Year |
Citation |
Score |
2021 |
Paull EO, Aytes A, Jones SJ, Subramaniam PS, Giorgi FM, Douglass EF, Tagore S, Chu B, Vasciaveo A, Zheng S, Verhaak R, Abate-Shen C, Alvarez MJ, Califano A. A modular master regulator landscape controls cancer transcriptional identity. Cell. PMID 33434495 DOI: 10.1016/j.cell.2020.11.045 |
0.56 |
|
2020 |
Arumugam K, Shin W, Schiavone V, Vlahos L, Tu X, Carnevali D, Kesner J, Paull EO, Romo N, Subramaniam P, Worley J, Tan X, Califano A, Cosma MP. The Master Regulator Protein BAZ2B Can Reprogram Human Hematopoietic Lineage-Committed Progenitors into a Multipotent State. Cell Reports. 33: 108474. PMID 33296649 DOI: 10.1016/j.celrep.2020.108474 |
0.56 |
|
2020 |
Pan H, Xue C, Auerbach BJ, Fan J, Bashore AC, Cui J, Yang DY, Trignano SB, Liu W, Shi J, Ihuegbu CO, Bush EC, Worley J, Vlahos L, Laise P, ... ... Califano A, et al. Single-Cell Genomics Reveals a Novel Cell State During Smooth Muscle Cell Phenotypic Switching and Potential Therapeutic Targets for Atherosclerosis in Mouse and Human. Circulation. PMID 32962412 DOI: 10.1161/CIRCULATIONAHA.120.048378 |
0.32 |
|
2020 |
Diaz JE, Ahsen ME, Schaffter T, Chen X, Realubit RB, Karan C, Califano A, Losic B, Stolovitzky G. The transcriptomic response of cells to a drug combination is more than the sum of the responses to the monotherapies. Elife. 9. PMID 32945258 DOI: 10.7554/eLife.52707 |
0.32 |
|
2020 |
Broyde J, Simpson DR, Murray D, Paull EO, Chu BW, Tagore S, Jones SJ, Griffin AT, Giorgi FM, Lachmann A, Jackson P, Sweet-Cordero EA, Honig B, Califano A. Oncoprotein-specific molecular interaction maps (SigMaps) for cancer network analyses. Nature Biotechnology. PMID 32929263 DOI: 10.1038/s41587-020-0652-7 |
0.56 |
|
2019 |
Thorsson V, Gibbs DL, Brown SD, Wolf D, Bortone DS, Ou Yang TH, Porta-Pardo E, Gao GF, Plaisier CL, Eddy JA, Ziv E, Culhane AC, Paull EO, Sivakumar IKA, Gentles AJ, ... ... Califano A, et al. The Immune Landscape of Cancer. Immunity. 51: 411-412. PMID 31433971 DOI: 10.1016/j.immuni.2019.08.004 |
0.56 |
|
2019 |
Echeverria GV, Ge Z, Seth S, Zhang X, Jeter-Jones S, Zhou X, Cai S, Tu Y, McCoy A, Peoples M, Sun Y, Qiu H, Chang Q, Bristow C, Carugo A, ... ... Califano A, et al. Resistance to neoadjuvant chemotherapy in triple-negative breast cancer mediated by a reversible drug-tolerant state. Science Translational Medicine. 11. PMID 30996079 DOI: 10.1126/scitranslmed.aav0936 |
0.44 |
|
2019 |
Maurer HC, Holmstrom SR, He J, Laise P, Su T, Ahmed A, Hibshoosh H, Chabot JA, Oberstein PE, Sepulveda AR, Genkinger JM, Zhang J, Iuga AC, Bansal M, Califano A, et al. Experimental microdissection enables functional harmonisation of pancreatic cancer subtypes. Gut. PMID 30658994 DOI: 10.1136/gutjnl-2018-317706 |
0.4 |
|
2019 |
Bansal M, He J, Peyton M, Kustagi M, Iyer A, Comb M, White M, Minna JD, Califano A. Elucidating synergistic dependencies in lung adenocarcinoma by proteome-wide signaling-network analysis. Plos One. 14: e0208646. PMID 30615629 DOI: 10.1371/journal.pone.0208646 |
0.4 |
|
2018 |
