Bioinformatics Data Access Service in the ProGenGrid System View Full Text


Ontology type: schema:Chapter     


Chapter Info

DATE

2004

AUTHORS

Giovanni Aloisio , Massimo Cafaro , Sandro Fiore , Maria Mirto

ABSTRACT

Current bioinformatics workflows require the collection of results coming from different tools on several Web sites. High-throughput services integrated through Web Services allow researchers to access a virtual organization by providing large computational and storage resources. There are considerable costs associated with running a high-throughput application including hardware, storage, maintenance, and bandwidth. Moreover, often such tools use biological data banks heterogeneous in the format and semantic, so the task of enabling their composition and cooperation is even more difficult. Researchers are now taking advantage of economies of scale by building large shared systems for bioinformatics processing. Integrating Computational Grids and Web Services technologies can be a key solution to simplify interaction between bioinformatics tools and biological databases. This paper presents a data access service for retrieving and transferring input data coming from heterogeneous data banks to high throughput applications, wrapped as Web Services. More... »

PAGES

211-221

References to SciGraph publications

Book

TITLE

On the Move to Meaningful Internet Systems 2004: OTM 2004 Workshops

ISBN

978-3-540-23664-1
978-3-540-30470-8

Author Affiliations

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/978-3-540-30470-8_38

DOI

http://dx.doi.org/10.1007/978-3-540-30470-8_38

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1035768775


Indexing Status Check whether this publication has been indexed by Scopus and Web Of Science using the SN Indexing Status Tool
Incoming Citations Browse incoming citations for this publication using opencitations.net

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/2008/0806", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Information Systems", 
        "type": "DefinedTerm"
      }, 
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/08", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Information and Computing Sciences", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "University of Salento", 
          "id": "https://www.grid.ac/institutes/grid.9906.6", 
          "name": [
            "Center for Advanced Computational Technologies/ISUFI, Dept. of Innovation Engineering, University of Lecce, via per Monteroni, 73100, Lecce, Italy", 
            "SPACI Consortium"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Aloisio", 
        "givenName": "Giovanni", 
        "id": "sg:person.010013573543.47", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010013573543.47"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Salento", 
          "id": "https://www.grid.ac/institutes/grid.9906.6", 
          "name": [
            "Center for Advanced Computational Technologies/ISUFI, Dept. of Innovation Engineering, University of Lecce, via per Monteroni, 73100, Lecce, Italy", 
            "SPACI Consortium"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Cafaro", 
        "givenName": "Massimo", 
        "id": "sg:person.014532601703.25", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014532601703.25"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Salento", 
          "id": "https://www.grid.ac/institutes/grid.9906.6", 
          "name": [
            "Center for Advanced Computational Technologies/ISUFI, Dept. of Innovation Engineering, University of Lecce, via per Monteroni, 73100, Lecce, Italy", 
            "SPACI Consortium"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Fiore", 
        "givenName": "Sandro", 
        "id": "sg:person.012124422153.81", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012124422153.81"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "University of Salento", 
          "id": "https://www.grid.ac/institutes/grid.9906.6", 
          "name": [
            "Center for Advanced Computational Technologies/ISUFI, Dept. of Innovation Engineering, University of Lecce, via per Monteroni, 73100, Lecce, Italy", 
            "SPACI Consortium"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Mirto", 
        "givenName": "Maria", 
