バージョン 12 から バージョン 14 における更新: チケット #47
- 更新日時:
- 2008/01/28 11:29:29 (17 年 前)
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チケット #47 – 説明
v12 v14 70 70 * title: オンラインリソースタイトル 71 71 * snippet: スニペット 72 * mesh_ list: MeSH リスト73 * item: MeSH 単体 ( REST の場合は mesh )72 * mesh_term_list: MeSH リスト 73 * item: MeSH 単体 ( REST の場合は mesh_term ) 74 74 * url: オンラインリソース URL 75 75 * pages: 参照リンク検索 URL リスト … … 81 81 * high_wire_press: high wire press による参照文献検索 URL 82 82 * google_scholar: google scholar による参照文献検索 URL 83 * p ubmed: 参照 PubMed の PMID リスト84 * pmid: 参照 PubMed の pmid ( REST の場合は pmid )83 * pmid_list: 参照 PubMed の PMID リスト 84 * item: 参照 PubMed の pmid ( REST の場合は pmid ) 85 85 == リクエスト/レスポンスサンプル == 86 86 以下のクエリで Web API を呼び出すリクエストとその結果のレスポンスを SOAP / REST の二つでサンプルとして示す。 … … 123 123 env:encodingStyle="http://schemas.xmlsoap.org/soap/encoding/"> 124 124 <return xsi:type="n1:Retrieve..ResultSet"> 125 <query xsi:type="n1:Retrieve..Query"> 126 <expression xsi:type="xsd:string">#filreq(DNA.majr #combine(genome))</expression> 127 <option xsi:type="n1:Retrieve..Option"> 128 <max_results xsi:type="xsd:int">3</max_results> 129 <order xsi:type="xsd:string">relevance</order> 130 <enable_relevance_feedback xsi:type="xsd:boolean">false</enable_relevance_feedback> 131 <enable_hide_unfetched xsi:type="xsd:boolean">true</enable_hide_unfetched> 132 </option> 133 </query> 134 <status xsi:type="n1:Retrieve..Status"> 135 <name xsi:type="xsd:string">Orefil::Success</name> 136 <message xsi:type="xsd:string">success.</message> 137 <code xsi:type="xsd:string">20000</code> 138 </status> 125 139 <results n2:arrayType="n1:Retrieve..Result[3]" 126 140 xmlns:n2="http://schemas.xmlsoap.org/soap/encoding/" 127 141 xsi:type="n2:Array"> 128 142 <item> 143 <rank xsi:type="xsd:int">1</rank> 144 <pages xsi:type="n1:Retrieve..Pages"> 145 <altavista xsi:type="xsd:string">http://www.altavista.com/web/results?itag=ody&amp;q=link:http%3A%2F%2Fgenome.ucsc.edu%2F&amp;kgs=0&amp;kls=1</altavista> 146 <google xsi:type="xsd:string">http://www.google.com/search?hl=en&amp;q=link%3ahttp%3A%2F%2Fgenome.ucsc.edu%2F&amp;btnG=Google+Search</google> 147 </pages> 129 148 <mesh_list n2:arrayType="xsd:string[28]" 130 149 xsi:type="n2:Array"> … … 177 196 </pubmed> 178 197 <snippet xsi:type="xsd:string">Comparative <strong>Genomic</strong> Analysis Using the UCSC <strong>Genome</strong> Browser. Comparative analysis of DNA sequence from multiple species can provide insights into the function...sequence from multiple species can provide insights into the function and evolutionary processes that shape <strong>genomes</strong>. The University of California Santa Cruz (UCSC) <strong>Genome</strong> Bioinformatics group has developed several tools and methodologies in its study of comparative genomics, many...