SPOCS protocols

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SPOCS specifications

Information


Unique identifier OMICS_05366
Name SPOCS
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Unique identifier OMICS_05366
Name SPOCS
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for SPOCS

SPOCS in pipeline

2015
PMCID: 4417680
PMID: 25833385
DOI: 10.1007/s13238-015-0147-3

[…] ≤ 1.0 × 10−20. predicted proteins were matched to hmm models (pfam-a, superfamily and tigrfams) using hmmer3 (eddy, ), and were restricted to e-value ≤ 1.0 × 10−5 with the top five hits reported., spocs (curtis et al., ) (-h -m 2) was employed to identify shared orthologs among s. sulcatum and genome peptide data of the other four ciliates. transcriptome peptide data of 13 ciliates […]


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SPOCS in publications

 (11)
PMCID: 5784597
PMID: 29368656
DOI: 10.1186/s13012-017-0708-3

[…] training, medical leave, other [write-in option]). this survey provided an indication for how many recordings we should expect to receive., the supervision process observational coding system (spocs) is an adaptation of the therapeutic process observational coding system for child psychotherapy—strategies scale (tpocs-s) [, ]. the tpocs-s is a coding measure for characterizing […]

PMCID: 5627583
PMID: 29043062
DOI: 10.5256/f1000research.13363.r25758

[…] type of course provided is key and recent examples of online courses have demonstrated their power in delivering massive open online courses (moocs) or more specialised small private online courses (spocs). at bmtc, the introductory course on metabolomics mooc has been used by greater than 3000 active learners and the first spoc focussed on data processing and analysis in metabolomics […]

PMCID: 5037341
PMID: 27670899
DOI: 10.1085/jgp.201611604

[…] play a role in arrhythmogenesis () and warrant future investigations in vivo (as in )., we previously demonstrated that the amplitude of actomyosin-based, sarcomeric auto-oscillations (i.e., cell-spocs that occur under steady intermediate activation conditions at pca ∼6.0; see ; ; and references therein) was increased upon application of the actomyosin activator om (0.6 µm). in the present […]

PMCID: 5060095
PMID: 27924277
DOI: 10.2142/biophysico.13.0_217

[…] in the state diagram is sandwiched in between contraction and relaxation regions. the ca-spoc and adp-spoc regions are located at opposite ends of the spoc region, implying that the ca- and adp-spocs occur at extreme conditions within the intermediate activation conditions. in the spoc state, each sarcomere length (sl) changes with a saw tooth waveform, composed of a slow shortening phase […]

PMCID: 4771724
PMID: 26973612
DOI: 10.3389/fmicb.2016.00233

[…] their proteomes were retrieved either from jgi genome portal (), broad institute of harvard and mit or from the sgd. the 118 orthologous gene groups used for the phylogomics were retrieved using the spocs pipeline with default settings (). multiple sequence alignments were built for each gene using the mafft algorithm () and then concatenated into a super matrix of 94153 sites in mega6 (). […]


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SPOCS institution(s)
Computational and Statistical Analytics Division, Pacific Northwest National Laboratory, Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, USA; Genetics and Molecular Biology Branch, National Human Genome Research Institute, NIH, Bethesda, MD, USA; Computational Sciences & Mathematics Division, Pacific Northwest National Laboratory, Richland, WA, USA

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