Khatamian A, Paull EO, Califano A, Yu J. SJARACNe: a scalable software tool for gene network reverse engineering from big data. Bioinformatics (Oxford, England). PMID 30388204 DOI: 10.1093/bioinformatics/bty907 |
0.56 |
|
2018 |
Alvarez MJ, Subramaniam PS, Tang LH, Grunn A, Aburi M, Rieckhof G, Komissarova EV, Hagan EA, Bodei L, Clemons PA, Dela Cruz FS, Dhall D, Diolaiti D, Fraker DA, Ghavami A, ... ... Califano A, et al. A precision oncology approach to the pharmacological targeting of mechanistic dependencies in neuroendocrine tumors. Nature Genetics. PMID 29915428 DOI: 10.1038/s41588-018-0138-4 |
0.52 |
|
2018 |
Boboila S, Lopez G, Yu J, Banerjee D, Kadenhe-Chiweshe A, Connolly EP, Kandel JJ, Rajbhandari P, Silva JM, Califano A, Yamashiro DJ. Transcription factor activating protein 4 is synthetically lethal and a master regulator of MYCN-amplified neuroblastoma. Oncogene. PMID 29880876 DOI: 10.1038/s41388-018-0326-9 |
0.56 |
|
2018 |
Chiu HS, Martínez MR, Komissarova EV, Llobet-Navas D, Bansal M, Paull EO, Silva J, Yang X, Sumazin P, Califano A. The number of titrated microRNA species dictates ceRNA regulation. Nucleic Acids Research. PMID 29684207 DOI: 10.1093/nar/gky286 |
0.56 |
|
2018 |
Thorsson V, Gibbs DL, Brown SD, Wolf D, Bortone DS, Ou Yang TH, Porta-Pardo E, Gao GF, Plaisier CL, Eddy JA, Ziv E, Culhane AC, Paull EO, Sivakumar IKA, Gentles AJ, ... ... Califano A, et al. The Immune Landscape of Cancer. Immunity. PMID 29628290 DOI: 10.1016/j.immuni.2018.03.023 |
0.56 |
|
2018 |
Rajbhandari P, Lopez G, Capdevila C, Salvatori B, Yu J, Rodriguez-Barrueco R, Martinez D, Yarmarkovich M, Weichert-Leahey N, Abraham BJ, Alvarez MJ, Iyer A, Harenza JL, Oldridge D, De Preter K, ... ... Califano A, et al. Cross-cohort analysis identifies a TEAD4 ↔ MYCN positive-feedback loop as the core regulatory element of high-risk neuroblastoma. Cancer Discovery. PMID 29510988 DOI: 10.1158/2159-8290.CD-16-0861 |
0.56 |
|
2017 |
Aksoy BA, Dancík V, Smith K, Mazerik JN, Ji Z, Gross B, Nikolova O, Jaber N, Califano A, Schreiber SL, Gerhard DS, Hermida LC, Jagu S, Sander C, Floratos A, et al. CTD2 Dashboard: a searchable web interface to connect validated results from the Cancer Target Discovery and Development Network. Database : the Journal of Biological Databases and Curation. 2017. PMID 29220450 DOI: 10.1093/database/bax054 |
0.52 |
|
2017 |
He J, Zhou Z, Reed M, Califano A. Accelerated parallel algorithm for gene network reverse engineering. Bmc Systems Biology. 11: 83. PMID 28950860 DOI: 10.1186/s12918-017-0458-5 |
0.4 |
|
2017 |
Putcha P, Yu J, Rodriguez-Barrueco R, Saucedo-Cuevas L, Villagrasa P, Murga-Penas E, Quayle SN, Yang M, Castro V, Llobet-Navas D, Birnbaum D, Finetti P, Woodward WA, Bertucci F, Alpaugh ML, ... Califano A, et al. Erratum to: HDAC6 activity is a non-oncogene addiction hub for inflammatory breast cancers. Breast Cancer Research : Bcr. 19: 49. PMID 28424080 DOI: 10.1186/s13058-017-0841-6 |
0.56 |
|
2017 |
