SPANDx: a genomics pipeline for comparative analysis of large haploid whole genome re-sequencing datasets (Q28655611)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25201145%20AND%20SRC:MED&resulttype=core&format=json

16 February 2020

title

SPANDx: a genomics pipeline for comparative analysis of large haploid whole genome re-sequencing datasets (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25201145%20AND%20SRC:MED&resulttype=core&format=json

16 February 2020

main subject

genomics

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whole genome sequencing

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1

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25201145%20AND%20SRC:MED&resulttype=core&format=json

16 February 2020

Erin P. Price

series ordinal

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25201145%20AND%20SRC:MED&resulttype=core&format=json

16 February 2020

author name string

Derek S Sarovich

series ordinal

1

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Erin P Price

series ordinal

2

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language of work or name

English

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publication date

8 September 2014

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25201145%20AND%20SRC:MED&resulttype=core&format=json

16 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25201145%20AND%20SRC:MED&resulttype=core&format=json

16 February 2020

volume

7

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16 February 2020

issue

1

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page(s)

618

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Burkholderia pseudomallei isolates from Sarawak, Malaysian Borneo, are predominantly susceptible to aminoglycosides and macrolides

16 February 2020

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Parallel evolutionary dynamics of adaptive diversification in Escherichia coli

17 March 2017

1 reference

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Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Using Tablet for visual exploration of second-generation sequencing data

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Genome evolution and adaptation in a long-term experiment with Escherichia coli

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

The Sequence Alignment/Map format and SAMtools

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Fast and accurate short read alignment with Burrows-Wheeler transform

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

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

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Genome sequencing in microfabricated high-density picolitre reactors

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Genomic Sequence of an Otitis Media Isolate of Nontypeable Haemophilus influenzae: Comparative Study with H. influenzae Serotype d, Strain KW20

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

A framework for variation discovery and genotyping using next-generation DNA sequencing data

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

BEDTools: a flexible suite of utilities for comparing genomic features

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Fast and accurate long-read alignment with Burrows-Wheeler transform

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Galaxy: a platform for interactive large-scale genome analysis

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

The variant call format and VCFtools

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Stormbow: A Cloud-Based Tool for Reads Mapping and Expression Quantification in Large-Scale RNA-Seq Studies

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Absence of an important vaccine and diagnostic target in carriage- and disease-related nontypeable Haemophilus influenzae.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Accurate and rapid identification of the Burkholderia pseudomallei near-neighbour, Burkholderia ubonensis, using real-time PCR

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Within-host evolution of Burkholderia pseudomallei over a twelve-year chronic carriage infection

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

Long-term experimental evolution in Escherichia coli. IX. Characterization of insertion sequence-mediated mutations and rearrangements

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4169827

20 June 2018

Identifiers

DOI

10.1186/1756-0500-7-618

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25201145%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

16 February 2020

1 reference

9 September 2019

https://scigraph.springernature.com/pub.10.1186/1756-0500-7-618

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25201145%20AND%20SRC:MED&resulttype=core&format=json

16 February 2020

PubMed publication ID

25201145

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25201145%20AND%20SRC:MED&resulttype=core&format=json