        "id": "sg:person.013367070743.12", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.013367070743.12"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "https://doi.org/10.1016/s0968-0004(00)89080-5", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1000822935"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/bioinformatics/btg250", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1007388001"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1002/0470867167.ch8", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1008073199"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0022-2836(05)80360-2", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1013618994"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/nar/gkg548", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1021369502"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/nar/gkg095", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1027045924"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/978-3-540-45209-6_62", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1028939566", 
          "https://doi.org/10.1007/978-3-540-45209-6_62"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/978-3-540-45209-6_62", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1028939566", 
          "https://doi.org/10.1007/978-3-540-45209-6_62"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0168-9525(00)02024-2", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1035021159"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/nar/28.1.235", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1035055456"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/1-4020-3432-6_1", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1045860333", 
          "https://doi.org/10.1007/1-4020-3432-6_1"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/1-4020-3432-6_1", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1045860333", 
          "https://doi.org/10.1007/1-4020-3432-6_1"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1177/109434209701100205", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1063977753"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1177/109434209701100205", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1063977753"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1145/581360.581362", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1094834301"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2004", 
    "datePublishedReg": "2004-01-01", 
    "description": "Current bioinformatics workflows require the collection of results coming from different tools on several Web sites. High-throughput services integrated through Web Services allow researchers to access a virtual organization by providing large computational and storage resources. There are considerable costs associated with running a high-throughput application including hardware, storage, maintenance, and bandwidth. Moreover, often such tools use biological data banks heterogeneous in the format and semantic, so the task of enabling their composition and cooperation is even more difficult. Researchers are now taking advantage of economies of scale by building large shared systems for bioinformatics processing. Integrating Computational Grids and Web Services technologies can be a key solution to simplify interaction between bioinformatics tools and biological databases. This paper presents a data access service for retrieving and transferring input data coming from heterogeneous data banks to high throughput applications, wrapped as Web Services.", 
    "editor": [
      {
        "familyName": "Meersman", 
        "givenName": "Robert", 
        "type": "Person"
      }, 
      {
        "familyName": "Tari", 
        "givenName": "Zahir", 
        "type": "Person"
      }, 
      {
        "familyName": "Corsaro", 
        "givenName": "Angelo", 
        "type": "Person"
      }
    ], 
    "genre": "chapter", 
    "id": "sg:pub.10.1007/978-3-540-30470-8_38", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": false, 
    "isPartOf": {
      "isbn": [
        "978-3-540-23664-1", 
        "978-3-540-30470-8"
      ], 
      "name": "On the Move to Meaningful Internet Systems 2004: OTM 2004 Workshops", 
      "type": "Book"
    }, 
    "name": "Bioinformatics Data Access Service in the ProGenGrid System", 
    "pagination": "211-221", 
    "productId": [
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1035768775"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1007/978-3-540-30470-8_38"
        ]
      }, 
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "aa63ceb93bb64870cd8a4ab1c1cad2069a4bb5471beccb1fa33a9c51069a72d3"
        ]
      }
    ], 
    "publisher": {
      "location": "Berlin, Heidelberg", 
      "name": "Springer Berlin Heidelberg", 
      "type": "Organisation"
    }, 
    "sameAs": [
      "https://doi.org/10.1007/978-3-540-30470-8_38", 
      "https://app.dimensions.ai/details/publication/pub.1035768775"
    ], 
    "sdDataset": "chapters", 
    "sdDatePublished": "2019-04-16T08:26", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000363_0000000363/records_70058_00000001.jsonl", 
    "type": "Chapter", 
    "url": "https://link.springer.com/10.1007%2F978-3-540-30470-8_38"
  }
]
 

