Research Topics
| Joe MellorSummaryAffiliation: Boston University Country: USA Publications
| Collaborators
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Detail Information
Publications
Comparative assessment of performance and genome dependence among phylogenetic profiling methodsEvan S Snitkin
Bioinformatics Graduate Program, Boston University, Boston, USA
BMC Bioinformatics 7:420. 2006..Here we explore the application of phylogenetic profiling, a method that exploits the evolutionary co-occurrence of genes in the assignment of functional linkages, to eukaryotic genomes...- VisANT: an online visualization and analysis tool for biological interaction dataZhenjun Hu
Bioinformatics Program, Boston University, Boston, MA 02215, USA
BMC Bioinformatics 5:17. 2004..This networked view of biology brings the potential for systematic understanding of living molecular systems... - The interaction map of yeast: terra incognita?Joe Mellor
Program in Bioinformatics, 24 Cummington Street, Boston University, Boston, MA 02215, USA
J Biol 5:10. 2006..This new resource augments current views of the topological structure of yeast's physical and genetic networks, but also reveals that existing studies cover only a fraction of the cell... - Constructing networks with correlation maximization methodsJoseph C Mellor
Program in Bioinformatics, Boston University
Genome Inform 15:149-59. 2004..We show how statistical strength and information are equivalent criteria in limiting cases, and demonstrate the application of these measures to simple systems of gene regulation... - An equilibrium partitioning model connecting gene expression and cis-motif contentJoe Mellor
Program in Bioinformatics, Boston University, Boston, Massachusetts 02215, USA
Bioinformatics 22:e368-74. 2006..These findings suggest that motif sequences of transcription factor binding sites may often be linked with the expression state of corresponding DNA-binding proteins... - VisANT 3.0: new modules for pathway visualization, editing, prediction and constructionZhenjun Hu
Center for Advanced Genomic Technology, Boston University, Boston, MA 02215, USA
Nucleic Acids Res 35:W625-32. 2007..Pathways in the format of VisML can be securely shared within an interested group or published online using a simple Web link. VisANT is freely available at http://visant.bu.edu... - Towards zoomable multidimensional maps of the cellZhenjun Hu
Program in Bioinformatics and Department of Biomedical Engineering, Boston University, Boston, Massachusetts 02215, USA
Nat Biotechnol 25:547-54. 2007.... - Identifying functional links between genes using conserved chromosomal proximityItai Yanai
Bioinformatics Graduate Program and Dept of Biomedical Engineering, Boston University, Boston, MA 02215, USA
Trends Genet 18:176-9. 2002..Of the pairs annotated in the KEGG database, 80% are in the same biological pathway in KEGG... - Deciphering protein network organization using phylogenetic profile groupsJie Wu
Department of Biomedical Engineering, Boston University, 24 Cummington St Boston, MA 02215, USA
Genome Inform 16:142-9. 2005..Our method is extendable to N-component clusters, and therefore serves as a general tool for high order protein function annotation... - Predictome: a database of putative functional links between proteinsJoseph C Mellor
Bioinformatics Graduate Program and Department of Biomedical Engineering, Boston University, Boston, MA 02215, USA
Nucleic Acids Res 30:306-9. 2002..As a repository for such data, Predictome is an ongoing resource for the community, providing functional relationships among proteins as new genomic data emerges. Predictome is available at http://predictome.bu.edu... - VisANT: data-integrating visual framework for biological networks and modulesZhenjun Hu
Program in Bioinformatics and Systems Biology, Boston University, 44 Cummington Street, Boston, MA 02215, USA
Nucleic Acids Res 33:W352-7. 2005..VisANT is distributed freely via the web at http://visant.bu.edu and can also be downloaded for individual use... - Genome-wide functional analysis of human 5' untranslated region intronsCan Cenik
Harvard Medical School, Department of Biological Chemistry and Molecular Pharmacology, 250 Longwood Avenue, SGMB 322, Boston, MA 02115, USA
Genome Biol 11:R29. 2010..Despite their presumed impact on gene regulation, the evolution and possible functions of 5'UTR introns remain largely unexplored...