Charles Delisi

Summary

Affiliation: Boston University
Country: USA

Publications

  1. doi request reprint Meetings that changed the world: Santa Fe 1986: Human genome baby-steps
    Charles Delisi
    Boston University, USA
    Nature 455:876-7. 2008
  2. pmc VisANT 3.0: new modules for pathway visualization, editing, prediction and construction
    Zhenjun Hu
    Center for Advanced Genomic Technology, Boston University, Boston, MA 02215, USA
    Nucleic Acids Res 35:W625-32. 2007
  3. pmc Identification and characterization of renal cell carcinoma gene markers
    Gul S Dalgin
    Molecular Biology, Cell Biology and Biochemistry Program, Boston University, Boston, MA 02215, USA
    Cancer Inform 3:65-92. 2007
  4. pmc VisANT: data-integrating visual framework for biological networks and modules
    Zhenjun Hu
    Program in Bioinformatics and Systems Biology, Boston University, 44 Cummington Street, Boston, MA 02215, USA
    Nucleic Acids Res 33:W352-7. 2005
  5. pmc Positional clustering improves computational binding site detection and identifies novel cis-regulatory sites in mammalian GABAA receptor subunit genes
    Timothy E Reddy
    Bioinformatics Program, Boston University, 24 Cummington Street, Boston, MA 02215, USA
    Nucleic Acids Res 35:e20. 2007
  6. pmc Systems biology, the second time around
    Charles Delisi
    Environ Health Perspect 112:A926-7. 2004
  7. pmc Phenotypic connections in surprising places
    Bolan Linghu
    Translational Sciences Department, Novartis Institutes for BioMedical Research, Cambridge, MA 02139, USA
    Genome Biol 11:116. 2010
  8. ncbi request reprint Integrating genomic data to predict transcription factor binding
    Dustin T Holloway
    Molecular Biology Cell Biology and Biochemistry, Boston University, Boston, MA 02215, USA
    Genome Inform 16:83-94. 2005
  9. pmc VisANT: an online visualization and analysis tool for biological interaction data
    Zhenjun Hu
    Bioinformatics Program, Boston University, Boston, MA 02215, USA
    BMC Bioinformatics 5:17. 2004
  10. ncbi request reprint High expression of lymphocyte-associated genes in node-negative HER2+ breast cancers correlates with lower recurrence rates
    Gabriela Alexe
    The Broad Institute of the Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA
    Cancer Res 67:10669-76. 2007