Download the RDF metadata as:  json-ld nt turtle xml License info

HOW TO GET THIS DATA PROGRAMMATICALLY:

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.10.1007/978-3-540-30470-8_38'

N-Triples is a line-based linked data format ideal for batch operations.

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1007/978-3-540-30470-8_38'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1007/978-3-540-30470-8_38'

RDF/XML is a standard XML format for linked data.

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1007/978-3-540-30470-8_38'


 

This table displays all metadata directly associated to this object as RDF triples.

135 TRIPLES      23 PREDICATES      39 URIs      20 LITERALS      8 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1007/978-3-540-30470-8_38 schema:about anzsrc-for:08
2 anzsrc-for:0806
3 schema:author N6aea4a544ad44dcda90a201ed2282325
4 schema:citation sg:pub.10.1007/1-4020-3432-6_1
5 sg:pub.10.1007/978-3-540-45209-6_62
6 https://doi.org/10.1002/0470867167.ch8
7 https://doi.org/10.1016/s0022-2836(05)80360-2
8 https://doi.org/10.1016/s0168-9525(00)02024-2
9 https://doi.org/10.1016/s0968-0004(00)89080-5
10 https://doi.org/10.1093/bioinformatics/btg250
11 https://doi.org/10.1093/nar/28.1.235
12 https://doi.org/10.1093/nar/gkg095
13 https://doi.org/10.1093/nar/gkg548
14 https://doi.org/10.1145/581360.581362
15 https://doi.org/10.1177/109434209701100205
16 schema:datePublished 2004
17 schema:datePublishedReg 2004-01-01
18 schema:description Current bioinformatics workflows require the collection of results coming from different tools on several Web sites. High-throughput services integrated through Web Services allow researchers to access a virtual organization by providing large computational and storage resources. There are considerable costs associated with running a high-throughput application including hardware, storage, maintenance, and bandwidth. Moreover, often such tools use biological data banks heterogeneous in the format and semantic, so the task of enabling their composition and cooperation is even more difficult. Researchers are now taking advantage of economies of scale by building large shared systems for bioinformatics processing. Integrating Computational Grids and Web Services technologies can be a key solution to simplify interaction between bioinformatics tools and biological databases. This paper presents a data access service for retrieving and transferring input data coming from heterogeneous data banks to high throughput applications, wrapped as Web Services.
19 schema:editor N57d712f6ba894fb59f541aa92653f545
20 schema:genre chapter
21 schema:inLanguage en
22 schema:isAccessibleForFree false
23 schema:isPartOf N77bf7607ee5e49759c8f51b2e8100d90
24 schema:name Bioinformatics Data Access Service in the ProGenGrid System
25 schema:pagination 211-221
26 schema:productId N98989542705e42179edac1ef6be08440
27 Nc0c29058057f4496bc90c1c112cd6cce
28 Nefc0362b1a614b01be06897e825d7938
29 schema:publisher N9558be65a5644364ba5500b09cd28259
30 schema:sameAs https://app.dimensions.ai/details/publication/pub.1035768775
31 https://doi.org/10.1007/978-3-540-30470-8_38
32 schema:sdDatePublished 2019-04-16T08:26
33 schema:sdLicense https://scigraph.springernature.com/explorer/license/
34 schema:sdPublisher Na64b8c14bdcf49b3be497ef7e221e571
35 schema:url https://link.springer.com/10.1007%2F978-3-540-30470-8_38
36 sgo:license sg:explorer/license/
37 sgo:sdDataset chapters
38 rdf:type schema:Chapter
39 N104a58656c184a989aee734cc5c2fa34 rdf:first sg:person.013367070743.12
40 rdf:rest rdf:nil
41 N32be2637083f48b1a3aef80866df73ff rdf:first sg:person.012124422153.81
42 rdf:rest N104a58656c184a989aee734cc5c2fa34
43 N57d712f6ba894fb59f541aa92653f545 rdf:first Nf34beeb3ecb84ce48a81805aa2eacd1f
44 rdf:rest Nf08d7b7be77f4e51b79f9e7c993a88d3
45 N6aea4a544ad44dcda90a201ed2282325 rdf:first sg:person.010013573543.47
46 rdf:rest Nb99bcc74bd634232a18156802e11a857
47 N77bf7607ee5e49759c8f51b2e8100d90 schema:isbn 978-3-540-23664-1
48 978-3-540-30470-8
49 schema:name On the Move to Meaningful Internet Systems 2004: OTM 2004 Workshops
50 rdf:type schema:Book
51 N86b062fd4f9a45c092bc75631c759839 rdf:first Nab0af12e55e44bdba8e9e7ecf02b45f4
52 rdf:rest rdf:nil
53 N9558be65a5644364ba5500b09cd28259 schema:location Berlin, Heidelberg
54 schema:name Springer Berlin Heidelberg
55 rdf:type schema:Organisation
56 N98989542705e42179edac1ef6be08440 schema:name readcube_id
57 schema:value aa63ceb93bb64870cd8a4ab1c1cad2069a4bb5471beccb1fa33a9c51069a72d3
