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バージョン 7 からバージョン 8 における更新: チケット #47

更新日時:: 2008/01/24 16:32:26 (17 年前)
更新者:: h-morita
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チケット #47 – 説明

v7	v8
11	11	\|\| パラメータ名 \|\| パラメータ内容 \|\| 必須/オプション \|\| デフォルト値 \|\| 設定可能な値 \|\|
12	12	\|\| expression \|\| 検索文字列 \|\| 必須 \|\| ー \|\| IndriRunQuery が対応可能な式 \|\|
13		\|\| max_results \|\| 検索件数 \|\| 必須 \|\| ー \|\| 1 〜 1000 \|\|
	13	\|\| max_results \|\| 最大検索件数 \|\| 必須 \|\| ー \|\| 1 〜 1000 \|\|
14	14	\|\| order \|\| ソート方法 \|\| 必須 \|\| ー \|\| relevance もしくは date \|\|
15	15	\|\| enable_hide_unfetched \|\| 404ページの表示/非表示 \|\| 必須 \|\| ー \|\| on もしくは off \|\|
…	…
22	22	\|\| パラメータ名 \|\| パラメータ内容 \|\| 必須/オプション \|\| デフォルト値 \|\| 設定可能な値 \|\|
23	23	\|\| query \|\| 検索文字列 \|\| 必須 \|\| ー \|\| IndriRunQuery が対応可能な式 \|\|
24		\|\| count \|\| 検索件数 \|\| オプション \|\| 100 \|\| 1 〜 1000 \|\|
	24	\|\| count \|\| 最大検索件数 \|\| オプション \|\| 100 \|\| 1 〜 1000 \|\|
25	25	\|\| sort_by \|\| ソート方法 \|\| オプション \|\| relevance \|\| relevance もしくは date \|\|
26	26	\|\| hide_unfetched \|\| 404ページの表示/非表示 \|\| オプション \|\| on \|\| on もしくは off \|\|
…	…
57	57	* pubmed: 参照 PubMed の PMID リスト
58	58	* pmid: 参照 PubMed の pmid ( REST の場合は pmid )
59		== ~~Web API~~ 結果サンプル ==
	59	== 結果サンプル ==
60	60	* 以下のクエリで Web API を呼び出した結果のサンプル
61		* クエリ式 : #filreq(DNA.majr #combine(genome))
62		* クエリ条件
63		* 最大結果件数 : 5 件
64		* ソート順序 : 関連度順
65		* Page not Found なページを隠す : ○
66		* 疑似関連フィードバックを有効 : ×[[br]]
	61	* 検索文字列 : #filreq(DNA.majr #combine(genome))
	62	* クエリオプション
	63	* 最大結果件数 : 3 件
	64	* ソート方法 : 関連度順
	65	* 404ページの表示/ 非表示 : 表示
	66	* 疑似関連フィードバック : 無効
	67	=== SOAP ===
	68	* リクエスト
	69	{{{
	70	<?xml version="1.0" encoding="UTF-8"?>
	71	<SOAP-ENV:Envelope
	72	xmlns:xsd="http://www.w3.org/2001/XMLSchema"
	73	xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
	74	xmlns:SOAP-ENC="http://schemas.xmlsoap.org/soap/encoding/"
	75	SOAP-ENV:encodingStyle="http://schemas.xmlsoap.org/soap/encoding/"
	76	xmlns:SOAP-ENV="http://schemas.xmlsoap.org/soap/envelope/">
	77	<SOAP-ENV:Body>
	78	<m:GetResourceInfoByQueryTerm xmlns:m="urn:ActionWebService">
	79	<expression xsi:type="xsd:string">#filreq(DNA.majr #combine(genome))</expression>
	80	<max_results xsi:type="xsd:int">3</max_results>
	81	<order xsi:type="xsd:string">relevance</order>
	82	<enable_hide_unfetched xsi:type="xsd:boolean">true</enable_hide_unfetched>
	83	<enable_relevance_feedback xsi:type="xsd:boolean">false</enable_relevance_feedback>
	84	</m:GetResourceInfoByQueryTerm>
	85	</SOAP-ENV:Body>
	86	</SOAP-ENV:Envelope>
	87	}}}
	88	* レスポンス
	89	{{{
	90	<?xml version="1.0" encoding="UTF-8" ?>
	91	<env:Envelope xmlns:xsd="http://www.w3.org/2001/XMLSchema"
	92	xmlns:env="http://schemas.xmlsoap.org/soap/envelope/"
	93	xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
	94	<env:Body>
	95	<n1:GetResourceInfoByQueryTermResponse xmlns:n1="urn:ActionWebService"
	96	env:encodingStyle="http://schemas.xmlsoap.org/soap/encoding/">
	97	<return xsi:type="n1:Retrieve..ResultSet">
	98	<query xsi:type="n1:Retrieve..Query">
	99	<option xsi:type="n1:Retrieve..Option">
	100	<enable_relevance_feedback xsi:type="xsd:boolean">false</enable_relevance_feedback>
