{"id":"https://openalex.org/W2051922690","doi":"https://doi.org/10.1186/1471-2105-10-327","title":"VANLO - Interactive visual exploration of aligned biological networks","display_name":"VANLO - Interactive visual exploration of aligned biological networks","publication_year":2009,"publication_date":"2009-10-12","ids":{"openalex":"https://openalex.org/W2051922690","doi":"https://doi.org/10.1186/1471-2105-10-327","mag":"2051922690","pmid":"https://pubmed.ncbi.nlm.nih.gov/19821976"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-10-327","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-327","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-327","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-327","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5010899610","display_name":"Steffen Brasch","orcid":null},"institutions":[{"id":"https://openalex.org/I36522303","display_name":"Universit\u00e4t Greifswald","ror":"https://ror.org/00r1edq15","country_code":"DE","type":"education","lineage":["https://openalex.org/I36522303"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Steffen Brasch","raw_affiliation_strings":["1Department of Mathematics and Computer Science, Ernst-Moritz-Arndt-University, Greifswald, Germany. sbrasch@uni-greifswald.de","Department of Mathematics and Computer Science, Ernst-Moritz-Arndt-University, Greifswald, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1Department of Mathematics and Computer Science, Ernst-Moritz-Arndt-University, Greifswald, Germany. sbrasch@uni-greifswald.de","institution_ids":["https://openalex.org/I36522303"]},{"raw_affiliation_string":"Department of Mathematics and Computer Science, Ernst-Moritz-Arndt-University, Greifswald, Germany","institution_ids":["https://openalex.org/I36522303"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027852213","display_name":"Lars Linsen","orcid":"https://orcid.org/0000-0002-6168-8748"},"institutions":[{"id":"https://openalex.org/I193619901","display_name":"Constructor University","ror":"https://ror.org/02yrs2n53","country_code":"DE","type":"education","lineage":["https://openalex.org/I193619901"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Lars Linsen","raw_affiliation_strings":["School of Engineering and Science, Jacobs University, Bremen, Germany","School of Engineering and Science Jacobs University Bremen Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Engineering and Science, Jacobs University, Bremen, Germany","institution_ids":["https://openalex.org/I193619901"]},{"raw_affiliation_string":"School of Engineering and Science Jacobs University Bremen Germany","institution_ids":["https://openalex.org/I193619901"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089023752","display_name":"Georg Fuellen","orcid":"https://orcid.org/0000-0002-4994-9829"},"institutions":[{"id":"https://openalex.org/I4665924","display_name":"University of Rostock","ror":"https://ror.org/03zdwsf69","country_code":"DE","type":"education","lineage":["https://openalex.org/I4665924"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Georg Fuellen","raw_affiliation_strings":["Institute for Biostatistics and Informatics in Medicine and Ageing Research, University Rostock, Germany","Institute for Biostatistics and Informatics in Medicine and Ageing Research, University Rostock, , Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Biostatistics and Informatics in Medicine and Ageing Research, University Rostock, Germany","institution_ids":["https://openalex.org/I4665924"]},{"raw_affiliation_string":"Institute for Biostatistics and Informatics in Medicine and Ageing Research, University Rostock, , Germany","institution_ids":["https://openalex.org/I4665924"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5089023752"],"corresponding_institution_ids":["https://openalex.org/I4665924"],"apc_list":{"value":2990,"currency":"USD","value_usd":2990},"apc_paid":{"value":2990,"currency":"USD","value_usd":2990},"fwci":1.627,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.86124884,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"10","issue":"1","first_page":"327","last_page":"327"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10799","display_name":"Data Visualization and Analytics","score":0.5534999966621399,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10799","display_name":"Data Visualization and Analytics","score":0.5534999966621399,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.29589998722076416,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12536","display_name":"Topological and Geometric Data Analysis","score":0.03139999881386757,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5439257025718689},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5002939701080322},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.49863553047180176},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4580577313899994},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.3753350079059601},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.34840109944343567},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.26849257946014404},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.10764181613922119},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.0671689510345459}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5439257025718689},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5002939701080322},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.49863553047180176},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4580577313899994},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.3753350079059601},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.34840109944343567},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.26849257946014404},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10764181613922119},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0671689510345459},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-10-327","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-327","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-327","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:19821976","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19821976","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC bioinformatics","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2766391","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2766391","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:33952c4538434936b7cdfefa49d248fd","is_oa":false,"landing_page_url":"https://doaj.org/article/33952c4538434936b7cdfefa49d248fd","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 10, Iss 1, p 327 (2009)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-10-327","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-327","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-327","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2051922690.pdf","grobid_xml":"https://content.openalex.org/works/W2051922690.grobid-xml"},"referenced_works_count":57,"referenced_works":["https://openalex.org/W1479959009","https://openalex.org/W1503013560","https://openalex.org/W1508416409","https://openalex.org/W1524145331","https://openalex.org/W1526644211","https://openalex.org/W1584092895","https://openalex.org/W1668625893","https://openalex.org/W1946371345","https://openalex.org/W1978920477","https://openalex.org/W1984220047","https://openalex.org/W1984249061","https://openalex.org/W1991210531","https://openalex.org/W1992709202","https://openalex.org/W1993384523","https://openalex.org/W2013378906","https://openalex.org/W2017248899","https://openalex.org/W2021053884","https://openalex.org/W2023208820","https://openalex.org/W2026790375","https://openalex.org/W2060399360","https://openalex.org/W2075220720","https://openalex.org/W2091931698","https://openalex.org/W2096525273","https://openalex.org/W2105031386","https://openalex.org/W2106202847","https://openalex.org/W2111022820","https://openalex.org/W2111244106","https://openalex.org/W2114713612","https://openalex.org/W2119485467","https://openalex.org/W2123280311","https://openalex.org/W2125901667","https://openalex.org/W2130863229","https://openalex.org/W2135805255","https://openalex.org/W2136316164","https://openalex.org/W2140412523","https://openalex.org/W2146463336","https://openalex.org/W2147468287","https://openalex.org/W2148395543","https://openalex.org/W2150681269","https://openalex.org/W2151875636","https://openalex.org/W2159482845","https://openalex.org/W2159675211","https://openalex.org/W2161133721","https://openalex.org/W2163485494","https://openalex.org/W2166468869","https://openalex.org/W2167222948","https://openalex.org/W2167482691","https://openalex.org/W2256067809","https://openalex.org/W2793841049","https://openalex.org/W2916288174","https://openalex.org/W3022927153","https://openalex.org/W3022981850","https://openalex.org/W4207034695","https://openalex.org/W4239678514","https://openalex.org/W4240948429","https://openalex.org/W4255855797","https://openalex.org/W4294216483"],"related_works":["https://openalex.org/W2415545834","https://openalex.org/W2069695727","https://openalex.org/W1802639773","https://openalex.org/W2118505788","https://openalex.org/W3128853513","https://openalex.org/W4254166511","https://openalex.org/W2150084125","https://openalex.org/W1542823905","https://openalex.org/W1490878237","https://openalex.org/W2990314835"],"abstract_inverted_index":{"BACKGROUND:":[0],"Protein-protein":[1],"interaction":[2,20,203],"(PPI)":[3],"is":[4],"fundamental":[5],"to":[6,62,99,114,171,191,205,211,242,252,258],"many":[7],"biological":[8,15,56,86,233],"processes.":[9],"In":[10,97,189],"the":[11,38,43,53,73,101,110,131,134,167,175,184,193,207,229,254],"course":[12],"of":[13,26,52,55,123,133,158,222,231,266],"evolution,":[14],"networks":[16,21,25,60,87,112,161,225],"such":[17,58],"as":[18,147,149],"protein-protein":[19],"have":[22,61],"developed.":[23],"Biological":[24],"different":[27,202],"species":[28],"can":[29,66,249,272],"be":[30,63,250,273],"aligned":[31,59,85,119,160,223],"by":[32,117,239],"finding":[33],"instances":[34],"(e.g.":[35],"proteins)":[36],"with":[37,169,209,256,269],"same":[39],"common":[40],"ancestor":[41],"in":[42,71,88,126,138,187,195],"evolutionary":[44],"process,":[45],"so-called":[46],"orthologs.":[47],"For":[48],"a":[49,68,80,139,156,196],"better":[50],"understanding":[51,221],"evolution":[54],"networks,":[57,181],"explored.":[64],"Visualization":[65],"play":[67],"key":[69,232,260],"role":[70],"making":[72],"various":[74],"relationships":[75],"transparent.":[76],"RESULTS:":[77],"We":[78,129,235],"present":[79],"novel":[81],"visualization":[82],"system":[83,216,238,248],"for":[84],"3D":[89],"space":[90],"that":[91,142],"naturally":[92],"embeds":[93],"existing":[94],"2D":[95],"layouts.":[96],"addition":[98,190],"displaying":[100,183],"intra-network":[102,150],"connectivities,":[103],"we":[104,199],"also":[105,200],"provide":[106,201],"insight":[107],"into":[108,144,162,179],"how":[109,246],"individual":[111,180],"relate":[113],"each":[115,124],"other":[116,125],"placing":[118],"entities":[120],"on":[121],"top":[122],"separate":[127],"layers.":[128,188],"optimize":[130],"layout":[132,153],"entire":[135],"alignment":[136,186],"graph":[137,168,177],"global":[140,220],"fashion":[141],"takes":[143],"account":[145],"inter-":[146],"well":[148],"relationships.":[151],"The":[152],"algorithm":[154],"includes":[155],"step":[157],"merging":[159],"one":[163],"graph,":[164],"laying":[165],"out":[166],"respect":[170,210,257],"application-specific":[172,212],"requirements,":[173],"splitting":[174],"merged":[176],"again":[178],"and":[182,226],"network":[185],"representing":[192],"data":[194,208,255],"static":[197],"way,":[198],"techniques":[204],"explore":[206],"tasks.":[213],"CONCLUSION:":[214],"Our":[215,262],"provides":[217],"an":[218],"intuitive":[219],"PPI":[224],"it":[227,241],"allows":[228],"investigation":[230],"questions.":[234,261],"evaluate":[236],"our":[237,247],"applying":[240],"real-world":[243],"examples":[244],"documenting":[245],"used":[251],"investigate":[253],"these":[259],"tool":[263],"VANLO":[264],"(Visualization":[265],"Aligned":[267],"Networks":[268],"Layout":[270],"Optimization)":[271],"accessed":[274],"at":[275],"http://www.math-inf.uni-greifswald.de/VANLO.":[276]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":2},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":1}],"updated_date":"2026-08-24T07:32:12.397491","created_date":"2025-10-10T00:00:00"}