</snippet> 198 <url xsi:type="xsd:string">http://genome.ucsc.edu/</url> 179 199 <papers xsi:type="n1:Retrieve..Papers"> 200 <google_scholar xsi:type="xsd:string">http://scholar.google.com/scholar?hl=en&amp;lr=&amp;q=genome.ucsc.edu%2F&amp;btnG=Search</google_scholar> 180 201 <high_wire_press xsi:type="xsd:string">http://highwire.org/cgi/searchresults?fulltext=genome.ucsc.edu%2F&amp;andorexactfulltext=and&amp;author1=&amp;pubdate_year=&amp;volume=&amp;firstpage=&amp;src=hw&amp;searchsubmit=redo&amp;resourcetype=1&amp;search=Search&amp;fmonth=Jan&amp;fyear=1844&amp;tmonth=Dec&amp;tyear=2007&amp;fdatedef=1+January+1844&amp;tdatedef=31+Dec+2007</high_wire_press> 181 202 <scirus xsi:type="xsd:string">http://www.scirus.com/srsapp/search?q=genome.ucsc.edu%2F&amp;ds=jnl&amp;g=s&amp;t=all</scirus> 182 203 <bio_med_central xsi:type="xsd:string">http://www.biomedcentral.com/search/results.asp?txtSearch1=genome.ucsc.edu%2F&amp;chkBMCJournals=true&amp;chkCurrentOpinion=true&amp;drpFromDate=&amp;drpToDate=&amp;chkNSP=true&amp;drpAddedInLast=&amp;drpOrderBy=by+date&amp;drpPerPage=20&amp;drpAbstract=no+abstract&amp;strTempString=&amp;strSearchBoxType=bmc_boolean_results&amp;Search.x=10&amp;jou_id=&amp;Search.x=0&amp;Search.y=0&amp;Search=Search</bio_med_central> 183 <google_scholar xsi:type="xsd:string">http://scholar.google.com/scholar?hl=en&amp;lr=&amp;q=genome.ucsc.edu%2F&amp;btnG=Search</google_scholar>184 204 </papers> 185 205 <title xsi:type="xsd:string">UCSC Genome Browser Home</title> 186 <rank xsi:type="xsd:int">1</rank>187 <url xsi:type="xsd:string">http://genome.ucsc.edu/</url>188 <pages xsi:type="n1:Retrieve..Pages">189 <altavista xsi:type="xsd:string">http://www.altavista.com/web/results?itag=ody&amp;q=link:http%3A%2F%2Fgenome.ucsc.edu%2F&amp;kgs=0&amp;kls=1</altavista>190 <google xsi:type="xsd:string">http://www.google.com/search?hl=en&amp;q=link%3ahttp%3A%2F%2Fgenome.ucsc.edu%2F&amp;btnG=Google+Search</google>191 </pages>192 206 </item> 193 207 <item> 208 <rank xsi:type="xsd:int">2</rank> 209 <pages xsi:type="n1:Retrieve..Pages"> 210 <altavista xsi:type="xsd:string">http://www.altavista.com/web/results?itag=ody&amp;q=link:http%3A%2F%2Fwww.genome.ucsc.edu%2F&amp;kgs=0&amp;kls=1</altavista> 211 <google xsi:type="xsd:string">http://www.google.com/search?hl=en&amp;q=link%3ahttp%3A%2F%2Fwww.genome.ucsc.edu%2F&amp;btnG=Google+Search</google> 212 </pages> 194 213 <mesh_list n2:arrayType="xsd:string[9]" 195 214 xsi:type="n2:Array"> … … 210 229 </pubmed> 211 230 <snippet xsi:type="xsd:string">Finding anchors for <strong>genomic</strong> sequence comparison . Recent sequencing of the human and other mammalian <strong>genomes</strong> has brought about the necessity to align them , to identify and characterize their commonalities and...Algorithms Amino Acid Motifs Chromosome Mapping Sequence Analysis, DNA User-Computer Interface Databases, Genetic Mice <strong>Genome</strong> Information Storage and Retrieval Internet Rats Computational Biology Software Models, Genetic Animals Oligonucleotide Array Sequence Analysis Databases, Genetic <strong>Genome</strong> Gene Expression Profiling Sequence Alignment Software Chromosome Mapping Oligonucleotide Array Sequence Analysis User-Computer Interface Sequence Analysis, ... Nucleic Acid Hybridization Microarray Analysis Genetic Techniques Information Storage and Retrieval Sequence Analysis Chemistry, Analytical...