	101	<enable_hide_unfetched xsi:type="xsd:boolean">true</enable_hide_unfetched>
	102	<order xsi:type="xsd:string">relevance</order>
	103	<max_results xsi:type="xsd:int">3</max_results>
	104	</option>
	105	<expression xsi:type="xsd:string">#filreq(DNA.majr #combine(genome))</expression>
	106	</query>
	107	<status xsi:type="n1:Retrieve..Status">
	108	<name xsi:type="xsd:string">Orefil::Success</name>
	109	<message xsi:type="xsd:string">success.</message>
	110	<code xsi:type="xsd:string">20000</code>
	111	</status>
	112	<results n2:arrayType="n1:Retrieve..Result[3]"
	113	xmlns:n2="http://schemas.xmlsoap.org/soap/encoding/"
	114	xsi:type="n2:Array">
	115	<item>
	116	<pubmed n2:arrayType="xsd:string[15]"
	117	xsi:type="n2:Array">
	118	<item>16888352</item>
	119	<item>16381938</item>
	120	<item>12045153</item>
	121	<item>15216554</item>
	122	<item>17151077</item>
	123	<item>16888348</item>
	124	<item>16372332</item>
	125	<item>11932250</item>
	126	<item>16722777</item>
	127	<item>12519945</item>
	128	<item>16500937</item>
	129	<item>17142222</item>
	130	<item>15554057</item>
	131	<item>15608236</item>
	132	<item>16888346</item>
	133	</pubmed>
	134	<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>
	135	<papers xsi:type="n1:Retrieve..Papers">
	136	<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>
	137	<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>
	138	<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>
	139	<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>
	140	</papers>
	141	<title xsi:type="xsd:string">UCSC Genome Browser Home</title>
	142	<pages xsi:type="n1:Retrieve..Pages">
	143	<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>
	144	<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>
	145	</pages>
	146	<uri xsi:type="xsd:string">http://genome.ucsc.edu/</uri>
	147	<rank xsi:type="xsd:int">1</rank>
	148	<mesh_list n2:arrayType="xsd:string[28]"
	149	xsi:type="n2:Array">
	150	<item>Abnormalities, Multiple</item>
	151	<item>Carbamoyl-Phosphate Synthase I Deficiency Disease</item>
	152	<item>Chickens</item>
	153	<item>Chromosome Deletion</item>
	154	<item>Chromosome Mapping</item>
	155	<item>Chromosomes, Human, Pair 2</item>
	156	<item>Computational Biology</item>
	157	<item>DNA Primers</item>
	158	<item>Database Management Systems</item>
	159	<item>Databases, Genetic</item>
	160	<item>Databases, Nucleic Acid</item>
	161	<item>Databases, Protein</item>
	162	<item>Exons</item>
	163	<item>Genome</item>
	164	<item>Genome, Human</item>
	165	<item>Genomics</item>
	166	<item>Information Storage and Retrieval</item>
	167	<item>Internet</item>
	168	<item>Linkage (Genetics)</item>
	169	<item>Microsatellite Repeats</item>
	170	<item>Polymorphism, Single Nucleotide</item>
	171	<item>Proteins</item>
	172	<item>Proteome</item>
	173	<item>Proteomics</item>
	174	<item>RNA, Messenger</item>
	175	<item>Sequence Alignment</item>
	176	<item>Software</item>
	177	<item>Zebrafish</item>
	178	</mesh_list>
	179	</item>
	180	<item>
	181	<pubmed n2:arrayType="xsd:string[2]"
	182	xsi:type="n2:Array">
	183	<item>14681485</item>
	184	<item>16108715</item>
	185	</pubmed>
	186	<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>
	187	<papers xsi:type="n1:Retrieve..Papers">
