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Items: 1 to 20 of 65


A network based approach to drug repositioning identifies plausible candidates for breast cancer and prostate cancer.

Chen HR, Sherr DH, Hu Z, DeLisi C.

BMC Med Genomics. 2016 Jul 30;9(1):51. doi: 10.1186/s12920-016-0212-7.


Visualization of Metabolic Interaction Networks in Microbial Communities Using VisANT 5.0.

Granger BR, Chang YC, Wang Y, DeLisi C, Segrè D, Hu Z.

PLoS Comput Biol. 2016 Apr 15;12(4):e1004875. doi: 10.1371/journal.pcbi.1004875. eCollection 2016 Apr.


Mutated Pathways as a Guide to Adjuvant Therapy Treatments for Breast Cancer.

Liu Y, Hu Z, DeLisi C.

Mol Cancer Ther. 2016 Jan;15(1):184-9. doi: 10.1158/1535-7163.MCT-15-0601. Epub 2015 Dec 1.


Evaluation and integration of cancer gene classifiers: identification and ranking of plausible drivers.

Liu Y, Tian F, Hu Z, DeLisi C.

Sci Rep. 2015 May 11;5:10204. doi: 10.1038/srep10204.


Igf1 and Pacap rescue cerebellar granule neurons from apoptosis via a common transcriptional program.

Maino B, D'Agata V, Severini C, Ciotti MT, Calissano P, Copani A, Chang YC, DeLisi C, Cavallaro S.

Cell Death Discov. 2015;1. pii: 15029. Epub 2015 Sep 7.


The COMBREX project: design, methodology, and initial results.

Anton BP, Chang YC, Brown P, Choi HP, Faller LL, Guleria J, Hu Z, Klitgord N, Levy-Moonshine A, Maksad A, Mazumdar V, McGettrick M, Osmani L, Pokrzywa R, Rachlin J, Swaminathan R, Allen B, Housman G, Monahan C, Rochussen K, Tao K, Bhagwat AS, Brenner SE, Columbus L, de Crécy-Lagard V, Ferguson D, Fomenkov A, Gadda G, Morgan RD, Osterman AL, Rodionov DA, Rodionova IA, Rudd KE, Söll D, Spain J, Xu SY, Bateman A, Blumenthal RM, Bollinger JM, Chang WS, Ferrer M, Friedberg I, Galperin MY, Gobeill J, Haft D, Hunt J, Karp P, Klimke W, Krebs C, Macelis D, Madupu R, Martin MJ, Miller JH, O'Donovan C, Palsson B, Ruch P, Setterdahl A, Sutton G, Tate J, Yakunin A, Tchigvintsev D, Plata G, Hu J, Greiner R, Horn D, Sjölander K, Salzberg SL, Vitkup D, Letovsky S, Segrè D, DeLisi C, Roberts RJ, Steffen M, Kasif S.

PLoS Biol. 2013;11(8):e1001638. doi: 10.1371/journal.pbio.1001638. Epub 2013 Aug 27. No abstract available.


VisANT 4.0: Integrative network platform to connect genes, drugs, diseases and therapies.

Hu Z, Chang YC, Wang Y, Huang CL, Liu Y, Tian F, Granger B, Delisi C.

Nucleic Acids Res. 2013 Jul;41(Web Server issue):W225-31. doi: 10.1093/nar/gkt401. Epub 2013 May 28.


TATA binding proteins can recognize nontraditional DNA sequences.

Ahn S, Huang CL, Ozkumur E, Zhang X, Chinnala J, Yalcin A, Bandyopadhyay S, Russek S, Unlü MS, DeLisi C, Irani RJ.

Biophys J. 2012 Oct 3;103(7):1510-7. doi: 10.1016/j.bpj.2012.08.030. Epub 2012 Oct 2.


Pathway-based classification of cancer subtypes.

Kim S, Kon M, DeLisi C.

Biol Direct. 2012 Jul 3;7:21. doi: 10.1186/1745-6150-7-21.