</snippet> 231 <url xsi:type="xsd:string">http://www.genome.ucsc.edu/</url> 212 232 <papers xsi:type="n1:Retrieve..Papers"> 233 <google_scholar xsi:type="xsd:string">http://scholar.google.com/scholar?hl=en&amp;lr=&amp;q=www.genome.ucsc.edu%2F&amp;btnG=Search</google_scholar> 213 234 <high_wire_press xsi:type="xsd:string">http://highwire.org/cgi/searchresults?fulltext=www.genome.ucsc.edu%2F&amp;andorexactfulltext=and&amp;author1=&amp;pubdate_year=&amp;volume=&amp;firstpage=&amp;src=hw&amp;searchsubmit=redo&amp;resourcetype=1&amp;search=Search&amp;fmonth=Jan&amp;fyear=1844&amp;tmonth=Dec&amp;tyear=2007&amp;fdatedef=1+January+1844&amp;tdatedef=31+Dec+2007</high_wire_press> 214 235 <scirus xsi:type="xsd:string">http://www.scirus.com/srsapp/search?q=www.genome.ucsc.edu%2F&amp;ds=jnl&amp;g=s&amp;t=all</scirus> 215 236 <bio_med_central xsi:type="xsd:string">http://www.biomedcentral.com/search/results.asp?txtSearch1=www.genome.ucsc.edu%2F&amp;chkBMCJournals=true&amp;chkCurrentOpinion=true&amp;drpFromDate=&amp;drpToDate=&amp;chkNSP=true&amp;drpAddedInLast=&amp;drpOrderBy=by+date&amp;drpPerPage=20&amp;drpAbstract=no+abstract&amp;strTempString=&amp;strSearchBoxType=bmc_boolean_results&amp;Search.x=10&amp;jou_id=&amp;Search.x=0&amp;Search.y=0&amp;Search=Search</bio_med_central> 216 <google_scholar xsi:type="xsd:string">http://scholar.google.com/scholar?hl=en&amp;lr=&amp;q=www.genome.ucsc.edu%2F&amp;btnG=Search</google_scholar>217 237 </papers> 218 238 <title xsi:type="xsd:string">UCSC Genome Browser Home</title> 219 <rank xsi:type="xsd:int">2</rank>220 <url xsi:type="xsd:string">http://www.genome.ucsc.edu/</url>221 <pages xsi:type="n1:Retrieve..Pages">222 <altavista xsi:type="xsd:string">http://www.altavista.com/web/results?itag=ody&amp;q=link:http%3A%2F%2Fwww.genome.ucsc.edu%2F&amp;kgs=0&amp;kls=1</altavista>223 <google xsi:type="xsd:string">http://www.google.com/search?hl=en&amp;q=link%3ahttp%3A%2F%2Fwww.genome.ucsc.edu%2F&amp;btnG=Google+Search</google>224 </pages>225 239 </item> 226 240 <item> 241 <rank xsi:type="xsd:int">3</rank> 242 <pages xsi:type="n1:Retrieve..Pages"> 243 <altavista xsi:type="xsd:string">http://www.altavista.com/web/results?itag=ody&amp;q=link:http%3A%2F%2Fgenome.cse.ucsc.edu%2F&amp;kgs=0&amp;kls=1</altavista> 244 <google xsi:type="xsd:string">http://www.google.com/search?hl=en&amp;q=link%3ahttp%3A%2F%2Fgenome.cse.ucsc.edu%2F&amp;btnG=Google+Search</google> 245 </pages> 227 246 <mesh_list n2:arrayType="xsd:string[4]" 228 247 xsi:type="n2:Array"> … … 237 256 </pubmed> 238 257 <snippet xsi:type="xsd:string">IsoFinder : computational prediction of isochores in <strong>genome</strong> sequences . Isochores are long <strong>genome</strong> segments homogeneous in G+C . Here , we describe an algorithm ( IsoFinder ) running on the web...by each cut . This leads to the decomposition of a chromosome sequence into long homogeneous <strong>genome</strong> regions ( LHGRs ) with well-defined mean G+C contents , each significantly different from the G...