RiboStreamR: a web application for quality control, analysis, and visualization of Ribo-seq data. (Q64949544)

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scientific article published on 6 June 2019

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English	RiboStreamR: a web application for quality control, analysis, and visualization of Ribo-seq data.	scientific article published on 6 June 2019

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instance of

scholarly article

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stated in

Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

title

RiboStreamR: a web application for quality control, analysis, and visualization of Ribo-seq data (English)

1 reference

stated in

Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

main subject

web application

1 reference

based on heuristic

inferred from title

author

Anna N. Stepanova

series ordinal

3

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stated in

Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

Jose Alonso

series ordinal

4

1 reference

stated in

Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

Steffen Heber

series ordinal

5

1 reference

stated in

Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

author name string

Patrick Perkins

series ordinal

1

1 reference

stated in

Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

Serina Mazzoni-Putman

series ordinal

2

1 reference

stated in

Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

language of work or name

English

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publication date

6 June 2019

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Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

published in

BMC Genomics

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Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

volume

20

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Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

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30 April 2020

issue

Suppl 5

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Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

page(s)

422

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6551240

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

describes a project that uses

edgeR

object named as

edgeR

1 reference

stated in

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

ggplot2

object named as

ggplot2

1 reference

stated in

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

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Ribosome profiling of mouse embryonic stem cells reveals the complexity and dynamics of mammalian proteomes

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Ribosome profiling shows that miR-430 reduces translation before causing mRNA decay in zebrafish

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Contributions of mRNA abundance, ribosome loading, and post- or peri-translational effects to temporal repression of C. elegans heterochronic miRNA targets

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Ribosome profiling reveals pervasive and regulated stop codon readthrough in Drosophila melanogaster

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https://pubmed.ncbi.nlm.nih.gov/31167636

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Translational dynamics revealed by genome-wide profiling of ribosome footprints in Arabidopsis

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/31167636

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12 December 2020

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RiboTools: a Galaxy toolbox for qualitative ribosome profiling analysis

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/31167636

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12 December 2020

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/31167636

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12 December 2020

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The use of duplex-specific nuclease in ribosome profiling and a user-friendly software package for Ribo-seq data analysis

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/31167636

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12 December 2020

based on heuristic

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RiboGalaxy: A browser based platform for the alignment, analysis and visualization of ribosome profiling data

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/31167636

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12 December 2020

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RiboProfiling: a Bioconductor package for standard Ribo-seq pipeline processing.

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https://pubmed.ncbi.nlm.nih.gov/31167636

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systemPipeR: NGS workflow and report generation environment

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https://pubmed.ncbi.nlm.nih.gov/31167636

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Comparative survey of the relative impact of mRNA features on local ribosome profiling read density.

1 reference

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inferred from PubMed ID database lookup

Super-resolution ribosome profiling reveals unannotated translation events in Arabidopsis.

1 reference

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/31167636

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Plastid: nucleotide-resolution analysis of next-generation sequencing and genomics data

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/31167636

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inferred from PubMed ID database lookup

Computational resources for ribosome profiling: from database to Web server and software

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/31167636

retrieved

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based on heuristic

inferred from PubMed ID database lookup

riboviz: analysis and visualization of ribosome profiling datasets.

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/31167636

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

DOI

10.1186/S12864-019-5700-7

1 reference

stated in

Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

PMC publication ID

6551240

1 reference

stated in

Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

PubMed publication ID

31167636

1 reference

stated in

Europe PubMed Central

PMC publication ID

6551240

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:31167636%20AND%20SRC:MED&resulttype=core&format=json

retrieved

30 April 2020

 

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