CFN model Defines rejection regions based on low probability of observing the data patterns. Focusses on regions of pattern count space (for four taxa) in which the parsimony score of the best tree is at least $r$ steps better than the next best tree. Table 2 (page 277) shows the critical value of $r$ needed to assure various alpha values. For alpha= 0.05 you have the depressing: N r 3 2 4 3 10 5 15 7 20 9 30 13 40 15 notes that prob conflicting synapomorphy can be as high as 1/4 (and as high as the probability of the true synapomorphy). He notes that this test is not "locally most powerful" nor unbiased. Points out that you can estimate the tree if you don't know the number of constant characters (p278).
", "tags": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "K5T5SN38", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/K5T5SN38", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/K5T5SN38", "type": "text/html" }, "up": { "href": "https://api.zotero.org/groups/160887/items/FD55FVSC", "type": "application/json" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "numChildren": 0 }, "data": { "key": "K5T5SN38", "version": 2, "parentItem": "FD55FVSC", "itemType": "note", "note": "pp229-235 Introduces the use of the "one-tailed, Wilcoxon matched pairs, signed rank test (Seigel, 1956)" commonly referred to as the Templeton test in the phylogenetic context.
", "tags": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "NEK33B78", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/NEK33B78", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/NEK33B78", "type": "text/html" }, "up": { "href": "https://api.zotero.org/groups/160887/items/I4MGJMCU", "type": "application/json" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "numChildren": 0 }, "data": { "key": "NEK33B78", "version": 2, "parentItem": "I4MGJMCU", "itemType": "note", "note": "recommend SH variants as conservative and robust, but AU when the size of candidate set is large. Contrast AU versus parametric bootstrapping as a difference in null (lfc of any point in the method partition vs any point on the model manifold). Contrast AU and SH as whether the lfc is the worst-case position in the null region, as opposed to the point in the null region that is closest to the data.
", "tags": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "U79SJQCN", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/U79SJQCN", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/U79SJQCN", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Sanjuan and Wrobel", "parsedDate": "2005-04", "numChildren": 0 }, "data": { "key": "U79SJQCN", "version": 2, "itemType": "journalArticle", "title": "Weighted Least-Squares Likelihood Ratio Test for Branch Testing in Phylogenies Reconstructed from Distance Measures", "creators": [ { "creatorType": "author", "firstName": "Rafael", "lastName": "Sanjuan" }, { "creatorType": "author", "firstName": "Borys", "lastName": "Wrobel" } ], "abstractNote": "", "publicationTitle": "Systematic Biology", "publisher": "", "place": "", "date": "April 2005", "volume": "54", "issue": "2", "section": "", "partNumber": "", "partTitle": "", "pages": "218–229", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "10.1080/10635150590923308", "citationKey": "", "url": "http://sysbio.oxfordjournals.org/cgi/content/full/54/2/218", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "R4A9UBHB", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/R4A9UBHB", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/R4A9UBHB", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Carpenter", "parsedDate": "1996-06", "numChildren": 0 }, "data": { "key": "R4A9UBHB", "version": 2, "itemType": "journalArticle", "title": "UNINFORMATIVE BOOTSTRAPPING", "creators": [ { "creatorType": "author", "firstName": "James M", "lastName": "Carpenter" } ], "abstractNote": "", "publicationTitle": "Cladistics", "publisher": "", "place": "", "date": "June 1996", "volume": "12", "issue": "2", "section": "", "partNumber": "", "partTitle": "", "pages": "177–181", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "98EPF5IP", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/98EPF5IP", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/98EPF5IP", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "PLANET", "parsedDate": "2006-02", "numChildren": 0 }, "data": { "key": "98EPF5IP", "version": 2, "itemType": "journalArticle", "title": "Tree disagreement: Measuring and testing incongruence in phylogenies", "creators": [ { "creatorType": "author", "firstName": "P", "lastName": "PLANET" } ], "abstractNote": "", "publicationTitle": "Journal of Biomedical Informatics", "publisher": "", "place": "", "date": "February 2006", "volume": "39", "issue": "1", "section": "", "partNumber": "", "partTitle": "", "pages": "86–102", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "MSI7TRJH", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/MSI7TRJH", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/MSI7TRJH", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Efron and Tibshirani", "parsedDate": "1998", "numChildren": 0 }, "data": { "key": "MSI7TRJH", "version": 2, "itemType": "journalArticle", "title": "The problem of regions", "creators": [ { "creatorType": "author", "firstName": "Bradley", "lastName": "Efron" }, { "creatorType": "author", "firstName": "R", "lastName": "Tibshirani" } ], "abstractNote": "", "publicationTitle": "", "publisher": "", "place": "", "date": "1998", "volume": "", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "P55T25MJ", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/P55T25MJ", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/P55T25MJ", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Shimodaira", "parsedDate": "2008-05", "numChildren": 0 }, "data": { "key": "P55T25MJ", "version": 2, "itemType": "journalArticle", "title": "Testing regions with nonsmooth boundaries via multiscale bootstrap", "creators": [ { "creatorType": "author", "firstName": "H", "lastName": "Shimodaira" } ], "abstractNote": "", "publicationTitle": "Journal of Statistical Planning and Inference", "publisher": "", "place": "", "date": "May 2008", "volume": "138", "issue": "5", "section": "", "partNumber": "", "partTitle": "", "pages": "1227–1241", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "VMTCJ3D5", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/VMTCJ3D5", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/VMTCJ3D5", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Cavender", "parsedDate": "1978", "numChildren": 1 }, "data": { "key": "VMTCJ3D5", "version": 2, "itemType": "journalArticle", "title": "Taxonomy with confidence", "creators": [ { "creatorType": "author", "firstName": "J A", "lastName": "Cavender" } ], "abstractNote": "", "publicationTitle": "Mathematical Biosciences", "publisher": "", "place": "", "date": "1978", "volume": "40", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "271–280", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "BVCE6BZG", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/BVCE6BZG", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/BVCE6BZG", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Gaut and Lewis", "parsedDate": "1995", "numChildren": 0 }, "data": { "key": "BVCE6BZG", "version": 2, "itemType": "journalArticle", "title": "Success of maximum likelihood phylogeny inference in the four-taxon case", "creators": [ { "creatorType": "author", "firstName": "B", "lastName": "Gaut" }, { "creatorType": "author", "firstName": "P O", "lastName": "Lewis" } ], "abstractNote": "", "publicationTitle": "Molecular Biology and Evolution", "publisher": "", "place": "", "date": "1995", "volume": "12", "issue": "1", "section": "", "partNumber": "", "partTitle": "", "pages": "152–162", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "82XQDS6H", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/82XQDS6H", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/82XQDS6H", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Goldman", "parsedDate": "1993", "numChildren": 0 }, "data": { "key": "82XQDS6H", "version": 2, "itemType": "journalArticle", "title": "Statistical tests of models of {DNA} substitution", "creators": [ { "creatorType": "author", "firstName": "Nick", "lastName": "Goldman" } ], "abstractNote": "", "publicationTitle": "Journal of Molecular Evolution", "publisher": "", "place": "", "date": "1993", "volume": "36", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "182–198", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "RRU8KJZB", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/RRU8KJZB", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/RRU8KJZB", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Wrobel", "parsedDate": "2008-03", "numChildren": 0 }, "data": { "key": "RRU8KJZB", "version": 2, "itemType": "journalArticle", "title": "Statistical measures of uncertainty for branches in phylogenetic trees inferred from molecular sequences by