Jupyter and Galaxy: Easing entry barriers into complex data analyses for biomedical researchers. (Q36380048)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

title

Jupyter and Galaxy: Easing entry barriers into complex data analyses for biomedical researchers (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

main subject

Project Jupyter

0 references

Jupyter notebook file

1 reference

9

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Anton Nekrutenko

10

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Helena Rasche

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

John Chilton

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Björn A Grüning

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

Boris Rebolledo Jaramillo

21 March 2020

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

8

Rolf Backofen

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

7

Nate Coraor

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

4

Carl Eberhard

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

author name string

Torsten Houwaart

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

publication date

25 May 2017

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

PLOS Computational Biology

21 March 2020

published in

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

volume

13

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

issue

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

page(s)

e1005425

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

Creative Commons Attribution 4.0 International

21 March 2020

copyright license

start time

25 May 2017

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

describes a project that uses

RStudio

1 reference

18 June 2022

https://europepmc.org/article/PMC/5444614

based on heuristic

inferred from PubMed Central ID database lookup

DESeq2

object named as

DESeq2

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

cites work

How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

Integrative genomic analysis by interoperation of bioinformatics tools in GenomeSpace

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

HISAT: a fast spliced aligner with low memory requirements

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

Maternal age effect and severe germ-line bottleneck in the inheritance of human mitochondrial DNA.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

HTSeq--a Python framework to work with high-throughput sequencing data

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

Dissemination of scientific software with Galaxy ToolShed

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

BioBlend: automating pipeline analyses within Galaxy and CloudMan

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

The iPlant Collaborative: Cyberinfrastructure for Plant Biology

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

Mobyle: a new full web bioinformatics framework

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

A reduction of mitochondrial DNA molecules during embryogenesis explains the rapid segregation of genotypes

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5444614

The NumPy Array: A Structure for Efficient Numerical Computation

30 September 2017

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1005425

Matplotlib: A 2D Graphics Environment

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1005425

IPython: A System for Interactive Scientific Computing

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1005425

10.1371/JOURNAL.PCBI.1005425

21 January 2018

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

journals/ploscb/GruningRREHCCBT17

21 March 2020

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28542180%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

PubMed publication ID

28542180

1 reference