Research Grants

Collaborators

Detail Information

Publications65

  1. doi request reprint Meetings that changed the world: Santa Fe 1986: Human genome baby-steps
    Charles Delisi
    Boston University, USA
    Nature 455:876-7. 2008
  2. pmc VisANT 3.0: new modules for pathway visualization, editing, prediction and construction
    Zhenjun 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...
  3. pmc Identification and characterization of renal cell carcinoma gene markers
    Gul S Dalgin
    Molecular Biology, Cell Biology and Biochemistry Program, Boston University, Boston, MA 02215, USA
    Cancer Inform 3:65-92. 2007
    ..These include the oncogenes JAZF1, AXL, ABL2; tumor suppressors RASD1, PTPRO, TFAP2A, CDKN1C; and genes involved in proteolysis or cell-adhesion such as WASF2, and PAPPA...
  4. pmc VisANT: data-integrating visual framework for biological networks and modules
    Zhenjun 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...
  5. pmc Positional clustering improves computational binding site detection and identifies novel cis-regulatory sites in mammalian GABAA receptor subunit genes
    Timothy E Reddy
    Bioinformatics Program, Boston University, 24 Cummington Street, Boston, MA 02215, USA
    Nucleic Acids Res 35:e20. 2007
    ..In particular, predicted regulatory mechanisms in the mammalian GABA(A)R subunit gene family may open new avenues of research towards understanding this pharmacologically important neurotransmitter receptor system...
  6. pmc Systems biology, the second time around
    Charles Delisi
    Environ Health Perspect 112:A926-7. 2004
  7. pmc Phenotypic connections in surprising places
    Bolan Linghu
    Translational Sciences Department, Novartis Institutes for BioMedical Research, Cambridge, MA 02139, USA
    Genome Biol 11:116. 2010
    ..Surprising correlations between human disease phenotypes are emerging. Recent work now reveals startling phenotype connections between species, which could provide new disease models...
  8. ncbi request reprint Integrating genomic data to predict transcription factor binding
    Dustin T Holloway
    Molecular Biology Cell Biology and Biochemistry, Boston University, Boston, MA 02215, USA
    Genome Inform 16:83-94. 2005
    ..On average, a support vector machine can classify binding sites with high sensitivity and an accuracy of almost 80%...
  9. pmc VisANT: an online visualization and analysis tool for biological interaction data
    Zhenjun 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...
  10. ncbi request reprint High expression of lymphocyte-associated genes in node-negative HER2+ breast cancers correlates with lower recurrence rates
    Gabriela Alexe
    The Broad Institute of the Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA
    Cancer Res 67:10669-76. 2007
    ..These data suggest that early-stage HER2+ cancers associated with lymphocytic infiltration are a biologically distinct subtype with an improved natural history...
  11. ncbi request reprint Towards zoomable multidimensional maps of the cell
    Zhenjun Hu
    Program in Bioinformatics and Department of Biomedical Engineering, Boston University, Boston, Massachusetts 02215, USA
    Nat Biotechnol 25:547-54. 2007
    ....
  12. pmc High-precision high-coverage functional inference from integrated data sources
    Bolan Linghu
    Bioinformatics Graduate Program, Boston University, Boston, MA, 02215, USA
    BMC Bioinformatics 9:119. 2008
    ....
  13. pmc Comparative assessment of performance and genome dependence among phylogenetic profiling methods
    Evan 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...
  14. pmc Towards the identification of essential genes using targeted genome sequencing and comparative analysis
    Adam M Gustafson
    Bioinformatics Graduate Program, Boston University, Boston, MA 02215 USA
    BMC Genomics 7:265. 2006
    ....
  15. doi request reprint Analyzing networks with VisANT
    Zhenjun Hu
    Boston University, Boston, Massachusetts, USA
    Curr Protoc Bioinformatics . 2004
    ..g., KEGG/KGML, BioPAX (in progress), GenBank, Gene Ontology. Multiple species are supported to the extent that computed or experimental evidence of interactions or associations are available (i.e., public datasets or Predictome database)...
  16. ncbi request reprint Assessing transcription factor motif drift from noisy decoy sequences
    Timothy E Reddy
    Program in Bioinformatics and Systems Biology, Boston University, Boston, MA 02215, USA
    Genome Inform 16:59-67. 2005
    ..The results presented here could be useful in developing future transcription factor binding site identification algorithms...
  17. ncbi request reprint Deciphering protein network organization using phylogenetic profile groups
