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QCloud specifications

Information


Unique identifier OMICS_32027
Name QCloud
Software type Application/Script, Pipeline/Workflow
Interface Graphical user interface
Restrictions to use None
Input format WIFF,RAW,D
Operating system Windows
Programming languages C#, Java, Visual Basic, Other
Database management system MySQL
License Other
Computer skills Medium
Stability Stable
High performance computing Yes
Registration required Yes
Maintained Yes

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Maintainer


  • person_outline Eduard Sabido

Publication for QCloud

QCloud citations

 (8)
call_split

GC Content of Early Metazoan Genes and Its Impact on Gene Expression Levels in Mammalian Cell Lines

2018
Genome Biol Evol
PMCID: 5952964
PMID: 29608715
DOI: 10.1093/gbe/evy040
call_split See protocol

[…] Capsaspora owczarzaki and Dictyostelium discoideum from http://protists.ensembl.org/info/website/ftp/index.html, last accessed March 15, 2018, and for Amphimedon queenslandica from http://amphimedon.qcloud.qcif.edu.au/downloads.html; last accessed March 15, 2018. Detailed information on these data sets and calculations are provided in , online. To calculate the nucleotide frequency in codon posi […]

library_books

QCloud: A cloud based quality control system for mass spectrometry based proteomics laboratories

2018
PLoS One
PMCID: 5764250
PMID: 29324744
DOI: 10.1371/journal.pone.0189209

[…] quick evaluation of an instrument performance (Instrument QC), and enable instrument comparison within the same laboratory (Intra-laboratory QC), and among laboratories (Community QC).Here we present QCloud, a cloud-based quality control system meant to support proteomics laboratories in longitudinal instrument quality control assessment using a user-friendly interface, easy setup, automated data […]

library_books

Similar Ratios of Introns to Intergenic Sequence across Animal Genomes

2017
Genome Biol Evol
PMCID: 5534336
PMID: 28633296
DOI: 10.1093/gbe/evx103

[…] rzaki () and Salpingoeca rosetta () were downloaded from the Broad Institute.GFF annotations v2.1 () for Amphimedon queenslandica were downloaded from the Amphimedon Genome website (http://amphimedon.qcloud.qcif.edu.au/downloads.html), and v1 annotations () and assemblies were downloaded from Ensembl.For Nematostella vectensis, Nemve1 assembly and annotations () were downloaded from JGI, and the t […]

call_split

Origin and Evolution of the Sponge Aggregation Factor Gene Family

2017
Mol Biol Evol
PMCID: 5400394
PMID: 28104746
DOI: 10.1093/molbev/msx058
call_split See protocol

[…] bsequently with Aqu2.1 gene model predictions (). Aqu2.1 annotations were derived from new transcriptomic data combined with the original genome assembly (; ) and can be accessed at http://amphimedon.qcloud.qcif.edu.au/index.html (last accessed December 16, 2015). […]

library_books

Landscape of histone modifications in a sponge reveals the origin of animal cis regulatory complexity

2017
eLife
PMCID: 5429095
PMID: 28395144
DOI: 10.7554/eLife.22194.055

[…] 018739 (). N. vectensis ChIP-seq data sets can be obtained from NCBI GEO (GSE46488) (). We used the following gene model data sets for all analyses. A. queenslandica: Aqu2.1 models (http://amphimedon.qcloud.qcif.edu.au/) (last accessed February 25, 2017) (), lncRNAs (http://amphimedon.qcloud.qcif.edu.au/lncRNAs/) (last accessed February 25, 2017) (); N. vectensis: NveGenes2.0 models (http://www.cn […]

library_books

Deep developmental transcriptome sequencing uncovers numerous new genes and enhances gene annotation in the sponge Amphimedon queenslandica

2015
BMC Genomics
PMCID: 4432959
PMID: 25975661
DOI: 10.1186/s12864-015-1588-z

[…] d peptide sequences can be downloaded from our website (http://amphimedon.qcloud.qcif.edu.au/downloads.html). The new Aqu2 annotations can be visualized at our local genome browser (http://amphimedon.qcloud.qcif.edu.au/genome_browser.html).CEL-Seq data can be access through the Gene Expression Omnibus (GEO) with GEO Accession GSE54364 []. […]

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QCloud institution(s)
Proteomics Unit, Centre de Regulacio Genòmica (CRG), Barcelona Institute of Science and Technology (BIST), Barcelona, Spain; Universitat Pompeu Fabra (UPF), Barcelona, Spain
QCloud funding source(s)
Supported by grant PT13/0001 of Instituto de Salud Carlos III from the Spanish Government and the Spanish Ministry of Economy and Competitiveness, “Centro de Excelencia Severo Ochoa 2013–2017”, SEV-2012-0208, and “Secretaria d’Universitats i Recerca del Departament d’Economia i Coneixement de la Generalitat de Catalunya” (2014SGR678).

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