Sanchez-Martin M, Ambesi-Impiombato A, Qin Y, Herranz D, Bansal M, Girardi T, Paietta E, Tallman MS, Rowe JM, De Keersmaecker K, Califano A, Ferrando AA. Synergistic antileukemic therapies in NOTCH1-induced T-ALL. Proceedings of the National Academy of Sciences of the United States of America. PMID 28174276 DOI: 10.1073/pnas.1611831114 |
0.32 |
|
2016 |
Tavana O, Li D, Dai C, Lopez G, Banerjee D, Kon N, Chen C, Califano A, Yamashiro DJ, Sun H, Gu W. HAUSP deubiquitinates and stabilizes N-Myc in neuroblastoma. Nature Medicine. PMID 27618649 DOI: 10.1038/nm.4180 |
0.56 |
|
2016 |
Gerhard DS, Clemons PA, Shamji AF, Hon C, Wagner BK, Schreiber SL, Krasnitz A, Sordella R, Sander C, Lowe SW, Powers S, Smith K, Aburi M, Iavarone A, Lasorella A, ... ... Califano A, et al. Transforming Big Data into cancer-relevant insight: An initial, multi-tier approach to assess reproducibility and relevance. Molecular Cancer Research : McR. PMID 27401613 DOI: 10.1158/1541-7786.MCR-16-0090 |
0.56 |
|
2016 |
Dutta A, Le Magnen C, Mitrofanova A, Ouyang X, Califano A, Abate-Shen C. Identification of an NKX3.1-G9a-UTY transcriptional regulatory network that controls prostate differentiation. Science (New York, N.Y.). 352: 1576-80. PMID 27339988 DOI: 10.1126/science.aad9512 |
0.56 |
|
2016 |
Alvarez MJ, Shen Y, Giorgi FM, Lachmann A, Ding BB, Ye BH, Califano A. Functional characterization of somatic mutations in cancer using network-based inference of protein activity. Nature Genetics. PMID 27322546 DOI: 10.1038/ng.3593 |
0.56 |
|
2016 |
Kushwaha R, Jagadish N, Kustagi M, Mendiratta G, Seandel M, Soni R, Korkola JE, Thodima V, Califano A, Bosl GJ, Chaganti RS. Mechanism and Role of SOX2 Repression in Seminoma: Relevance to Human Germline Specification. Stem Cell Reports. PMID 27132888 DOI: 10.1016/j.stemcr.2016.04.002 |
0.32 |
|
2016 |
Lee SB, Frattini V, Bansal M, Castano AM, Sherman D, Hutchinson K, Bruce JN, Califano A, Liu G, Cardozo T, Iavarone A, Lasorella A. An ID2-dependent mechanism for VHL inactivation in cancer. Nature. PMID 26735018 DOI: 10.1038/nature16475 |
0.56 |
|
2015 |
Putcha P, Yu J, Rodriguez-Barrueco R, Saucedo-Cuevas L, Villagrasa P, Murga-Penas E, Quayle SN, Yang M, Castro V, Llobet-Navas D, Birnbaum D, Finetti P, Woodward WA, Bertucci F, Alpaugh ML, ... Califano A, et al. HDAC6 activity is a non-oncogene addiction hub for inflammatory breast cancers. Breast Cancer Research : Bcr. 17: 149. PMID 26643555 DOI: 10.1186/s13058-015-0658-0 |
0.56 |
|
2015 |
Bisikirska B, Bansal M, Shen Y, Teruya-Feldstein J, Chaganti R, Califano A. Elucidation and pharmacological targeting of novel molecular drivers of follicular lymphoma progression. Cancer Research. PMID 26589882 DOI: 10.1158/0008-5472.CAN-15-0828 |
0.56 |
|
2015 |
Yu J, Silva J, Califano A. ScreenBEAM: a Novel Meta-Analysis Algorithm for Functional Genomics Screens via Bayesian Hierarchical Modeling. Bioinformatics (Oxford, England). PMID 26415723 DOI: 10.1093/bioinformatics/btv556 |
0.56 |
|
2015 |
Mitrofanova A, Aytes A, Zou M, Shen MM, Abate-Shen C, Califano A. Predicting Drug Response in Human Prostate Cancer from Preclinical Analysis of In Vivo Mouse Models. Cell Reports. PMID 26387954 DOI: 10.1016/j.celrep.2015.08.051 |