    Jie 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...
  18. pmc ELISA: structure-function inferences based on statistically significant and evolutionarily inspired observations
    Boris E Shakhnovich
    Bioinformatics Program, Boston University, Boston, MA, 02215, USA
    BMC Bioinformatics 4:34. 2003
    ..ELISA is the first database with applicability to evolutionary structural genomics explicitly in mind...
  19. pmc Genome-wide prioritization of disease genes and identification of disease-disease associations from an integrated human functional linkage network
    Bolan Linghu
    Bioinformatics Program, Boston University, 24 Cummington Street, Boston, MA 02215, USA
    Genome Biol 10:R91. 2009
    ..Many of these disease-disease associations are supported by epidemiology, but with no previous genetic basis. Such associations can drive novel hypotheses on molecular mechanisms of diseases and therapies...
  20. pmc Binding site graphs: a new graph theoretical framework for prediction of transcription factor binding sites
    Timothy E Reddy
    Program in Bioinformatics and Systems Biology, Boston University, Boston, Massachusetts, United States of America
    PLoS Comput Biol 3:e90. 2007
    ..Finally, we discuss how our algorithm can be used to improve the sensitivity of computational predictions of transcription factor binding specificities...
  21. ncbi request reprint Identification of functional links between genes using phylogenetic profiles
    Jie Wu
    Department of Biomedical Engineering, USA Bioinformatics Graduate Program, Boston University, 44 Cummington St, Boston, MA, 02215, USA
    Bioinformatics 19:1524-30. 2003
    ..Function is then inferred at any desired level of confidence...
  22. ncbi request reprint An equilibrium partitioning model connecting gene expression and cis-motif content
    Joe 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...
  23. pmc Classifying transcription factor targets and discovering relevant biological features
    Dustin T Holloway
    Molecular Biology Cell Biology and Biochemistry Department, Boston University, 5 Cummington Street, Boston, MA, USA
    Biol Direct 3:22. 2008
    ..The classifiers combine 8 genomic datasets covering a broad range of measurements including sequence conservation, sequence overrepresentation, gene expression, and DNA structural properties...
  24. pmc In silico regulatory analysis for exploring human disease progression
    Dustin T Holloway
    Molecular Biology Cell Biology and Biochemistry Department, Boston University, 5 Cummington Street, Boston, USA
    Biol Direct 3:24. 2008
    ..Three types of sequence information are used: composition, conservation, and overrepresentation...
  25. pmc Gene annotation and network inference by phylogenetic profiling
    Jie Wu
    Department of Biomedical Engineering, Boston University, Boston, MA 02215, USA
    BMC Bioinformatics 7:80. 2006
    ..Current methods, though useful, perform at a level well below what is possible, largely because performance of the latter deteriorates rapidly as coverage increases...
  26. ncbi request reprint Condition specific transcription factor binding site characterization in Saccharomyces cerevisiae
    Rhonda Harrison
    Bioinformatics Department, Boston University, 44 Cummington Street, Boston, MA 02215, USA
    Bioinformatics 18:1289-96. 2002
    ..The profiles direct us to the intergenic locations likely to contain the promoter regions for a given factor. These sequences are multiply and locally aligned to give an anchor motif from which further characterization can take place...
  27. ncbi request reprint Comparisons of predicted genetic modules: identification of co-expressed genes through module gene flow
    Boris E Shakhnovich
    Boston University Bioinformatics Program, Boston University, Boston, MA 02215, USA
    Genome Inform 15:221-8. 2004
    ..We apply this approach to analyze the flow of genes through modules at different module thresholds of the Barkai Signature method, thereby further resolving the modules into sets of co-expressed genes...
  28. ncbi request reprint Inferring protein-protein interactions in viral proteins by co-evolution of conserved side chains
    Yaoyu E Wang
    Graduate Program in Bioinformatics, Boston University, Boston, MA 02215, USA
    Genome Inform 17:23-35. 2006
    ..The potential significance for antiviral drug and vaccine design is briefly discussed...
  29. pmc VisANT: an integrative framework for networks in systems biology
    Zhenjun Hu
    Bioinformatics Program, Boston University, 24 Cummington Street, Boston, MA 02115, USA
    Brief Bioinform 9:317-25. 2008
