Scientific/Peer-Reviewed
Click here for a complete list of scientific publications. Note that journal subscriptions are required to access some of these articles.
2011
Cao Q, Zhou M, Wang X, Meyer CA, Zhang Y, Chen Z, Li C, Liu XS
CaSNP: a database for interrogating copy number alterations of cancer genome from SNP array data. Nucl Acids Res. 2011;39 (suppl 1):D968-D974.
Edmonson MN, Zhang J, Yan C, Finney RP, Meerzaman D, Buetow KH
Bambino: a variant detector and alignment viewer for next-generation sequencing data in the SAM/BAM format. Bioinformatics. 2011 Mar 15;27(6):865-6. Epub 2011 Jan 28.
Foran Dj, Chen W, Hu J, Goodell LA, Reiss M, Wang F, Kurc T, Pan T, Sharma A, Saltz, JH
ImageMiner: a software system for comparative analysis of tissue microarrays using content-based image retrieval, high-performance computing, and grid technology. JAMIA. 2011;18(4):403-415.
Hesse BW, Croyle RT, Buetow KH
Cyberinfrastructure and the biomedical sciences.Am J Prev Med. 2011;40(5 Suppl 2):S97-S102.
Zimmerman SL, Kim W, Boonn WW
Informatics in radiology: automated structured reporting of imaging using the AIM standard and XML.Radiographics. 2011 May-Jun;31(3):881-7. Epub 2011 Feb 25.
2010
Abernethy AP, Etheredge LM, Ganz PA, Wallace P, German RR, Neti C, Bach PB, Murphy SB
Rapid-learning system for cancer care. JCO. 2010;28(27):4268-4274
Balter JM, Haffty BG, Siegel EL
Imaging Opportunities in Radiation Oncology. Int J Radiat Oncol Biol Phys. 2011 Feb 1;79(2):342-7. Epub 2010 Aug 26
Basso K, Saito M, Sumazin P, Margolin AA, Wang K, Lim WK, Kitagawa Y, Schneider C, Alvarez MJ, Califano A, Dalla-Favera R
Integrated biochemical and computational approach identifies BCL6 direct target genes controlling multiple pathways in normal germinal center B cells. Blood. 2010;115(5):975-984.
Carro MS, Lim WK, Alvarez MJ, Bollo RJ, Zhao X, Snyder EY, Sulman EP, Anne AL, Doetsch F, Colman H, Lasorella A, Aldape K, Califano A, Iavarone A
The transcriptional network for mesenchymal transformation of brain tumors. Nature. 2010;463:318-325.
Cooper L, Kong J, Gutman D, Wang F, Cholleti S, Pan T, Widener P, Sharma A, Mikkelsen T, Flanders A, Rubin D, Van Meir E, Kurc T, Moreno D, Brat D, Saltz J
An integrative.approach for in silico glioma research. IEEE Trans Biomed Eng. 2010 Oct;57(10):2617-21. Epub 2010 Jul 23.
El-Ghatta SB, Cladé T, Snyder JC
Integrating clinical trial imaging data resources using service-oriented architecture and grid computing. Neuroinformatics. 2010 Dec;8(4):251-9.
Hesse BW, C Hanna, Massett HA, Hesse NK
Outside the box: will information technology be a viable intervention to improve the quality of cancer care? JNCI Monogr. 2010;40:81-89
Lefebvre C, Rajbhandari P, Alvarez MJ, Bandaru P, Lim WK, Sato M, Wang K, Sumazin P, Kustagi M, Bisikirska BC, Basso K, Beltrao P, Krogan N, Gautier J, Dalla-Favera R, Califano
A human B-cell interactome identifies MYB and FOXM1 as master regulators of proliferation in germinal centers. Molecular Systems Biology. 2010;6:377
2009
VirtualPACS-a federating gateway to access remote image data resources over the grid.
Journal of Digital Imaging. 2009;22:1-10
PID: the Pathway Interaction Database.
Nucleic Acids Research. 2009:37(Database issue):D74-79
Deletion of IKZF1 and prognosis in acute lymphoblastic leukemia.
New England Journal of Medicine. 2009:360:470-480.
Rembrandt: helping personalized medicine become a reality through integrative translational research.
Molecular Cancer Research. 2009;7:157-167
2008
The cancer translational research informatics platform.
BMC Medical Informatics and Decision Making. 2008;8:60.
Comprehensive genomic characterization defines human glioblastoma genes and core pathways.
Nature. 2008;455:1061-1068.
Towards a data sharing culture: recommendations for leadership from academic health centers.
PLoS Medicine. 2008;5:e183
National Mesothelioma Virtual Bank: a standard based [sic] biospecimen and clinical data resource to enhance translational research.
BMC Cancer. 2008;8:236.
The Mouse Tumor Biology database.
Nature Reviews Cancer. 2008;8:459-465
caCORE version 3: implementation of a model driven, service-oriented architecture for semantic interoperability.
Journal of Biomedical Informatics. 2008;41:106-23.