0.56 |
|
2015 |
Rodriguez-Barrueco R, Yu J, Saucedo-Cuevas LP, Olivan M, Llobet-Navas D, Putcha P, Castro V, Murga-Penas EM, Collazo-Lorduy A, Castillo-Martin M, Alvarez M, Cordon-Cardo C, Kalinsky K, Maurer M, Califano A, et al. Inhibition of the autocrine IL-6-JAK2-STAT3-calprotectin axis as targeted therapy for HR-/HER2+ breast cancers. Genes & Development. 29: 1631-48. PMID 26227964 DOI: 10.1101/gad.262642.115 |
0.56 |
|
2015 |
Nicoletti P, Bansal M, Lefebvre C, Guarnieri P, Shen Y, Pe'er I, Califano A, Floratos A. ABC Transporters and the Proteasome Complex Are Implicated in Susceptibility to Stevens-Johnson Syndrome and Toxic Epidermal Necrolysis across Multiple Drugs. Plos One. 10: e0131038. PMID 26110827 DOI: 10.1371/journal.pone.0131038 |
0.56 |
|
2015 |
Bansal M, Mendiratta G, Anand S, Kushwaha R, Kim R, Kustagi M, Iyer A, Chaganti RS, Califano A, Sumazin P. Direct ChIP-Seq significance analysis improves target prediction. Bmc Genomics. 16: S4. PMID 26040656 DOI: 10.1186/1471-2164-16-S5-S4 |
0.32 |
|
2015 |
Repunte-Canonigo V, Shin W, Vendruscolo LF, Lefebvre C, van der Stap L, Kawamura T, Schlosburg JE, Alvarez M, Koob GF, Califano A, Sanna PP. Identifying candidate drivers of alcohol dependence-induced excessive drinking by assembly and interrogation of brain-specific regulatory networks. Genome Biology. 16: 68. PMID 25886852 DOI: 10.1186/s13059-015-0593-5 |
0.56 |
|
2015 |
Califano A, Kellis M, Stolovitzky G. Preface: RECOMB/ISCB systems biology, regulatory genomics, and DREAM 2014 Special Issue. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 22: 251-2. PMID 25844665 DOI: 10.1089/cmb.2015.020P |
0.56 |
|
2015 |
Aubry S, Shin W, Crary JF, Lefort R, Qureshi YH, Lefebvre C, Califano A, Shelanski ML. Assembly and interrogation of Alzheimer's disease genetic networks reveal novel regulators of progression. Plos One. 10: e0120352. PMID 25781952 DOI: 10.1371/journal.pone.0120352 |
0.56 |
|
2015 |
Shelanski M, Shin W, Aubry S, Sims P, Alvarez MJ, Califano A. A systems approach to drug discovery in Alzheimer's disease. Neurotherapeutics : the Journal of the American Society For Experimental Neurotherapeutics. 12: 126-31. PMID 25608936 DOI: 10.1007/s13311-014-0335-5 |
0.56 |
|
2015 |
Guitart-Pla O, Kustagi M, Rügheimer F, Califano A, Schwikowski B. The Cyni framework for network inference in Cytoscape. Bioinformatics (Oxford, England). 31: 1499-501. PMID 25527096 DOI: 10.1093/bioinformatics/btu812 |
0.32 |
|
2015 |
Chiu HS, Llobet-Navas D, Yang X, Chung WJ, Ambesi-Impiombato A, Iyer A, Kim HR, Seviour EG, Luo Z, Sehgal V, Moss T, Lu Y, Ram P, Silva J, Mills GB, ... Califano A, et al. Cupid: simultaneous reconstruction of microRNA-target and ceRNA networks. Genome Research. 25: 257-67. PMID 25378249 DOI: 10.1101/gr.178194.114 |
0.56 |
|
2015 |
Kushwaha R, Jagadish N, Kustagi M, Tomishima MJ, Mendiratta G, Bansal M, Kim HR, Sumazin P, Alvarez MJ, Lefebvre C, Villagrasa-Gonzalez P, Viale A, Korkola JE, Houldsworth J, Feldman DR, ... ... Califano A, et al. Interrogation of a context-specific transcription factor network identifies novel regulators of pluripotency. Stem Cells (Dayton, Ohio). 33: 367-77. PMID 25336442 DOI: 10.1002/stem.1870 |