    ..bu.edu) which integrates, mines and displays hierarchical information. Challenges to integrating modeling (discrete or continuous) and simulation capabilities into such visual mining software are briefly discussed...
  30. pmc VisANT 3.5: multi-scale network visualization, analysis and inference based on the gene ontology
    Zhenjun Hu
    Center for Advanced Genomic Technology, Program in Bioinformatics, Boston University, Boston, MA 02215, USA
    Nucleic Acids Res 37:W115-21. 2009
    ..Both algorithms take account of network topology (i.e. correlations between genes based on various sources of evidence). VisANT is freely available at http://visant.bu.edu...
  31. pmc TATA binding proteins can recognize nontraditional DNA sequences
    Sunmin Ahn
    Department of Biomedical Engineering, Boston University, Boston, MA, USA
    Biophys J 103:1510-7. 2012
    ....
  32. pmc VisANT 4.0: Integrative network platform to connect genes, drugs, diseases and therapies
    Zhenjun Hu
    Center for Advanced Genomic Technology, Bioinformatics Program, Boston University, Boston, MA 02215, USA
    Nucleic Acids Res 41:W225-31. 2013
    ..VisANT is freely available at: http://visant.bu.edu. ..
  33. pmc Identification of functional modules that correlate with phenotypic difference: the influence of network topology
    Jui Hung Hung
    Bioinformatics Program, Boston University, 24 Cummington Street, Boston, MA 02215, USA
    Genome Biol 11:R23. 2010
    ..We present a method that takes account of such information - expressed in terms of the topology of a correlation network - and we apply the method in the context of current procedures for gene set enrichment analysis...
  34. pmc Using functional signatures to identify repositioned drugs for breast, myelogenous leukemia and prostate cancer
    Daichi Shigemizu
    Bioinformatics Program, Boston University, Boston, Massachusetts, United States of America
    PLoS Comput Biol 8:e1002347. 2012
    ..01. These findings indicate that the method presented here could lead to a substantial increase in efficiency in drug discovery and development, and has potential application for the personalized medicine...
  35. ncbi request reprint ELISA: a unified, multidimensional view of the protein domain universe
    Boris E Shakhnovich
    Bioinformatics Program, Boston University, 44 Cummigton St, Boston MA 02215, USA
    Genome Inform 15:213-20. 2004
    ..This combination of data and tools enables the researcher to design complex queries to carry out research in the areas of protein domain evolution, structure prediction and functional annotation of novel sequences...
  36. pmc Portraits of breast cancer progression
    Gul S Dalgin
    Boston University, Boston, MA 02215, USA
    BMC Bioinformatics 8:291. 2007
    ..In this paper, we describe a new method based on principal component analysis and ensemble consensus clustering that avoids these problems...
  37. pmc Protein structure and evolutionary history determine sequence space topology
    Boris E Shakhnovich
    Bioinformatics Program, Boston University, Boston, Massachusetts 02215, USA
    Genome Res 15:385-92. 2005
    ..e., not only for closely related sequence, but also for less-related fold and superfamily levels of homology...
  38. pmc Combinations of newly confirmed Glioma-Associated loci link regions on chromosomes 1 and 9 to increased disease risk
    Tun Hsiang Yang
    Bioinformatics Program, Boston University, 24 Cummington Street, Boston, MA 02215, USA
    BMC Med Genomics 4:63. 2011
    ..The purpose of this paper is to present an improved approach to biomarker identification...
  39. ncbi request reprint Selecting stable molecular targets for treatment and prevention of AIDS
    Yaoyu E Wang
    Departments of Bioinformatics, Boston University, Boston, MA 02215, USA
    Genome Inform 16:254-61. 2005
    ....
  40. pmc The COMBREX Project: Design, Methodology, and Initial Results
    Brian P Anton
    New England Biolabs, Ipswich, Massachusetts, United States of America
    PLoS Biol 11:e1001638. 2013
    ..This community page discusses the progress made by the COMBREX project to address this important issue using both computational and experimental resources. ..
  41. pmc Pathway-based classification of cancer subtypes
    Shinuk Kim
    Bioinformatics Program, Boston University, Boston, MA 02215, USA
    Biol Direct 7:21. 2012
    ..Such reproducibility will be important for clinical usefulness of genomic markers, and augment currently accepted cancer classification protocols...
  42. ncbi request reprint Functional fingerprints of folds: evidence for correlated structure-function evolution
    Boris E Shakhnovich
    Bioinformatics Program, Boston University, Boston, MA 02215, USA
    J Mol Biol 326:1-9. 2003