using model-based methods", "creators": [ { "creatorType": "author", "firstName": "Borys", "lastName": "Wrobel" } ], "abstractNote": "", "publicationTitle": "Journal of Applied Genetics", "publisher": "", "place": "", "date": "March 2008", "volume": "49", "issue": "1", "section": "", "partNumber": "", "partTitle": "", "pages": "49–67", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "FAVGG9M3", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/FAVGG9M3", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/FAVGG9M3", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Holmes", "parsedDate": "2007-03", "numChildren": 0 }, "data": { "key": "FAVGG9M3", "version": 2, "itemType": "journalArticle", "title": "STATISTICAL APPROACH TO TESTS INVOLVING PHYLOGENIES", "creators": [ { "creatorType": "author", "firstName": "Susan", "lastName": "Holmes" } ], "abstractNote": "", "publicationTitle": "Mathematics of Evolution and Phylogeny", "publisher": "", "place": "", "date": "March 2007", "volume": "", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "6KGE4XPM", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/6KGE4XPM", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/6KGE4XPM", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Swofford et al.", "parsedDate": "1996", "numChildren": 0 }, "data": { "key": "6KGE4XPM", "version": 2, "itemType": "bookSection", "title": "Phylogenetic Inference", "creators": [ { "creatorType": "author", "firstName": "David L", "lastName": "Swofford" }, { "creatorType": "author", "firstName": "Gary J", "lastName": "Olsen" }, { "creatorType": "author", "firstName": "Peter J", "lastName": "Waddell" }, { "creatorType": "author", "firstName": "David M", "lastName": "Hillis" }, { "creatorType": "editor", "firstName": "David M", "lastName": "Hillis" }, { "creatorType": "editor", "firstName": "Craig", "lastName": "Moritz" }, { "creatorType": "editor", "firstName": "Barbara K", "lastName": "Mable" } ], "abstractNote": "", "bookTitle": "Molecular Systematics", "series": "", "seriesNumber": "", "volume": "", "numberOfVolumes": "", "edition": "", "date": "1996", "publisher": "Sinauer Associates", "place": "Sunderland, MA", "originalDate": "", "originalPublisher": "", "originalPlace": "", "format": "", "pages": "407–514", "ISBN": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "BZ7USN4D", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/BZ7USN4D", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/BZ7USN4D", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Minin et al.", "parsedDate": "2003-10", "numChildren": 0 }, "data": { "key": "BZ7USN4D", "version": 2, "itemType": "journalArticle", "title": "Performance-Based Selection of Likelihood Models for Phylogeny Estimation", "creators": [ { "creatorType": "author", "firstName": "Vladimir", "lastName": "Minin" }, { "creatorType": "author", "firstName": "Zaid", "lastName": "Abdo" }, { "creatorType": "author", "firstName": "Paul", "lastName": "Joyce" }, { "creatorType": "author", "firstName": "Jack", "lastName": "Sullivan" } ], "abstractNote": "Phylogenetic estimation has largely come to rely on explicitly model-based methods. This approach requires that a model be chosen and that that choice be justified. To date, justification has largely been accomplished through use of likelihood-ratio tests (LRTs) to assess the relative fit of a nested series of reversible models. While this approach certainly represents an important advance over arbitrary model selection, the best fit of a series of models may not always provide the most reliable phylogenetic estimates for finite real data sets, where all available models are surely incorrect. Here, we develop a novel approach to model selection, which is based on the Bayesian information criterion, but incorporates relative branch-length error as a performance measure in a decision theory (DT) framework. This DT method includes a penalty for overfitting, is applicable prior to running extensive analyses, and simultaneously compares all models being considered and thus does not rely on a series of pairwise comparisons of models to traverse model space. We evaluate this method by examining four real data sets and by using those data sets to define simulation conditions. In the real data sets, the DT method selects the same or simpler models than conventional LRTs. In order to lend generality to the simulations, codon-based models (with parameters estimated from the real data sets) were used to generate simulated data