메뉴 건너뛰기




Volumn 5849 LNCS, Issue , 2010, Pages 244-255

Semi-bipartite graph visualization for gene ontology networks

Author keywords

[No Author keywords available]

Indexed keywords

BIPARTITE GRAPHS; CROSSING NUMBER; EDGE LENGTH; GENE ONTOLOGY; LAYOUT ALGORITHMS; MICROARRAY EXPERIMENTS; REAL-WORLD DATASETS; RUNNING TIME; VISUAL COMPLEXITY; VISUALIZATION PACKAGES;

EID: 77951594175     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/978-3-642-11805-0_24     Document Type: Conference Paper
Times cited : (9)

References (26)
  • 2
    • 0028806048 scopus 로고
    • Quantitative monitoring of gene expression patterns with a complementary dna microarray
    • Schena, M., Shalon, D., Davis, R.W., Brown, P.O.: Quantitative monitoring of gene expression patterns with a complementary dna microarray. Science 270(5235), 467-470 (1995)
    • (1995) Science , vol.270 , Issue.5235 , pp. 467-470
    • Schena, M.1    Shalon, D.2    Davis, R.W.3    Brown, P.O.4
  • 4
    • 24644470505 scopus 로고    scopus 로고
    • Ontological analysis of gene expression data: Current tools, limitations, and open problems
    • DOI 10.1093/bioinformatics/bti565
    • Khatri, P., Draghici, S.: Ontological analysis of gene expression data: current tools, limitations, and open problems. Bioinformatics 21(18), 3587-3595 (2005) (Pubitemid 41264092)
    • (2005) Bioinformatics , vol.21 , Issue.18 , pp. 3587-3595
    • Khatri, P.1    Draghici, S.2
  • 5
    • 24044440971 scopus 로고    scopus 로고
    • BiNGO: A Cytoscape plugin to assess overrepresentation of Gene Ontology categories in Biological Networks
    • DOI 10.1093/bioinformatics/bti551
    • Maere, S., Heymans, K., Kuiper, M.: Bingo: a cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics 21(16), 3448-3449 (2005) (Pubitemid 41222459)
    • (2005) Bioinformatics , vol.21 , Issue.16 , pp. 3448-3449
    • Maere, S.1    Heymans, K.2    Kuiper, M.3
  • 6
    • 13244249628 scopus 로고    scopus 로고
    • Visualization and analysis of microarray and gene ontology data with treemaps
    • DOI 10.1186/1471-2105-5-84
    • Baehrecke, E.H., Dang, N., Babaria, K., Shneiderman, B.: Visualization and analysis of microarray and gene ontology data with treemaps. BMC Bioinformatics 5, 84 (2004) (Pubitemid 40195419)
    • (2004) BMC Bioinformatics , vol.5 , pp. 84
    • Baehrecke, E.H.1    Dang, N.2    Babaria, K.3    Shneiderman, B.4
  • 7
    • 84976715951 scopus 로고
    • Tree visualization with treemaps: A 2d space-filling approach
    • Shneiderman, B.: Tree visualization with treemaps: A 2d space-filling approach. ACM Transactions on Graphics 11(1), 92-99 (1992)
    • (1992) ACM Transactions on Graphics , vol.11 , Issue.1 , pp. 92-99
    • Shneiderman, B.1
  • 8
    • 25444469954 scopus 로고    scopus 로고
    • GObar: A Gene Ontology based analysis and visualization tool for gene sets
    • DOI 10.1186/1471-2105-6-189
    • Lee, J.S.M., Katari, G., Sachidanandam, R.: GObar: A gene ontology based analysis and visualization tool for gene sets. BMC Bioinformatics 6, 189 (2005) (Pubitemid 41372477)
    • (2005) BMC Bioinformatics , vol.6 , pp. 189
    • Lee, J.S.M.1    Katari, G.2    Sachidanandam, R.3
  • 9
    • 0034274870 scopus 로고    scopus 로고
    • An open graph visualization system and its applications to software engineering
    • Gansner, E.R., North, S.C.: An open graph visualization system and its applications to software engineering. Software Practice and Experience 30(11), 1203-1233 (2000)