    ..These results can be understood in light of a divergent evolution scenario that posits correlated divergence of structural and functional traits in protein domains from one or few progenitors...
  43. doi request reprint Genome-wide association studies
    Tun Hsiang Yang
    College of Engineering, Boston University, Boston, MA, USA
    Methods Mol Biol 939:233-51. 2013
    ....
  44. pmc 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...
  45. doi request reprint Identification of a microRNA panel for clear-cell kidney cancer
    David Juan
    Department of Pathology, Boston University, Boston, Massachusetts 02118, USA
    Urology 75:835-41. 2010
    ..Mounting evidence suggests that microRNAs are key players in essential cellular processes and that their expression pattern can serve as diagnostic biomarkers for cancerous tissues...
  46. pmc The society of genes: networks of functional links between genes from comparative genomics
    Itai Yanai
    Bioinformatics Graduate Program and Department of Biomedical Engineering, Boston University, Boston, MA 02215, USA
    Genome Biol 3:research0064. 2002
    ..We have previously generated the links according to each of these methods individually for 43 known microbial genomes. Here we combine these results to construct networks of functional associations...
  47. doi request reprint Identification of novel epigenetic markers for clear cell renal cell carcinoma
    Gul S Dalgin
    Molecular and Cell Biology and Biochemistry Program, Boston University, Boston, Massachusetts, USA
    J Urol 180:1126-30. 2008
    ..We identified significantly hypermethylated genes in clear cell renal cell carcinoma...
  48. ncbi request reprint Protein therapeutics: promises and challenges for the 21st century
    Zhiping Weng
    Biomedical Engineering Department and Bioinformatics Program, Boston University, Boston MA 02215, USA
    Trends Biotechnol 20:29-35. 2002
    ..Taken collectively, these advances will usher in an era of predictive medicine, which will move medical practice from reactive therapy after disease onset, to proactive prevention...
  49. ncbi request reprint Constructing networks with correlation maximization methods
    Joseph 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...
  50. pmc A computational framework for optimal masking in the synthesis of oligonucleotide microarrays
    Simon Kasif
    Center for Advanced Genomic Technology, Bioinformatics Program and Biomedical Engineering Department, Boston University, Boston, MA 02215, USA
    Nucleic Acids Res 30:e106. 2002
    ..The problem was introduced by Hubbell et al. Here, we formalize the problem, obtain precise bounds on its complexity and devise several computational solutions...
  51. pmc Visualization of Metabolic Interaction Networks in Microbial Communities Using VisANT 5.0
    Brian R Granger
    Bioinformatics Program, Boston University, Boston, Massachusetts, United States of America
    PLoS Comput Biol 12:e1004875. 2016
    ..VisANT is freely available at: http://visant.bu.edu and COMETS at http://comets.bu.edu. ..
  52. pmc Resonant Cavity Imaging: A Means Toward High-Throughput Label-Free Protein Detection
    David A Bergstein
    College of Engineering, Boston University, Boston, MA 02215 USA
    IEEE J Sel Top Quantum Electron 14:131-139. 2008
    ..The average depth of each etched region was found with 0.05 nm rms precision. In a second test, avidin, bound selectively to biotin conjugated bovine serum albumin, was detected...
  53. pmc Evaluation and integration of cancer gene classifiers: identification and ranking of plausible drivers
    Yang Liu
    Bioinformatics Graduate Program, and Department of Biomedical Engineering, Boston University, 24 Cummington Mall, Boston, MA 02215, USA
    Sci Rep 5:10204. 2015
    ..Biological implications are briefly discussed. Source codes and detailed results are available at http://www.visantnet.org/misi/driver_integration.zip. ..
  54. ncbi request reprint Simple discriminant functions identify small sets of genes that distinguish cancer phenotype from normal
    Gul S Dalgin
    Molecular Biology, Cell Biology and Biochemistry Program, Boston University, Boston, MA 02215, USA
    Genome Inform 16:245-53. 2005
    ..Overall, the method generates possible diagnostic genes and gene pairs for a specific disease phenotype to pursue further biological interpretations in cancer biology...
  55. pmc Predictome: a database of putative functional links between proteins
    Joseph 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...
  56. pmc Correlation set analysis: detecting active regulators in disease populations using prior causal knowledge
    Chia Ling Huang
