagenomic sequence classification using exact alignments

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Design and characterization of a 52K SNP chip for goats

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

High-throughput genome scaffolding from in vivo DNA interaction frequency

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Chromosome-scale scaffolding of de novo genome assemblies based on chromatin interactions

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Whole-genome haplotype reconstruction using proximity-ligation and shotgun sequencing

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Reducing assembly complexity of microbial genomes with single-molecule sequencing

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Comprehensive genotyping of the USA national maize inbred seed bank.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Characterizing and measuring bias in sequence data

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data

17 June 2018

1 reference

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TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Rapid genome mapping in nanochannel arrays for highly complete and accurate de novo sequence assembly of the complex Aegilops tauschii genome

17 June 2018

1 reference

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Comparative analysis of tandem repeats from hundreds of species reveals unique insights into centromere evolution

17 June 2018

1 reference

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Reevaluating assembly evaluations with feature response curves: GAGE and assemblathons

17 June 2018

1 reference

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Mind the gap: upgrading genomes with Pacific Biosciences RS long-read sequencing technology

17 June 2018

1 reference

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Hybrid error correction and de novo assembly of single-molecule sequencing reads

17 June 2018

1 reference

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Copy-number variation: the balance between gene dosage and expression in Drosophila melanogaster.

17 June 2018

1 reference

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Rapid whole genome optical mapping of Plasmodium falciparum

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

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

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

The sheep genome reference sequence: a work in progress

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Assembly of large genomes using second-generation sequencing

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

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

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Multiple paternal origins of domestic cattle revealed by Y-specific interspersed multilocus microsatellites

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

BEDTools: a flexible suite of utilities for comparing genomic features

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Comprehensive mapping of long-range interactions reveals folding principles of the human genome

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

The Sequence Alignment/Map format and SAMtools

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Fast and accurate short read alignment with Burrows-Wheeler transform

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

A whole-genome assembly of the domestic cow, Bos taurus

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Development and characterization of a high density SNP genotyping assay for cattle

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

The genome sequence of taurine cattle: a window to ruminant biology and evolution

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Detecting heterozygosity in shotgun genome assemblies: Lessons from obligately outcrossing nematodes

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Real-time DNA sequencing from single polymerase molecules

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

The goat domestication process inferred from large-scale mitochondrial DNA analysis of wild and domestic individuals

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Scaffolding and validation of bacterial genome assemblies using optical restriction maps

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Genome assembly forensics: finding the elusive mis-assembly

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Finishing the euchromatic sequence of the human genome

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Versatile and open software for comparing large genomes

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Hierarchical scaffolding with Bambus

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Capturing chromosome conformation

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Initial sequencing and analysis of the human genome

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

A whole-genome assembly of Drosophila

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Base-calling of automated sequencer traces using phred. II. Error probabilities

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Ordered restriction maps of Saccharomyces cerevisiae chromosomes constructed by optical mapping

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Whole-genome random sequencing and assembly of Haemophilus influenzae Rd

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Fine-scale chromatin interaction maps reveal the cis-regulatory landscape of human lincRNA genes.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Sequencing and automated whole-genome optical mapping of the genome of a domestic goat (Capra hircus).

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5909822

Chromosomal evolution in bovids: a comparison of cattle, sheep and goat G- and R-banded chromosomes and cytogenetic divergences among cattle, goat and river buffalo sex chromosomes

20 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNG.3802

inferred from DOI database lookup

7 January 2021

based on heuristic

Q-band karyotype of the goat (Capra hircus) and the relation between goat and bovine Q-bands

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNG.3802

inferred from DOI database lookup

7 January 2021

based on heuristic

A fast and symmetric DUST implementation to mask low-complexity DNA sequences

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNG.3802

inferred from DOI database lookup

7 January 2021

based on heuristic

Identifiers

DOI

10.1038/NG.3802

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

14 June 2020

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28263316%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

PubMed publication ID

28263316

1 reference