sets, which are therefore more complex than any of the models we evaluate. On average, the DT method selects models that are simpler than those chosen by conventional LRTs. Nevertheless, these simpler models provide estimates of branch lengths that are more accurate both in terms of relative error and absolute error than those derived using the more complex (yet still wrong) models chosen by conventional LRTs. This method is available in a program called DT-ModSel.", "publicationTitle": "Systematic Biology", "publisher": "", "place": "", "date": "October 2003", "volume": "52", "issue": "5", "section": "", "partNumber": "", "partTitle": "", "pages": "674–683", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "http://links.jstor.org/sici?sici=1063-5157(200310)52:5<674:PSOLMF>2.0.CO;2-H", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "1063-5157", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [ { "tag": "Bayesian Model Selection" }, { "tag": "Decision Theory" }, { "tag": "Incorrect Models" }, { "tag": "Likelihood Ratio Test" }, { "tag": "Nucleotide-Substitution Model" }, { "tag": "maximum likelihood" }, { "tag": "phylogeny" } ], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "WCUUZ45R", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/WCUUZ45R", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/WCUUZ45R", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Berry and Gascuel", "parsedDate": "1996-01", "numChildren": 0 }, "data": { "key": "WCUUZ45R", "version": 2, "itemType": "journalArticle", "title": "On the Interpretation of Bootstrap Trees: Appropriate Threshold of Clade Selection and Induced Gain", "creators": [ { "creatorType": "author", "firstName": "V", "lastName": "Berry" }, { "creatorType": "author", "firstName": "O", "lastName": "Gascuel" } ], "abstractNote": "ISSN: 0737-4038 On the Interpretation of Bootstrap Trees: Appropriate Threshold of Clade Selection and Induced Gain. Vincent and Olivier", "publicationTitle": "Molecular Biology and Evolution", "publisher": "", "place": "", "date": "January 1996", "volume": "13", "issue": "7", "section": "", "partNumber": "", "partTitle": "", "pages": "999–1011", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "http://mbe.oxfordjournals.org/cgi/content/abstract/13/7/999", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "SCQR77TR", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/SCQR77TR", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/SCQR77TR", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Susko", "parsedDate": "2008-08", "numChildren": 0 }, "data": { "key": "SCQR77TR", "version": 2, "itemType": "journalArticle", "title": "On the Distributions of Bootstrap Support and Posterior Distributions for a Star Tree", "creators": [ { "creatorType": "author", "firstName": "Edward", "lastName": "Susko" } ], "abstractNote": "", "publicationTitle": "Systematic Biology", "publisher": "", "place": "", "date": "August 2008", "volume": "57", "issue": "4", "section": "", "partNumber": "", "partTitle": "", "pages": "602", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "NZQD2AXT", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/NZQD2AXT", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/NZQD2AXT", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Sanderson", "parsedDate": "1995", "numChildren": 1 }, "data": { "key": "NZQD2AXT", "version": 2, "itemType": "journalArticle", "title": "Objections to bootstrapping phylogenies: a critique", "creators": [ { "creatorType": "author", "firstName": "M J", "lastName": "Sanderson" } ], "abstractNote": "Despite widespread use, the bootstrap remains a controversial method for assessing confidence limits in phylogenies. Opposition to its use has centered on a small set of basic philosophical. and statistical objections that have largely gone unanswered by advocates of statistical approaches to phylogeny reconstruction. The level of generality of these objections varies greatly, however. Some of the objections are merely technical, involving problems that are found in almost all statistical tests, such as bias in small data sets. Other objections are really associated not so much with a rejection of the bootstrap but with the rejection of statistical methods in phylogeny reconstruction, which resurrects an old debate. The most relevant aspects of this debate revolve around the issue of whether or not an unknown parameter, such as a tree, can have probabilities (confidence limits) associated with it. The relevant