    • (2000) Software Practice and Experience , vol.30 , Issue.11 , pp. 1203-1233
    • Gansner, E.R.1    North, S.C.2
  • 11
    • 0019530043 scopus 로고
    • METHODS for VISUAL UNDERSTANDING of HIERARCHICAL SYSTEM STRUCTURES
    • Sugiyama, K., Tagawa, S., Toda, M.: Methods for visual understanding of hierarchical system structures. IEEE Transactions on Systems, Man, and Cybernetics 11(2), 109-125 (1981) (Pubitemid 11506064)
    • (1981) IEEE Transactions on Systems, Man and Cybernetics , vol.SMC-11 , Issue.2 , pp. 109-125
    • Sugiyama, K.1    Tagawa, S.2    Toda, M.3
  • 14
    • 2342432868 scopus 로고    scopus 로고
    • Ontologizing gene-expression microarray data: Characterizing clusters with gene oncology
    • DOI 10.1093/bioinformatics/bth040
    • Robinson, P.N., Wollstein, A., Bohme, U., Beattie, B.: Ontologizing gene-expression microarray data: characterizing clusters with gene ontology. Bioinformatics 20(6), 979-981 (2004) (Pubitemid 38559743)
    • (2004) Bioinformatics , vol.20 , Issue.6 , pp. 979-981
    • Robinson, P.N.1    Wollstein, A.2    Bohme, U.3    Beattie, B.4
  • 15
    • 33846107312 scopus 로고    scopus 로고
    • GO PaD: The Gene Ontology partition database
    • DOI 10.1093/nar/gkl799
    • Alterovitz, G., Xiang, M., Mohan, M., Ramoni, M.F.: GO PaD: the gene ontology partition database. Nucleic Acids Research 35, D322-D327 (2007) (Pubitemid 46056224)
    • (2007) Nucleic Acids Research , vol.35 , Issue.SUPPL. 1
    • Alterovitz, G.1    Xiang, M.2    Mohan, M.3    Ramoni, M.F.4
  • 16
    • 0242490780 scopus 로고    scopus 로고
    • Cytoscape: A software Environment for integrated models of biomolecular interaction networks
    • DOI 10.1101/gr.1239303
    • Shannon, P., Markiel, A., Ozier, O., Baliga, N.S., Wang, J.T., Ramage, D., Amin, N., Schwikowski, B., Ideker, T.: Cytoscape: A software environment for integrated models of biomolecular interaction networks. Genome Research 13, 2498-2504 (2003) (Pubitemid 37428274)
    • (2003) Genome Research , vol.13 , Issue.11 , pp. 2498-2504
    • Shannon, P.1    Markiel, A.2    Ozier, O.3    Baliga, N.S.4    Wang, J.T.5    Ramage, D.6    Amin, N.7    Schwikowski, B.8    Ideker, T.9
  • 18
    • 33745642869 scopus 로고    scopus 로고
    • Drawing Graphs, Methods and Models
    • Kaufmann, M., Wagner, D. (eds.): Springer, Heidelberg
    • Kaufmann, M., Wagner, D. (eds.): Drawing Graphs, Methods and Models. LNCS, vol. 2025. Springer, Heidelberg (2001)
    • (2001) LNCS , vol.2025
  • 19
    • 0028419822 scopus 로고
    • Edge crossings in drawings of bipartite graphs
    • Eades, P., Wormald, N.C.: Edge crossings in drawings of bipartite graphs. Algorithmica 11(4), 379-403 (1994)
    • (1994) Algorithmica , vol.11 , Issue.4 , pp. 379-403
    • Eades, P.1    Wormald, N.C.2
  • 21
    • 17444408938 scopus 로고    scopus 로고
    • An improved bound on the one-sided minimum crossing number in two-layered drawings
    • Nagamochi, H.: An improved bound on the one-sided minimum crossing number in two-layered drawings. Discrete & Computational Geometry 33(4), 569-591 (2005)
    • (2005) Discrete & Computational Geometry , vol.33 , Issue.4 , pp. 569-591
    • Nagamochi, H.1
  • 24
    • 70349339927 scopus 로고
    • Linear Programming
    • New York
    • Chvatal, V.: Linear Programming. W.H. Freeman, New York (1983)
    • (1983) W.H. Freeman
    • Chvatal, V.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.