58 rdf:type schema:PropertyValue
59 Na64b8c14bdcf49b3be497ef7e221e571 schema:name Springer Nature - SN SciGraph project
60 rdf:type schema:Organization
61 Nab0af12e55e44bdba8e9e7ecf02b45f4 schema:familyName Corsaro
62 schema:givenName Angelo
63 rdf:type schema:Person
64 Nb99bcc74bd634232a18156802e11a857 rdf:first sg:person.014532601703.25
65 rdf:rest N32be2637083f48b1a3aef80866df73ff
66 Nc0c29058057f4496bc90c1c112cd6cce schema:name doi
67 schema:value 10.1007/978-3-540-30470-8_38
68 rdf:type schema:PropertyValue
69 Ndf2a310e5bb34738aab2499283430d02 schema:familyName Tari
70 schema:givenName Zahir
71 rdf:type schema:Person
72 Nefc0362b1a614b01be06897e825d7938 schema:name dimensions_id
73 schema:value pub.1035768775
74 rdf:type schema:PropertyValue
75 Nf08d7b7be77f4e51b79f9e7c993a88d3 rdf:first Ndf2a310e5bb34738aab2499283430d02
76 rdf:rest N86b062fd4f9a45c092bc75631c759839
77 Nf34beeb3ecb84ce48a81805aa2eacd1f schema:familyName Meersman
78 schema:givenName Robert
79 rdf:type schema:Person
80 anzsrc-for:08 schema:inDefinedTermSet anzsrc-for:
81 schema:name Information and Computing Sciences
82 rdf:type schema:DefinedTerm
83 anzsrc-for:0806 schema:inDefinedTermSet anzsrc-for:
84 schema:name Information Systems
85 rdf:type schema:DefinedTerm
86 sg:person.010013573543.47 schema:affiliation https://www.grid.ac/institutes/grid.9906.6
87 schema:familyName Aloisio
88 schema:givenName Giovanni
89 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010013573543.47
90 rdf:type schema:Person
91 sg:person.012124422153.81 schema:affiliation https://www.grid.ac/institutes/grid.9906.6
92 schema:familyName Fiore
93 schema:givenName Sandro
94 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012124422153.81
95 rdf:type schema:Person
96 sg:person.013367070743.12 schema:affiliation https://www.grid.ac/institutes/grid.9906.6
97 schema:familyName Mirto
98 schema:givenName Maria
99 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.013367070743.12
100 rdf:type schema:Person
101 sg:person.014532601703.25 schema:affiliation https://www.grid.ac/institutes/grid.9906.6
102 schema:familyName Cafaro
103 schema:givenName Massimo
104 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014532601703.25
105 rdf:type schema:Person
106 sg:pub.10.1007/1-4020-3432-6_1 schema:sameAs https://app.dimensions.ai/details/publication/pub.1045860333
107 https://doi.org/10.1007/1-4020-3432-6_1
108 rdf:type schema:CreativeWork
109 sg:pub.10.1007/978-3-540-45209-6_62 schema:sameAs https://app.dimensions.ai/details/publication/pub.1028939566
110 https://doi.org/10.1007/978-3-540-45209-6_62
111 rdf:type schema:CreativeWork
112 https://doi.org/10.1002/0470867167.ch8 schema:sameAs https://app.dimensions.ai/details/publication/pub.1008073199
113 rdf:type schema:CreativeWork
114 https://doi.org/10.1016/s0022-2836(05)80360-2 schema:sameAs https://app.dimensions.ai/details/publication/pub.1013618994
115 rdf:type schema:CreativeWork
116 https://doi.org/10.1016/s0168-9525(00)02024-2 schema:sameAs https://app.dimensions.ai/details/publication/pub.1035021159
117 rdf:type schema:CreativeWork
118 https://doi.org/10.1016/s0968-0004(00)89080-5 schema:sameAs https://app.dimensions.ai/details/publication/pub.1000822935
119 rdf:type schema:CreativeWork
120 https://doi.org/10.1093/bioinformatics/btg250 schema:sameAs https://app.dimensions.ai/details/publication/pub.1007388001
121 rdf:type schema:CreativeWork
122 https://doi.org/10.1093/nar/28.1.235 schema:sameAs https://app.dimensions.ai/details/publication/pub.1035055456
123 rdf:type schema:CreativeWork
124 https://doi.org/10.1093/nar/gkg095 schema:sameAs https://app.dimensions.ai/details/publication/pub.1027045924
125 rdf:type schema:CreativeWork
126 https://doi.org/10.1093/nar/gkg548 schema:sameAs https://app.dimensions.ai/details/publication/pub.1021369502
127 rdf:type schema:CreativeWork
128 https://doi.org/10.1145/581360.581362 schema:sameAs https://app.dimensions.ai/details/publication/pub.1094834301
129 rdf:type schema:CreativeWork
130 https://doi.org/10.1177/109434209701100205 schema:sameAs https://app.dimensions.ai/details/publication/pub.1063977753
131 rdf:type schema:CreativeWork
132 https://www.grid.ac/institutes/grid.9906.6 schema:alternateName University of Salento
133 schema:name Center for Advanced Computational Technologies/ISUFI, Dept. of Innovation Engineering, University of Lecce, via per Monteroni, 73100, Lecce, Italy
134 SPACI Consortium
135 rdf:type schema:Organization
 




Preview window. Press ESC to close (or click here)


...