Correlation set analysis: detecting active regulators in disease populations using prior causal knowledge.

Huang CL, Lamb J, Chindelevitch L, Kostrowicki J, Guinney J, Delisi C, Ziemek D.

BMC Bioinformatics. 2012 Mar 23;13:46. doi: 10.1186/1471-2105-13-46.


Using functional signatures to identify repositioned drugs for breast, myelogenous leukemia and prostate cancer.

Shigemizu D, Hu Z, Hung JH, Huang CL, Wang Y, DeLisi C.

PLoS Comput Biol. 2012 Feb;8(2):e1002347. doi: 10.1371/journal.pcbi.1002347. Epub 2012 Feb 9.


The NIH National Center for Integrative Biomedical Informatics (NCIBI).

Athey BD, Cavalcoli JD, Jagadish HV, Omenn GS, Mirel B, Kretzler M, Burant C, Isokpehi RD, DeLisi C; NCIBI faculty, trainees, and staff.

J Am Med Inform Assoc. 2012 Mar-Apr;19(2):166-70. doi: 10.1136/amiajnl-2011-000552. Epub 2011 Nov 19.


Gene set enrichment analysis: performance evaluation and usage guidelines.

Hung JH, Yang TH, Hu Z, Weng Z, DeLisi C.

Brief Bioinform. 2012 May;13(3):281-91. doi: 10.1093/bib/bbr049. Epub 2011 Sep 7. Review.


Combinations of newly confirmed Glioma-Associated loci link regions on chromosomes 1 and 9 to increased disease risk.

Yang TH, Kon M, Hung JH, Delisi C.

BMC Med Genomics. 2011 Aug 9;4:63. doi: 10.1186/1755-8794-4-63.


COMBREX: a project to accelerate the functional annotation of prokaryotic genomes.

Roberts RJ, Chang YC, Hu Z, Rachlin JN, Anton BP, Pokrzywa RM, Choi HP, Faller LL, Guleria J, Housman G, Klitgord N, Mazumdar V, McGettrick MG, Osmani L, Swaminathan R, Tao KR, Letovsky S, Vitkup D, Segrè D, Salzberg SL, Delisi C, Steffen M, Kasif S.

Nucleic Acids Res. 2011 Jan;39(Database issue):D11-4. doi: 10.1093/nar/gkq1168. Epub 2010 Nov 21.


Phenotypic connections in surprising places.

Linghu B, DeLisi C.

Genome Biol. 2010;11(4):116. doi: 10.1186/gb-2010-11-4-116. Epub 2010 Apr 28.


Identification of functional modules that correlate with phenotypic difference: the influence of network topology.

Hung JH, Whitfield TW, Yang TH, Hu Z, Weng Z, DeLisi C.

Genome Biol. 2010;11(2):R23. doi: 10.1186/gb-2010-11-2-r23. Epub 2010 Feb 26.


Label-free microarray imaging for direct detection of DNA hybridization and single-nucleotide mismatches.

Ozkumur E, Ahn S, Yalçin A, Lopez CA, Cevik E, Irani RJ, DeLisi C, Chiari M, Unlü MS.

Biosens Bioelectron. 2010 Mar 15;25(7):1789-95. doi: 10.1016/j.bios.2009.12.032. Epub 2010 Jan 4.


Genome-wide prioritization of disease genes and identification of disease-disease associations from an integrated human functional linkage network.

Linghu B, Snitkin ES, Hu Z, Xia Y, Delisi C.

Genome Biol. 2009;10(9):R91. doi: 10.1186/gb-2009-10-9-r91. Epub 2009 Sep 3.


VisANT 3.5: multi-scale network visualization, analysis and inference based on the gene ontology.

Hu Z, Hung JH, Wang Y, Chang YC, Huang CL, Huyck M, DeLisi C.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W115-21. doi: 10.1093/nar/gkp406. Epub 2009 May 21.

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