</snippet> 258 <url xsi:type="xsd:string">http://genome.cse.ucsc.edu/</url> 239 259 <papers xsi:type="n1:Retrieve..Papers"> 260 <google_scholar xsi:type="xsd:string">http://scholar.google.com/scholar?hl=en&amp;lr=&amp;q=genome.cse.ucsc.edu%2F&amp;btnG=Search</google_scholar> 240 261 <high_wire_press xsi:type="xsd:string">http://highwire.org/cgi/searchresults?fulltext=genome.cse.ucsc.edu%2F&amp;andorexactfulltext=and&amp;author1=&amp;pubdate_year=&amp;volume=&amp;firstpage=&amp;src=hw&amp;searchsubmit=redo&amp;resourcetype=1&amp;search=Search&amp;fmonth=Jan&amp;fyear=1844&amp;tmonth=Dec&amp;tyear=2007&amp;fdatedef=1+January+1844&amp;tdatedef=31+Dec+2007</high_wire_press> 241 262 <scirus xsi:type="xsd:string">http://www.scirus.com/srsapp/search?q=genome.cse.ucsc.edu%2F&amp;ds=jnl&amp;g=s&amp;t=all</scirus> 242 263 <bio_med_central xsi:type="xsd:string">http://www.biomedcentral.com/search/results.asp?txtSearch1=genome.cse.ucsc.edu%2F&amp;chkBMCJournals=true&amp;chkCurrentOpinion=true&amp;drpFromDate=&amp;drpToDate=&amp;chkNSP=true&amp;drpAddedInLast=&amp;drpOrderBy=by+date&amp;drpPerPage=20&amp;drpAbstract=no+abstract&amp;strTempString=&amp;strSearchBoxType=bmc_boolean_results&amp;Search.x=10&amp;jou_id=&amp;Search.x=0&amp;Search.y=0&amp;Search=Search</bio_med_central> 243 <google_scholar xsi:type="xsd:string">http://scholar.google.com/scholar?hl=en&amp;lr=&amp;q=genome.cse.ucsc.edu%2F&amp;btnG=Search</google_scholar>244 264 </papers> 245 265 <title xsi:type="xsd:string">UCSC Genome Browser Home</title> 246 <rank xsi:type="xsd:int">3</rank>247 <url xsi:type="xsd:string">http://genome.cse.ucsc.edu/</url>248 <pages xsi:type="n1:Retrieve..Pages">249 <altavista xsi:type="xsd:string">http://www.altavista.com/web/results?itag=ody&amp;q=link:http%3A%2F%2Fgenome.cse.ucsc.edu%2F&amp;kgs=0&amp;kls=1</altavista>250 <google xsi:type="xsd:string">http://www.google.com/search?hl=en&amp;q=link%3ahttp%3A%2F%2Fgenome.cse.ucsc.edu%2F&amp;btnG=Google+Search</google>251 </pages>252 266 </item> 253 267 </results> 254 <query xsi:type="n1:Retrieve..Query">255 <expression xsi:type="xsd:string">#filreq(DNA.majr #combine(genome))</expression>256 <option xsi:type="n1:Retrieve..Option">257 <max_results xsi:type="xsd:int">3</max_results>258 <enable_relevance_feedback xsi:type="xsd:boolean">false</enable_relevance_feedback>259 <order xsi:type="xsd:string">relevance</order>260 <enable_hide_unfetched xsi:type="xsd:boolean">true</enable_hide_unfetched>261 </option>262 </query>263 <status xsi:type="n1:Retrieve..Status">264 <name xsi:type="xsd:string">Orefil::Success</name>265 <message xsi:type="xsd:string">success.</message>266 <code xsi:type="xsd:string">20000</code>267 </status>268 268 </return> 269 269 </n1:GetResourceInfoByQueryTermResponse> 270 270 </env:Body> 271 271 </env:Envelope> 272 272 }}} 273 273 === REST === 274 274 * リクエスト 275 275 {{{ 276 http://localhost:3000/search.xml?query=%23filreq%28DNA.majr+%23combine%28genome%29%29&count=3&sort_by=relevance&hide_unfetched=on276 /search.xml?query=%23filreq%28DNA.majr+%23combine%28genome%29%29&count=3&sort_by=relevance&hide_unfetched=on 277 277 }}} 278 278 * レスポンス … … 297 297 Comparative <strong>Genomic</strong> Analysis Using the UCSC <strong>Genome</strong> Browser. Comparative analysis of DNA sequence from multiple species can provide insights into the function...sequence from multiple species can provide insights into the function and evolutionary processes that shape <strong>genomes</strong>. The University of California Santa Cruz (UCSC) <strong>Genome</strong> Bioinformatics group has developed several tools and methodologies in its study of comparative genomics, many... 298 298 </snippet> 299 <mesh_ list>300 <mesh >Abnormalities, Multiple</mesh>301 <mesh >Carbamoyl-Phosphate Synthase I Deficiency Disease</mesh>302 <mesh >Chickens</mesh>303 <mesh >Chromosome Deletion</mesh>304 <mesh >Chromosome Mapping</mesh>305 <mesh >Chromosomes, Human, Pair 2</mesh>306 <mesh >Computational Biology</mesh>307 <mesh >DNA Primers</mesh>308 <mesh >Database Management Systems</mesh>309 <mesh >Databases, Genetic</mesh>310 <mesh >Databases, Nucleic Acid</mesh>311 <mesh >Databases, Protein</mesh>312 <mesh >Exons</mesh>313 <mesh >Genome</mesh>314 <mesh >Genome, Human</mesh>315 <mesh >Genomics</mesh>316 <mesh >Information Storage and Retrieval</mesh>317 <mesh >Internet</mesh>318 <mesh >Linkage (Genetics)</mesh>319 <mesh >Microsatellite Repeats</mesh>320 <mesh >Polymorphism, Single Nucleotide</mesh>321 <mesh >Proteins</mesh>322 <mesh >Proteome</mesh>323 <mesh >Proteomics</mesh>324 <mesh >RNA, Messenger</mesh>325 <mesh >Sequence Alignment</mesh>326 <mesh >Software</mesh>327 <mesh >Zebrafish</mesh>328 </mesh_ list>299 <mesh_term_list> 300 <mesh_term>Abnormalities, Multiple</mesh_term> 301 <mesh_term>Carbamoyl-Phosphate Synthase I Deficiency Disease</mesh_term> 302 <mesh_term>Chickens</mesh_term> 303 <mesh_term>Chromosome Deletion</mesh_term> 304 <mesh_term>Chromosome Mapping</mesh_term> 305 <mesh_term>Chromosomes, Human, Pair 2</mesh_term> 306 <mesh_term>Computational Biology</mesh_term> 307 <mesh_term>DNA Primers</mesh_term> 308 <mesh_term>Database Management Systems</mesh_term> 309 <mesh_term>Databases, Genetic</mesh_term> 310 <mesh_term>Databases, Nucleic Acid</mesh_term> 311 <mesh_term>Databases, Protein</mesh_term> 312 <mesh_term>Exons</mesh_term> 313 <mesh_term>Genome</mesh_term> 314 <mesh_term>Genome, Human</mesh_term> 315 <mesh_term>Genomics</mesh_term> 316 <mesh_term>Information Storage and Retrieval</mesh_term> 317 <mesh_term>Internet</mesh_term> 318 <mesh_term>Linkage (Genetics)</mesh_term> 319 <mesh_term>Microsatellite Repeats</mesh_term> 320 <mesh_term>Polymorphism, Single Nucleotide</mesh_term> 321 <mesh_term>Proteins</mesh_term> 322 <mesh_term>Proteome</mesh_term> 323 <mesh_term>Proteomics</mesh_term> 324 <mesh_term>RNA, Messenger</mesh_term> 325 <mesh_term>Sequence Alignment</mesh_term> 326 <mesh_term>Software</mesh_term> 327 <mesh_term>Zebrafish</mesh_term> 328 </mesh_term_list> 329 329 <url>http://genome.ucsc.edu/</url> 330 330 <pages> … … 350 350 </google_scholar> 351 351 </papers> 352 <p ubmed>352 <pmid_list> 353 353 <pmid>16888352</pmid> 354 354 <pmid>16381938</pmid> … … 366 366 <pmid>15608236</pmid> 367 367 <pmid>16888346</pmid> 368 </p ubmed>368 </pmid_list> 369 369 </result> 