	188	<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>
	189	<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>
	190	<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>
	191	<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>
	192	</papers>
	193	<title xsi:type="xsd:string">UCSC Genome Browser Home</title>
	194	<pages xsi:type="n1:Retrieve..Pages">
	195	<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>
	196	<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>
	197	</pages>
	198	<uri xsi:type="xsd:string">http://www.genome.ucsc.edu/</uri>
	199	<rank xsi:type="xsd:int">2</rank>
	200	<mesh_list n2:arrayType="xsd:string[9]"
	201	xsi:type="n2:Array">
	202	<item>Chromosome Mapping</item>
	203	<item>Databases, Genetic</item>
	204	<item>Gene Expression Profiling</item>
	205	<item>Genome</item>
	206	<item>Oligonucleotide Array Sequence Analysis</item>
	207	<item>Sequence Alignment</item>
	208	<item>Sequence Analysis, DNA</item>
	209	<item>Software</item>
	210	<item>User-Computer Interface</item>
	211	</mesh_list>
	212	</item>
	213	<item>
	214	<pubmed n2:arrayType="xsd:string[1]"
	215	xsi:type="n2:Array">
	216	<item>15215396</item>
	217	</pubmed>
	218	<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>
	219	<papers xsi:type="n1:Retrieve..Papers">
	220	<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>
	221	<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>
	222	<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>
	223	<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>
	224	</papers>
	225	<title xsi:type="xsd:string">UCSC Genome Browser Home</title>
	226	<pages xsi:type="n1:Retrieve..Pages">
	227	<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>
	228	<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>
	229	</pages>
	230	<uri xsi:type="xsd:string">http://genome.cse.ucsc.edu/</uri>
	231	<rank xsi:type="xsd:int">3</rank>
	232	<mesh_list n2:arrayType="xsd:string[4]"
	233	xsi:type="n2:Array">
	234	<item>Computational Biology</item>
	235	<item>Genomics</item>
	236	<item>Isochores</item>
	237	<item>Software</item>
	238	</mesh_list>
	239	</item>
	240	</results>
	241	</return>
	242	</n1:GetResourceInfoByQueryTermResponse>
	243	</env:Body>
	244	</env:Envelope>
	245	}}}
	246	=== REST ===
	247	* リクエスト
	248	{{{
	249	http://localhost:3000/search.xml?query=%23filreq%28DNA.majr+%23combine%28genome%29%29&count=3&sort_by=relevance&hide_unfetched=on
	250	}}}
	251	* レスポンス
67	252	{{{
68	253	<?xml version="1.0" encoding="UTF-8"?>
…	…
71	256	<expression>#filreq(DNA.majr #combine(genome))</expression>
72	257	<option>
73		<max_results>5</max_results>
	258	<max_results>3</max_results>
74	259	<order>relevance</order>
75	260	<enable_hide_unfetched>true</enable_hide_unfetched>
76	261	<enable_relevance_feedback>false</enable_relevance_feedback>
77	262	</option>
78		<last_index_date>~~2007-11-30~~</last_index_date>
	263	<last_index_date>Thu Jan 17 19:37:26 +0900 2008</last_index_date>
79	264	</query>
80	265	<results>
…	…
82	267	<rank>1</rank>
83	268	<title>UCSC Genome Browser Home</title>
84		<snippet>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>
85		<meshes>
	269	<snippet>
	270	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...