statistical aspects are reviewed, but because this issue remains controversial within statistical theory, it is unreasonable to expect it to be anything else in phylogenetic systematics. An area of common ground between statistical and nonstatistical approaches emerges in the use of statistical likelihood as a measure of support for phylogenetic hypotheses. This common ground requires the abandonment of classical notions of confidence limits by statistically oriented systematists and the acceptance of probabilistic models and likelihood by opponents of statistical methods. There remains a small set of objections directly germane to bootstrapping phylogenies per se. These objections involve issues of random sampling and whether or not character data are independent and identically distributed (IID). Nonrandom-sample bootstrapping is discussed, as are sample designs that impose the IID assumption on characters regardless of evolutionary nonindependence and nonidentical distribution of those data. Systematists wishing to use the bootstrap have an alternative to making explicit and rather strong evolutionary assumptions; they can consider the issue of character sampling designs much more carefully.", "publicationTitle": "Systematic Biology", "publisher": "", "place": "", "date": "1995", "volume": "44", "issue": "3", "section": "", "partNumber": "", "partTitle": "", "pages": "299–320", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "http://sysbio.oxfordjournals.org/cgi/content/abstract/44/3/299", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "10635157", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "X6HEUFH5", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/X6HEUFH5", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/X6HEUFH5", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Posada and Crandall", "parsedDate": "1998", "numChildren": 0 }, "data": { "key": "X6HEUFH5", "version": 2, "itemType": "journalArticle", "title": "Modeltest: testing the model of {DNA} substitution", "creators": [ { "creatorType": "author", "firstName": "D", "lastName": "Posada" }, { "creatorType": "author", "firstName": "K A", "lastName": "Crandall" } ], "abstractNote": "", "publicationTitle": "Bioinformatics", "publisher": "", "place": "", "date": "1998", "volume": "14", "issue": "9", "section": "", "partNumber": "", "partTitle": "", "pages": "817–818", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "F9ADWEZD", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/F9ADWEZD", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/F9ADWEZD", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Yang et al.", "parsedDate": "1995-01", "numChildren": 0 }, "data": { "key": "F9ADWEZD", "version": 2, "itemType": "journalArticle", "title": "Maximum likelihood trees from DNA sequences: a peculiar statistical estimation problem", "creators": [ { "creatorType": "author", "firstName": "Z", "lastName": "Yang" }, { "creatorType": "author", "firstName": "N", "lastName": "Goldman" }, { "creatorType": "author", "firstName": "A", "lastName": "Friday" } ], "abstractNote": "Maximum Likelihood Trees from DNA Sequences: A Statistical Estimation Problem. Ziheng . Nick . Adrian . Systematic Biology, Vol. 44, No", "publicationTitle": "Syst. Biol", "publisher": "", "place": "", "date": "January 1995", "volume": "", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "http://links.jstor.org/sici?sici=1063-5157(199509)44:3<384:MLTFDS>2.0.CO;2-Y", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "UTEF2VBF", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/UTEF2VBF", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/UTEF2VBF", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Sitnikova et al.", "parsedDate": "1995-03", "numChildren": 0 }, "data": { "key": "UTEF2VBF", "version": 2, "itemType": "journalArticle", "title": "Interior-branch and bootstrap tests of phylogenetic trees.", "creators": [ { "creatorType": "author", "firstName": "T", "lastName": "Sitnikova" }, { "creatorType": "author", "firstName": "A", "lastName": "Rzhetsky" }, { "creatorType": "author", "firstName": "M", "lastName": "Nei" } ], "abstractNote": "", "publicationTitle": "Molecular Biology and Evolution", "publisher": "", "place": "", "date": "March 1995", "volume": "12", "issue": "2", "section": "", "partNumber": "", "partTitle": "", "pages": "319–333", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "63RCNPN5", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/63RCNPN5", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/63RCNPN5", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Billera