    Bioinformatics Graduate Program, and Department of Biomedical Engineering, Boston University, 44 Cummington Street, Boston, MA 02215, USA
    BMC Bioinformatics 13:46. 2012
    ..These methods necessarily require very large sample sizes or a mix of different data types. Recent studies have shown that prior biological knowledge can successfully boost a method's ability to find regulators...
  57. ncbi request reprint Identifying functional links between genes using conserved chromosomal proximity
    Itai 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...
  58. pmc Mutated Pathways as a Guide to Adjuvant Therapy Treatments for Breast Cancer
    Yang Liu
    Bioinformatics Graduate Program and Department of Biomedical Engineering, Boston University, Boston, Massachusetts
    Mol Cancer Ther 15:184-9. 2016
    ..These results suggest that patient profiling using these pathway groups can potentially enable the development of personalized treatment plans that may be more accurate and specific than those currently available...
  59. pmc COMBREX: a project to accelerate the functional annotation of prokaryotic genomes
    Richard J Roberts
    Bioinformatics Program, Boston University, Boston, MA 02215, USA
    Nucleic Acids Res 39:D11-4. 2011
    ..It consists of a database of functional predictions produced by computational biologists and a mechanism for experimental biochemists to bid for the validation of those predictions. Small grants are available to support successful bids...
  60. pmc Machine learning for regulatory analysis and transcription factor target prediction in yeast
    Dustin T Holloway
    Molecular Biology Cell Biology and Biochemistry, Boston University, Boston, MA, 02215, USA
    Syst Synth Biol 1:25-46. 2007
    ..Since predictions have been made on only 104 TFs in yeast, new classifiers will be built for the remaining 100 factors which have available binding data...
  61. pmc A network based approach to drug repositioning identifies plausible candidates for breast cancer and prostate cancer
    Hsiao Rong Chen
    Bioinformatics Program, College of Engineering, Boston University, Boston, MA, USA
    BMC Med Genomics 9:51. 2016
    ..We report on the development, testing and application of a promising new approach to repositioning...
  62. pmc Label-free microarray imaging for direct detection of DNA hybridization and single-nucleotide mismatches
    Emre Ozkumur
    Department of Electrical and Computer Engineering, Boston University, Boston, MA 02215, USA
    Biosens Bioelectron 25:1789-95. 2010
    ..The presented technique is simple, robust, and accurate, and eliminates the need of using labels or secondary reagents to monitor the oligonucleotide hybridization...
  63. ncbi request reprint Gene expression in lung adenocarcinomas of smokers and nonsmokers
    Charles A Powell
    Department of Medicine, Columbia College of Physicians and Surgeons, New York, New York, USA
    Am J Respir Cell Mol Biol 29:157-62. 2003
    ..Our findings, although limited by small sample size, suggest that additional studies comparing noninvolved to tumor tissue may identify pathogenetic mechanisms and therapeutic targets that differ in AC of smokers and nonsmokers...
  64. ncbi request reprint Breast cancer stratification from analysis of micro-array data of micro-dissected specimens
    Gabriela Alexe
    The Broad Institute of MIT and Harvard, Cambridge MA 02142, USA
    Genome Inform 18:130-40. 2007
    ..The averaging over data perturbations and clustering methods is critical in the robust identification of subtypes and gene markers for grade and progression...
  65. pmc The importance of thermodynamic equilibrium for high throughput gene expression arrays
    Gyan Bhanot
    Institute for Advanced Study, Princeton, New Jersey 08540, USA
    Biophys J 84:124-35. 2003
    ..The result points to an asymmetry in the accuracy with which up- and downregulated genes are identified...

Research Grants4

  1. Development of a peptide array synthesis system
    Charles Delisi; Fiscal Year: 2003
    ..6. Develop in silico methods to effectively select millions of different peptide sequences such that tens of different sequences will bind virtually any protein presented to the array. ..
  2. Computational Methods for Cell Systems Analysis
    Charles Delisi; Fiscal Year: 2004
    ..abstract_text> ..
  3. Doctoral Training in Bioinformatics
    Charles Delisi; Fiscal Year: 2008
    ..unreadable] [unreadable] [unreadable]..
  4. Computational Methods for Transcriptional Mapping of Eukaryotic Genomes
    Charles Delisi; Fiscal Year: 2009
    ..GABA is the major inhibitory neurotransmitter in the central nervous system (CNS), and plays a key role in CNS development and disease. ..