	271	</snippet>
	272	<mesh_list>
86	273	<mesh>Abnormalities, Multiple</mesh>
87	274	<mesh>Carbamoyl-Phosphate Synthase I Deficiency Disease</mesh>
…	…
112	299	<mesh>Software</mesh>
113	300	<mesh>Zebrafish</mesh>
114		</meshes>
	301	</mesh_list>
115	302	<url>http://genome.ucsc.edu/</url>
116	303	<pages>
117		<google>http://www.google.com/search?hl=en&amp;q=link%3ahttp%3A%2F%2Fgenome.ucsc.edu%2F&amp;btnG=Google+Search</google>
118		<altavista>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>
	304	<google>
	305	http://www.google.com/search?hl=en&q=link%3ahttp%3A%2F%2Fgenome.ucsc.edu%2F&btnG=Google+Search
	306	</google>
	307	<altavista>
	308	http://www.altavista.com/web/results?itag=ody&q=link:http%3A%2F%2Fgenome.ucsc.edu%2F&kgs=0&kls=1
	309	</altavista>
119	310	</pages>
120	311	<papers>
121		<bio_med_central>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>
122		<scirus>http://www.scirus.com/srsapp/search?q=genome.ucsc.edu%2F&amp;ds=jnl&amp;g=s&amp;t=all</scirus>
123		<high_wire_press>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>
124		<google_scholar>http://scholar.google.com/scholar?hl=en&amp;lr=&amp;q=genome.ucsc.edu%2F&amp;btnG=Search</google_scholar>
	312	<bio_med_central>
	313	http://www.biomedcentral.com/search/results.asp?txtSearch1=genome.ucsc.edu%2F&chkBMCJournals=true&chkCurrentOpinion=true&drpFromDate=&drpToDate=&chkNSP=true&drpAddedInLast=&drpOrderBy=by+date&drpPerPage=20&drpAbstract=no+abstract&strTempString=&strSearchBoxType=bmc_boolean_results&Search.x=10&jou_id=&Search.x=0&Search.y=0&Search=Search
	314	</bio_med_central>
	315	<scirus>
	316	http://www.scirus.com/srsapp/search?q=genome.ucsc.edu%2F&ds=jnl&g=s&t=all
	317	</scirus>
	318	<high_wire_press>
	319	http://highwire.org/cgi/searchresults?fulltext=genome.ucsc.edu%2F&andorexactfulltext=and&author1=&pubdate_year=&volume=&firstpage=&src=hw&searchsubmit=redo&resourcetype=1&search=Search&fmonth=Jan&fyear=1844&tmonth=Dec&tyear=2007&fdatedef=1+January+1844&tdatedef=31+Dec+2007
	320	</high_wire_press>
	321	<google_scholar>
	322	http://scholar.google.com/scholar?hl=en&lr=&q=genome.ucsc.edu%2F&btnG=Search
	323	</google_scholar>
125	324	</papers>
126		<pubmeds>
	325	<pubmed>
127	326	<pmid>16888352</pmid>
128	327	<pmid>16381938</pmid>
…	…
140	339	<pmid>15608236</pmid>
141	340	<pmid>16888346</pmid>
142		</pubmeds>
	341	</pubmed>
143	342	</result>
144	343	<result>
145	344	<rank>2</rank>
146	345	<title>UCSC Genome Browser Home</title>
147		<snippet>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>
148		<meshes>
	346	<snippet>
	347	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...
	348	</snippet>
	349	<mesh_list>
149	350	<mesh>Chromosome Mapping</mesh>
150	351	<mesh>Databases, Genetic</mesh>
…	…
156	357	<mesh>Software</mesh>
157	358	<mesh>User-Computer Interface</mesh>
158		</meshes>
	359	</mesh_list>
159	360	<url>http://www.genome.ucsc.edu/</url>
160	361	<pages>
161		<google>http://www.google.com/search?hl=en&amp;q=link%3ahttp%3A%2F%2Fwww.genome.ucsc.edu%2F&amp;btnG=Google+Search</google>
162		<altavista>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>
	362	<google>
	363	http://www.google.com/search?hl=en&q=link%3ahttp%3A%2F%2Fwww.genome.ucsc.edu%2F&btnG=Google+Search
	364	</google>
	365	<altavista>