370 370 <result> … … 374 374 Finding anchors for <strong>genomic</strong> sequence comparison . Recent sequencing of the human and other mammalian <strong>genomes</strong> has brought about the necessity to align them , to identify and characterize their commonalities and...Algorithms Amino Acid Motifs Chromosome Mapping Sequence Analysis, DNA User-Computer Interface Databases, Genetic Mice <strong>Genome</strong> Information Storage and Retrieval Internet Rats Computational Biology Software Models, Genetic Animals Oligonucleotide Array Sequence Analysis Databases, Genetic <strong>Genome</strong> Gene Expression Profiling Sequence Alignment Software Chromosome Mapping Oligonucleotide Array Sequence Analysis User-Computer Interface Sequence Analysis, ... Nucleic Acid Hybridization Microarray Analysis Genetic Techniques Information Storage and Retrieval Sequence Analysis Chemistry, Analytical... 375 375 </snippet> 376 <mesh_ list>377 <mesh >Chromosome Mapping</mesh>378 <mesh >Databases, Genetic</mesh>379 <mesh >Gene Expression Profiling</mesh>380 <mesh >Genome</mesh>381 <mesh >Oligonucleotide Array Sequence Analysis</mesh>382 <mesh >Sequence Alignment</mesh>383 <mesh >Sequence Analysis, DNA</mesh>384 <mesh >Software</mesh>385 <mesh >User-Computer Interface</mesh>386 </mesh_ list>376 <mesh_term_list> 377 <mesh_term>Chromosome Mapping</mesh_term> 378 <mesh_term>Databases, Genetic</mesh_term> 379 <mesh_term>Gene Expression Profiling</mesh_term> 380 <mesh_term>Genome</mesh_term> 381 <mesh_term>Oligonucleotide Array Sequence Analysis</mesh_term> 382 <mesh_term>Sequence Alignment</mesh_term> 383 <mesh_term>Sequence Analysis, DNA</mesh_term> 384 <mesh_term>Software</mesh_term> 385 <mesh_term>User-Computer Interface</mesh_term> 386 </mesh_term_list> 387 387 <url>http://www.genome.ucsc.edu/</url> 388 388 <pages> … … 408 408 </google_scholar> 409 409 </papers> 410 <p ubmed>410 <pmid_list> 411 411 <pmid>14681485</pmid> 412 412 <pmid>16108715</pmid> 413 </p ubmed>413 </pmid_list> 414 414 </result> 415 415 <result> … … 419 419 IsoFinder : computational prediction of isochores in <strong>genome</strong> sequences . Isochores are long <strong>genome</strong> segments homogeneous in G+C . Here , we describe an algorithm ( IsoFinder ) running on the web...by each cut . This leads to the decomposition of a chromosome sequence into long homogeneous <strong>genome</strong> regions ( LHGRs ) with well-defined mean G+C contents , each significantly different from the G... 420 420 </snippet> 421 <mesh_ list>422 <mesh >Computational Biology</mesh>423 <mesh >Genomics</mesh>424 <mesh >Isochores</mesh>425 <mesh >Software</mesh>426 </mesh_ list>421 <mesh_term_list> 422 <mesh_term>Computational Biology</mesh_term> 423 <mesh_term>Genomics</mesh_term> 424 <mesh_term>Isochores</mesh_term> 425 <mesh_term>Software</mesh_term> 426 </mesh_term_list> 427 427 <url>http://genome.cse.ucsc.edu/</url> 428 428 <pages> … … 448 448 </google_scholar> 449 449 </papers> 450 <p ubmed>450 <pmid_list> 451 451 <pmid>15215396</pmid> 452 </p ubmed>452 </pmid_list> 453 453 </result> 454 454 </results>
