Ontology type: schema:Chapter
2019-04-04
AUTHORSArun S. Konagurthu , Ramanan Subramanian , Lloyd Allison , David Abramson , Maria Garcia de la Banda , Peter J. Stuckey , Arthur M. Lesk
ABSTRACTWe recently developed an unsupervised Bayesian inference methodology to automatically infer a dictionary of protein supersecondary structures (Subramanian et al., IEEE data compression conference proceedings (DCC), 340–349, 2017). Specifically, this methodology uses the information-theoretic framework of minimum message length (MML) criterion for hypothesis selection (Wallace, Statistical and inductive inference by minimum message length, Springer Science & Business Media, New York, 2005). The best dictionary of supersecondary structures is the one that yields the most (lossless) compression on the source collection of folding patterns represented as tableaux (matrix representations that capture the essence of protein folding patterns (Lesk, J Mol Graph. 13:159–164, 1995). This book chapter outlines our MML methodology for inferring the supersecondary structure dictionary. The inferred dictionary is available at http://lcb.infotech.monash.edu.au/proteinConcepts/scop100/dictionary.html. More... »
PAGES123-131
Protein Supersecondary Structures
ISBN
978-1-4939-9160-0
978-1-4939-9161-7
http://scigraph.springernature.com/pub.10.1007/978-1-4939-9161-7_6
DOIhttp://dx.doi.org/10.1007/978-1-4939-9161-7_6
DIMENSIONShttps://app.dimensions.ai/details/publication/pub.1113182586
PUBMEDhttps://www.ncbi.nlm.nih.gov/pubmed/30945216
JSON-LD is the canonical representation for SciGraph data.
TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT
[
{
"@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json",
"about": [
{
"id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/03",
"inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/",
"name": "Chemical Sciences",
"type": "DefinedTerm"
},
{
"id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06",
"inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/",
"name": "Biological Sciences",
"type": "DefinedTerm"
},
{
"id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0399",
"inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/",
"name": "Other Chemical Sciences",
"type": "DefinedTerm"
},
{
"id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0601",
"inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/",
"name": "Biochemistry and Cell Biology",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Algorithms",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Amino Acid Motifs",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Bayes Theorem",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Computational Biology",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Data Compression",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Humans",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Models, Molecular",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Protein Folding",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Proteins",
"type": "DefinedTerm"
}
],
"author": [
{
"affiliation": {
"alternateName": "Faculty of Information Technology, Monash University, Clayton, VIC, Australia",
"id": "http://www.grid.ac/institutes/grid.1002.3",
"name": [
"Faculty of Information Technology, Monash University, Clayton, VIC, Australia"
],
"type": "Organization"
},
"familyName": "Konagurthu",
"givenName": "Arun S.",
"id": "sg:person.01301675103.24",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01301675103.24"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Faculty of Information Technology, Monash University, Clayton, VIC, Australia",
"id": "http://www.grid.ac/institutes/grid.1002.3",
"name": [
"Faculty of Information Technology, Monash University, Clayton, VIC, Australia"
],
"type": "Organization"
},
"familyName": "Subramanian",
"givenName": "Ramanan",
"id": "sg:person.012347343446.37",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012347343446.37"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Faculty of Information Technology, Monash University, Clayton, VIC, Australia",
"id": "http://www.grid.ac/institutes/grid.1002.3",
"name": [
"Faculty of Information Technology, Monash University, Clayton, VIC, Australia"
],
"type": "Organization"
},
"familyName": "Allison",
"givenName": "Lloyd",
"id": "sg:person.01354357354.61",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01354357354.61"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Research Computing Centre, University of Queensland, St Lucia, QLD, Australia",
"id": "http://www.grid.ac/institutes/grid.1003.2",
"name": [
"Research Computing Centre, University of Queensland, St Lucia, QLD, Australia"
],
"type": "Organization"
},
"familyName": "Abramson",
"givenName": "David",
"id": "sg:person.01164326712.02",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01164326712.02"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Faculty of Information Technology, Monash University, Clayton, VIC, Australia",