	366	http://www.altavista.com/web/results?itag=ody&q=link:http%3A%2F%2Fwww.genome.ucsc.edu%2F&kgs=0&kls=1
	367	</altavista>
163	368	</pages>
164	369	<papers>
165		<bio_med_central>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>
166		<scirus>http://www.scirus.com/srsapp/search?q=www.genome.ucsc.edu%2F&amp;ds=jnl&amp;g=s&amp;t=all</scirus>
167		<high_wire_press>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>
168		<google_scholar>http://scholar.google.com/scholar?hl=en&amp;lr=&amp;q=www.genome.ucsc.edu%2F&amp;btnG=Search</google_scholar>
	370	<bio_med_central>
	371	http://www.biomedcentral.com/search/results.asp?txtSearch1=www.genome.ucsc.edu%2F&chkBMCJournals=true&chkCurrentOpinion=true&drpFromDate=&drpToDate=&chkNSP=true&drpAddedInLast=&drpOrderBy=by+date&drpPerPage=20&drpAbstract=no+abstract&strTempString=&strSearchBoxType=bmc_boolean_results&Search.x=10&jou_id=&Search.x=0&Search.y=0&Search=Search
	372	</bio_med_central>
	373	<scirus>
	374	http://www.scirus.com/srsapp/search?q=www.genome.ucsc.edu%2F&ds=jnl&g=s&t=all
	375	</scirus>
	376	<high_wire_press>
	377	http://highwire.org/cgi/searchresults?fulltext=www.genome.ucsc.edu%2F&andorexactfulltext=and&author1=&pubdate_year=&volume=&firstpage=&src=hw&searchsubmit=redo&resourcetype=1&search=Search&fmonth=Jan&fyear=1844&tmonth=Dec&tyear=2007&fdatedef=1+January+1844&tdatedef=31+Dec+2007
	378	</high_wire_press>
	379	<google_scholar>
	380	http://scholar.google.com/scholar?hl=en&lr=&q=www.genome.ucsc.edu%2F&btnG=Search
	381	</google_scholar>
169	382	</papers>
170		<pubmeds>
	383	<pubmed>
171	384	<pmid>14681485</pmid>
172	385	<pmid>16108715</pmid>
173		</pubmeds>
	386	</pubmed>
174	387	</result>
175	388	<result>
176	389	<rank>3</rank>
177	390	<title>UCSC Genome Browser Home</title>
178		<snippet>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>
179		<meshes>
	391	<snippet>
	392	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...
	393	</snippet>
	394	<mesh_list>
180	395	<mesh>Computational Biology</mesh>
181	396	<mesh>Genomics</mesh>
182	397	<mesh>Isochores</mesh>
183	398	<mesh>Software</mesh>
184		</meshes>
	399	</mesh_list>
185	400	<url>http://genome.cse.ucsc.edu/</url>
186	401	<pages>
187		<google>http://www.google.com/search?hl=en&amp;q=link%3ahttp%3A%2F%2Fgenome.cse.ucsc.edu%2F&amp;btnG=Google+Search</google>
188		<altavista>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>
	402	<google>
	403	http://www.google.com/search?hl=en&q=link%3ahttp%3A%2F%2Fgenome.cse.ucsc.edu%2F&btnG=Google+Search
	404	</google>
	405	<altavista>
	406	http://www.altavista.com/web/results?itag=ody&q=link:http%3A%2F%2Fgenome.cse.ucsc.edu%2F&kgs=0&kls=1
	407	</altavista>
189	408	</pages>
190	409	<papers>
191		<bio_med_central>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>
192		<scirus>http://www.scirus.com/srsapp/search?q=genome.cse.ucsc.edu%2F&amp;ds=jnl&amp;g=s&amp;t=all</scirus>
193		<high_wire_press>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>
194		<google_scholar>http://scholar.google.com/scholar?hl=en&amp;lr=&amp;q=genome.cse.ucsc.edu%2F&amp;btnG=Search</google_scholar>
	410	<bio_med_central>
	411	http://www.biomedcentral.com/search/results.asp?txtSearch1=genome.cse.ucsc.edu%2F&chkBMCJournals=true&chkCurrentOpinion=true&drpFromDate=&drpToDate=&chkNSP=true&drpAddedInLast=&drpOrderBy=by+date&drpPerPage=20&drpAbstract=no+abstract&strTempString=&strSearchBoxType=bmc_boolean_results&Search.x=10&jou_id=&Search.x=0&Search.y=0&Search=Search
