Research Topics
| Julian MintserisSummaryAffiliation: Boston University Country: USA Publications
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Detail Information
Publications
Design of a combinatorial DNA microarray for protein-DNA interaction studiesJulian Mintseris
Boston University, Bioinformatics Program, Boston, MA, USA
BMC Bioinformatics 7:429. 2006..Recently, double-stranded protein-binding microarrays were developed as a potentially scalable approach to tackle transcription factor binding site identification...
Optimizing protein representations with information theoryJulian Mintseris
Bioinformatics Program, Boston University, Boston MA 02215, USA
Genome Inform 15:160-9. 2004..Implications for further structural studies are discussed...- Protein-Protein Docking Benchmark 2.0: an updateJulian Mintseris
Boston University Bioinformatics Program, Boston, Massachusetts 02215, USA
Proteins 60:214-6. 2005..The new benchmark provides a platform for evaluating the progress of docking methods on a wide variety of targets. The new version of the benchmark is available to the public at http://zlab.bu.edu/benchmark2... - The performance of ZDOCK and ZRANK in rounds 6-11 of CAPRIKevin Wiehe
Bioinformatics Program, Boston University, Boston, Massachusetts 02215, USA
Proteins 69:719-25. 2007..Here we outline a practical and successful docking strategy, given limited prior biological knowledge of the complex to be predicted... - ZDOCK and RDOCK performance in CAPRI rounds 3, 4, and 5Kevin Wiehe
Bioinformatics Program, Boston University, Boston, Massachusetts 02215, USA
Proteins 60:207-13. 2005..These results are evidence that ZDOCK in combination with RDOCK is capable of making accurate predictions on a diverse set of protein complexes... - Protein-protein docking: overview and performance analysisKevin Wiehe
Bioinformatics Program, Boston University, Boston, MA, USA
Methods Mol Biol 413:283-314. 2008..Finally, we perform regression analysis to better understand the strengths and weaknesses of ZDOCK and to suggest areas of future development for protein-docking algorithms in general... - Integrating statistical pair potentials into protein complex predictionJulian Mintseris
Bioinformatics Program, Boston University, Massachusetts 02215, USA
Proteins 69:511-20. 2007..Furthermore, we show that the new potential performs well on antibody-antigen complexes, with most predictions clustering around the Complementarity Determining Regions of antibodies without any manual intervention... - A protein-protein docking benchmarkRong Chen
Bioinformatics Program, Boston University, Boston, Massachusetts 02215, USA
Proteins 52:88-91. 2003..The benchmark is available at (http://zlab.bu.edu/~rong/dock/benchmark.shtml)... - Protein-protein docking benchmark version 3.0Howook Hwang
Bioinformatics Program, Boston University, Boston, Massachusetts 02215, USA
Proteins 73:705-9. 2008..0 will facilitate the development of new algorithms that require a large number of training examples. Benchmark 3.0 is available to the public at http://zlab.bu.edu/benchmark... - A protein complex network of Drosophila melanogasterK G Guruharsha
Department of Cell Biology, Harvard Medical School, Boston, MA 02115, USA
Cell 147:690-703. 2011..The DPiM represents, to our knowledge, the largest metazoan protein complex map and provides a valuable resource for analysis of protein complex evolution... - ZDOCK predictions for the CAPRI challengeRong Chen
Bioinformatics Program, Boston University, Boston, Massachusetts 02215, USA
Proteins 52:68-73. 2003..Implications of the treatment of prior biological information as well as contributions of manual inspection to docking predictions are also discussed... - Structure, function, and evolution of transient and obligate protein-protein interactionsJulian Mintseris
Bioinformatics Program and Biomedical Engineering Department, Boston University, Boston, MA 02215, USA
Proc Natl Acad Sci U S A 102:10930-5. 2005..In contrast, the plasticity inherent in transient interactions leads to an increased rate of substitution for the interface residues and leaves little or no evidence of correlated mutations across the interface... - Photoreactive stapled BH3 peptides to dissect the BCL-2 family interactomeCraig R Braun
Department of Pediatric Oncology, Dana Farber Cancer Institute and Children s Hospital Boston, Harvard Medical School, Boston, MA 02115, USA
Chem Biol 17:1325-33. 2010..The crosslinking α helices covalently trap both static and dynamic protein interactors, and enable rapid identification of interaction sites, providing a critical link between interactome discovery and targeted drug design... - Atomic contact vectors in protein-protein recognitionJulian Mintseris
Bioinformatics Program, Boston University, Boston, Massachusetts 02215, USA
Proteins 53:629-39. 2003..With this method, we arrive at a nonredundant set of 209 recognition complexes--the largest set reported so far... - Drosophila protein interaction map (DPiM): a paradigm for metazoan protein complex interactionsK G Guruharsha
Department of Cell Biology Harvard Medical School, Boston, MA, USA
Fly (Austin) 6:246-53. 2012..We also discuss recent technological advancements that will be critical in addressing the next generation of questions arising from the map... - Phosphoproteome analysis of Drosophila melanogaster embryosBo Zhai
Department of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115, USA
J Proteome Res 7:1675-82. 2008..63% at the peptide level. Because of the large size of the data set, both novel and known phosphorylation motifs were extracted using the Motif-X algorithm, including those representative of potential ordered phosphorylation events... - 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... - Are protein-protein interfaces more conserved in sequence than the rest of the protein surface?Daniel R Caffrey
Pfizer Discovery Technology Center, Cambridge, Massachusetts 02139, USA
Protein Sci 13:190-202. 2004....