"id": "http://www.grid.ac/institutes/grid.1002.3",
"name": [
"Faculty of Information Technology, Monash University, Clayton, VIC, Australia"
],
"type": "Organization"
},
"familyName": "de la Banda",
"givenName": "Maria Garcia",
"id": "sg:person.016350443307.93",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.016350443307.93"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Department of Computing and Information Systems, University of Melbourne, Parkville, VIC, Australia",
"id": "http://www.grid.ac/institutes/grid.1008.9",
"name": [
"Faculty of Information Technology, Monash University, Clayton, VIC, Australia",
"Department of Computing and Information Systems, University of Melbourne, Parkville, VIC, Australia"
],
"type": "Organization"
},
"familyName": "Stuckey",
"givenName": "Peter J.",
"id": "sg:person.012243374043.93",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012243374043.93"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA, USA",
"id": "http://www.grid.ac/institutes/grid.29857.31",
"name": [
"Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA, USA"
],
"type": "Organization"
},
"familyName": "Lesk",
"givenName": "Arthur M.",
"id": "sg:person.01322403151.24",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01322403151.24"
],
"type": "Person"
}
],
"datePublished": "2019-04-04",
"datePublishedReg": "2019-04-04",
"description": "We recently developed an unsupervised Bayesian inference methodology to automatically infer a dictionary of protein supersecondary structures (Subramanian et al., IEEE data compression conference proceedings (DCC), 340\u2013349, 2017). Specifically, this methodology uses the information-theoretic framework of minimum message length (MML) criterion for hypothesis selection (Wallace, Statistical and inductive inference by minimum message length, Springer Science & Business Media, New York, 2005). The best dictionary of supersecondary structures is the one that yields the most (lossless) compression on the source collection of folding patterns represented as tableaux (matrix representations that capture the essence of protein folding patterns (Lesk, J Mol Graph. 13:159\u2013164, 1995). This book chapter outlines our MML methodology for inferring the supersecondary structure dictionary. The inferred dictionary is available at http://lcb.infotech.monash.edu.au/proteinConcepts/scop100/dictionary.html.",
"editor": [
{
"familyName": "Kister",
"givenName": "Alexander E.",
"type": "Person"
}
],
"genre": "chapter",
"id": "sg:pub.10.1007/978-1-4939-9161-7_6",
"inLanguage": "en",
"isAccessibleForFree": false,
"isPartOf": {
"isbn": [
"978-1-4939-9160-0",
"978-1-4939-9161-7"
],
"name": "Protein Supersecondary Structures",
"type": "Book"
},
"keywords": [
"minimum message length criterion",
"information-theoretic framework",
"hypothesis selection",
"good dictionary",
"source collection",
"inference methodology",
"length criterion",
"dictionary",
"most compression",
"Bayesian inference methodology",
"protein supersecondary structures",
"methodology",
"framework",
"collection",
"compression",
"tableaux",
"selection",
"supersecondary structure",
"one",
"structure",
"criteria",
"patterns"
],
"name": "Information-Theoretic Inference of an Optimal Dictionary of Protein Supersecondary Structures",
"pagination": "123-131",
"productId": [
{
"name": "dimensions_id",
"type": "PropertyValue",
"value": [
"pub.1113182586"
]
},
{
"name": "doi",
"type": "PropertyValue",
"value": [
"10.1007/978-1-4939-9161-7_6"
]
},
{
"name": "pubmed_id",
"type": "PropertyValue",
"value": [
"30945216"
]
}
],
"publisher": {
"name": "Springer Nature",
"type": "Organisation"
},
"sameAs": [
"https://doi.org/10.1007/978-1-4939-9161-7_6",
"https://app.dimensions.ai/details/publication/pub.1113182586"
],
"sdDataset": "chapters",
"sdDatePublished": "2022-05-20T07:47",
"sdLicense": "https://scigraph.springernature.com/explorer/license/",
"sdPublisher": {
"name": "Springer Nature - SN SciGraph project",
"type": "Organization"
},
"sdSource": "s3://com-springernature-scigraph/baseset/20220519/entities/gbq_results/chapter/chapter_4.jsonl",
"type": "Chapter",
"url": "https://doi.org/10.1007/978-1-4939-9161-7_6"
}
]Download the RDF metadata as: json-ld nt turtle xml License info
JSON-LD is a popular format for linked data which is fully compatible with JSON.
curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1007/978-1-4939-9161-7_6'
N-Triples is a line-based linked data format ideal for batch operations.
curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1007/978-1-4939-9161-7_6'
Turtle is a human-readable linked data format.
curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1007/978-1-4939-9161-7_6'
RDF/XML is a standard XML format for linked data.
curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1007/978-1-4939-9161-7_6'
This table displays all metadata directly associated to this object as RDF triples.
182 TRIPLES
23 PREDICATES
59 URIs
50 LITERALS
17 BLANK NODES