	412	</bio_med_central>
	413	<scirus>
	414	http://www.scirus.com/srsapp/search?q=genome.cse.ucsc.edu%2F&ds=jnl&g=s&t=all
	415	</scirus>
	416	<high_wire_press>
	417	http://highwire.org/cgi/searchresults?fulltext=genome.cse.ucsc.edu%2F&andorexactfulltext=and&author1=&pubdate_year=&volume=&firstpage=&src=hw&searchsubmit=redo&resourcetype=1&search=Search&fmonth=Jan&fyear=1844&tmonth=Dec&tyear=2007&fdatedef=1+January+1844&tdatedef=31+Dec+2007
	418	</high_wire_press>
	419	<google_scholar>
	420	http://scholar.google.com/scholar?hl=en&lr=&q=genome.cse.ucsc.edu%2F&btnG=Search
	421	</google_scholar>
195	422	</papers>
196		<pubmeds>
	423	<pubmed>
197	424	<pmid>15215396</pmid>
198		</pubmeds>
199		</result>
200		<result>
201		<rank>4</rank>
202		<title>Ensembl Genome Browser</title>
203		<snippet>...http : //www . ensembl . org/ ) project provides a comprehensive and integrated source of annotation of chordate <strong>genome</strong> sequences . Over the past year the number of <strong>genomes</strong> available from Ensembl has increased from 15 to 33 , with the addition of sites for...Ensembl has increased from 15 to 33 , with the addition of sites for the mammalian <strong>genomes</strong> of elephant , rabbit , armadillo , tenrec , platypus , pig , cat , bush baby , common shrew , microbat and european...</snippet>
204		<meshes>
205		<mesh>ADP-Ribosylation Factors</mesh>
206		<mesh>Abnormalities, Multiple</mesh>
207		<mesh>Alternative Splicing</mesh>
208		<mesh>Automation</mesh>
209		<mesh>Carbamoyl-Phosphate Synthase I Deficiency Disease</mesh>
210		<mesh>Cardiomyopathy, Dilated</mesh>
211		<mesh>Chickens</mesh>
212		<mesh>Chromosome Deletion</mesh>
213		<mesh>Chromosome Mapping</mesh>
214		<mesh>Chromosomes, Human, Pair 2</mesh>
215		<mesh>Computational Biology</mesh>
216		<mesh>DNA Primers</mesh>
217		<mesh>Database Management Systems</mesh>
218		<mesh>Databases, Factual</mesh>
219		<mesh>Databases, Genetic</mesh>
220		<mesh>Databases, Nucleic Acid</mesh>
221		<mesh>Dog Diseases</mesh>
222		<mesh>Exons</mesh>
223		<mesh>Expressed Sequence Tags</mesh>
224		<mesh>GTP Phosphohydrolases</mesh>
225		<mesh>Genes</mesh>
226		<mesh>Genetic Techniques</mesh>
227		<mesh>Genome</mesh>
228		<mesh>Genome, Human</mesh>
229		<mesh>Genomics</mesh>
230		<mesh>Glycosyltransferases</mesh>
231		<mesh>Information Dissemination</mesh>
232		<mesh>Information Storage and Retrieval</mesh>
233		<mesh>Internet</mesh>
234		<mesh>Membrane Proteins</mesh>
235		<mesh>Microsatellite Repeats</mesh>
236		<mesh>Models, Biological</mesh>
237		<mesh>Nucleic Acid Hybridization</mesh>
238		<mesh>Oligonucleotide Array Sequence Analysis</mesh>
239		<mesh>Polymorphism, Single Nucleotide</mesh>
240		<mesh>Promoter Regions (Genetics)</mesh>
241		<mesh>Quantitative Trait Loci</mesh>
242		<mesh>Regulatory Sequences, Nucleic Acid</mesh>
243		<mesh>Sarcoglycans</mesh>
244		<mesh>Software</mesh>
245		<mesh>Systems Biology</mesh>
246		<mesh>Zebrafish</mesh>
247		<mesh>Zebrafish Proteins</mesh>
248		</meshes>
249		<url>http://www.ensembl.org/index.html</url>
250		<pages>
251		<google>http://www.google.com/search?hl=en&amp;q=link%3ahttp%3A%2F%2Fwww.ensembl.org%2Findex.html&amp;btnG=Google+Search</google>