et al.", "parsedDate": "2001", "numChildren": 0 }, "data": { "key": "63RCNPN5", "version": 2, "itemType": "journalArticle", "title": "Geometry of the Space of Phylogenetic Trees", "creators": [ { "creatorType": "author", "firstName": "Louis J", "lastName": "Billera" }, { "creatorType": "author", "firstName": "Susan P", "lastName": "Holmes" }, { "creatorType": "author", "firstName": "Karen", "lastName": "Vogtmann" } ], "abstractNote": "", "publicationTitle": "Advances in Applied Mathematics", "publisher": "", "place": "", "date": "2001", "volume": "27", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "733–767", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "TA54DUEZ", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/TA54DUEZ", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/TA54DUEZ", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Svennblad et al.", "parsedDate": "2006", "numChildren": 0 }, "data": { "key": "TA54DUEZ", "version": 2, "itemType": "journalArticle", "title": "Fundamental Differences Between the Methods of Maximum Likelihood and Maximum Posterior Probability in Phylogenetics", "creators": [ { "creatorType": "author", "firstName": "Bodil", "lastName": "Svennblad" }, { "creatorType": "author", "firstName": "Per", "lastName": "Erixson" }, { "creatorType": "author", "firstName": "Bengt", "lastName": "Oxelman" }, { "creatorType": "author", "firstName": "Tom", "lastName": "Britton" } ], "abstractNote": "", "publicationTitle": "Systematic Biology", "publisher": "", "place": "", "date": "2006", "volume": "55", "issue": "1", "section": "", "partNumber": "", "partTitle": "", "pages": "116–121", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "RECFGWKS", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/RECFGWKS", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/RECFGWKS", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Huelsenbeck and Rannala", "parsedDate": "2004-12", "numChildren": 0 }, "data": { "key": "RECFGWKS", "version": 2, "itemType": "journalArticle", "title": "Frequentist Properties of Bayesian Posterior Probabilities of Phylogenetic Trees Under Simple and Complex Substitution Models", "creators": [ { "creatorType": "author", "firstName": "John P", "lastName": "Huelsenbeck" }, { "creatorType": "author", "firstName": "Bruce", "lastName": "Rannala" } ], "abstractNote": "", "publicationTitle": "Systematic Biology", "publisher": "", "place": "", "date": "December 2004", "volume": "53", "issue": "6", "section": "", "partNumber": "", "partTitle": "", "pages": "904–913", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } }, { "key": "SD8KE4VR", "version": 2, "library": { "type": "group", "id": 160887, "name": "confidence statements on phylogenies", "links": { "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies", "type": "text/html" } } }, "links": { "self": { "href": "https://api.zotero.org/groups/160887/items/SD8KE4VR", "type": "application/json" }, "alternate": { "href": "https://www.zotero.org/groups/confidence_statements_on_phylogenies/items/SD8KE4VR", "type": "text/html" } }, "meta": { "createdByUser": { "id": 1274657, "username": "Mark T Holder", "name": "Mark T. Holder", "links": { "alternate": { "href": "https://www.zotero.org/mark_t_holder", "type": "text/html" } } }, "creatorSummary": "Huelsenbeck and Rannala", "parsedDate": "2004", "numChildren": 0 }, "data": { "key": "SD8KE4VR", "version": 2, "itemType": "journalArticle", "title": "Frequentist properties of {B}ayesian posterior probabilities of phylogenetic trees under simple and complex substitution models", "creators": [ { "creatorType": "author", "firstName": "John P", "lastName": "Huelsenbeck" }, { "creatorType": "author", "firstName": "Bruce", "lastName": "Rannala" } ], "abstractNote": "", "publicationTitle": "Systematic Biology", "publisher": "", "place": "", "date": "2004", "volume": "53", "issue": "", "section": "", "partNumber": "", "partTitle": "", "pages": "904–913", "series": "", "seriesTitle": "", "seriesText": "", "journalAbbreviation": "", "DOI": "", "citationKey": "", "url": "", "accessDate": "", "PMID": "", "PMCID": "", "ISSN": "", "archive": "", "archiveLocation": "", "shortTitle": "", "language": "", "libraryCatalog": "", "callNumber": "", "rights": "", "extra": "", "tags": [], "collections": [], "relations": {}, "dateAdded": "2013-04-12T18:04:41Z", "dateModified": "2013-04-12T18:04:41Z" } } ]