252		<altavista>http://www.altavista.com/web/results?itag=ody&amp;q=link:http%3A%2F%2Fwww.ensembl.org%2Findex.html&amp;kgs=0&amp;kls=1</altavista>
253		</pages>
254		<papers>
255		<bio_med_central>http://www.biomedcentral.com/search/results.asp?txtSearch1=www.ensembl.org%2Findex.html&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>
256		<scirus>http://www.scirus.com/srsapp/search?q=www.ensembl.org%2Findex.html&amp;ds=jnl&amp;g=s&amp;t=all</scirus>
257		<high_wire_press>http://highwire.org/cgi/searchresults?fulltext=www.ensembl.org%2Findex.html&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>
258		<google_scholar>http://scholar.google.com/scholar?hl=en&amp;lr=&amp;q=www.ensembl.org%2Findex.html&amp;btnG=Search</google_scholar>
259		</papers>
260		<pubmeds>
261		<pmid>16381931</pmid>
262		<pmid>15189572</pmid>
263		<pmid>12385995</pmid>
264		<pmid>11890680</pmid>
265		<pmid>15216554</pmid>
266		<pmid>16103655</pmid>
267		<pmid>14681459</pmid>
268		<pmid>15123595</pmid>
269		<pmid>15608235</pmid>
270		<pmid>12519943</pmid>
271		<pmid>15078858</pmid>
272		<pmid>15123591</pmid>
273		<pmid>11752248</pmid>
274		<pmid>17148474</pmid>
275		<pmid>17537812</pmid>
276		<pmid>16888346</pmid>
277		<pmid>15123590</pmid>
278		<pmid>16610137</pmid>
279		<pmid>16729214</pmid>
280		</pubmeds>
281		</result>
282		<result>
283		<rank>5</rank>
284		<title>BGI Rise Rice Genome Database</title>
285		<snippet>A <strong>Genome</strong>-wide Microsatellite Polymorphism Database for the Indica and Japonica Rice . Microsatellite ( MS ) polymorphism is an...from IRGSP and genetic markers from RGP . Based on genetic marker positions on the rice <strong>genome</strong> ( http : //rise . <strong>genomics</strong> . org . cn/rice2/index . jsp ) , we determined the approximate genetic distances of these MS loci...</snippet>
286		<meshes>
287		<mesh>DNA, Plant</mesh>
288		<mesh>Databases, Genetic</mesh>
289		<mesh>Genome, Plant</mesh>
290		<mesh>Genomics</mesh>
291		<mesh>Microsatellite Repeats</mesh>
292		<mesh>Oryza sativa</mesh>
293		<mesh>Polymorphism, Genetic</mesh>
294		</meshes>
295		<url>http://rise.genomics.org.cn/rice/index2.jsp</url>
296		<pages>
297		<google>http://www.google.com/search?hl=en&amp;q=link%3ahttp%3A%2F%2Frise.genomics.org.cn%2Frice%2Findex2.jsp&amp;btnG=Google+Search</google>
298		<altavista>http://www.altavista.com/web/results?itag=ody&amp;q=link:http%3A%2F%2Frise.genomics.org.cn%2Frice%2Findex2.jsp&amp;kgs=0&amp;kls=1</altavista>
299		</pages>
300		<papers>
301		<bio_med_central>http://www.biomedcentral.com/search/results.asp?txtSearch1=rise.genomics.org.cn%2Frice%2Findex2.jsp&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>
302		<scirus>http://www.scirus.com/srsapp/search?q=rise.genomics.org.cn%2Frice%2Findex2.jsp&amp;ds=jnl&amp;g=s&amp;t=all</scirus>
303		<high_wire_press>http://highwire.org/cgi/searchresults?fulltext=rise.genomics.org.cn%2Frice%2Findex2.jsp&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>
304		<google_scholar>http://scholar.google.com/scholar?hl=en&amp;lr=&amp;q=rise.genomics.org.cn%2Frice%2Findex2.jsp&amp;btnG=Search</google_scholar>
305		</papers>
306		<pubmeds>
307		<pmid>14681438</pmid>
308		<pmid>17452422</pmid>
309		</pubmeds>
	425	</pubmed>
310	426	</result>
311	427	</results>