0.56 |
|
2015 |
Rodriguez-Barrueco R, Yu J, Saucedo-Cuevas LP, Olivan M, Llobet-Navas D, Putcha P, Castro V, Murga-Penas EM, Collazo-Lorduy A, Castillo-Martin M, Alvarez M, Cordon-Cardo C, Kalinsky K, Maurer M, Califano A, et al. Inhibition of the autocrine IL-6–JAK2–STAT3–calprotectin axis as targeted therapy for HR−/HER2+ breast cancers Genes and Development. 29: 1631-1648. DOI: 10.1101/gad.262642.115 |
0.56 |
|
2015 |
Alizadeh AA, Aranda V, Bardelli A, Blanpain C, Bock C, Borowski C, Caldas C, Califano A, Doherty M, Elsner M, Esteller M, Fitzgerald R, Korbel JO, Lichter P, Mason CE, et al. Toward understanding and exploiting tumor heterogeneity Nature Medicine. 21: 846-853. DOI: 10.1038/nm.3915 |
0.56 |
|
2015 |
Woo JH, Shimoni Y, Yang WS, Subramaniam P, Iyer A, Nicoletti P, Rodríguez Martínez M, López G, Mattioli M, Realubit R, Karan C, Stockwell BR, Bansal M, Califano A. Elucidating Compound Mechanism of Action by Network Perturbation Analysis Cell. 162: 441-451. DOI: 10.1016/j.cell.2015.05.056 |
0.56 |
|
2014 |
Bansal M, Yang J, Karan C, Menden MP, Costello JC, Tang H, Xiao G, Li Y, Allen J, Zhong R, Chen B, Kim M, Wang T, Heiser LM, Realubit R, ... ... Califano A, et al. A community computational challenge to predict the activity of pairs of compounds. Nature Biotechnology. 32: 1213-22. PMID 25419740 DOI: 10.1038/nbt.3052 |
0.56 |
|
2014 |
Boutros PC, Margolin AA, Stuart JM, Califano A, Stolovitzky G. Toward better benchmarking: challenge-based methods assessment in cancer genomics. Genome Biology. 15: 462. PMID 25314947 DOI: 10.1186/s13059-014-0462-7 |
0.56 |
|
2014 |
Giorgi FM, Lopez G, Woo JH, Bisikirska B, Califano A, Bansal M. Inferring protein modulation from gene expression data using conditional mutual information. Plos One. 9: e109569. PMID 25314274 DOI: 10.1371/journal.pone.0109569 |
0.56 |
|
2014 |
Chen JC, Alvarez MJ, Talos F, Dhruv H, Rieckhof GE, Iyer A, Diefes KL, Aldape K, Berens M, Shen MM, Califano A. Identification of causal genetic drivers of human disease through systems-level analysis of regulatory networks. Cell. 159: 402-14. PMID 25303533 DOI: 10.1016/j.cell.2014.09.021 |
0.56 |
|
2014 |
Repunte-Canonigo V, Lefebvre C, George O, Kawamura T, Morales M, Koob GF, Califano A, Masliah E, Sanna PP. Gene expression changes consistent with neuroAIDS and impaired working memory in HIV-1 transgenic rats. Molecular Neurodegeneration. 9: 26. PMID 24980976 DOI: 10.1186/1750-1326-9-26 |
0.56 |
|
2014 |
Costello JC, Heiser LM, Georgii E, Gönen M, Menden MP, Wang NJ, Bansal M, Ammad-ud-din M, Hintsanen P, Khan SA, Mpindi JP, Kallioniemi O, Honkela A, Aittokallio T, Wennerberg K, et al. A community effort to assess and improve drug sensitivity prediction algorithms. Nature Biotechnology. 32: 1202-12. PMID 24880487 DOI: 10.1038/nbt.2877 |
0.32 |
|
2014 |
Costello JC, Heiser LM, Georgii E, Gönen M, Menden MP, Wang NJ, Bansal M, Ammad-ud-din M, Hintsanen P, Khan SA, Mpindi JP, Kallioniemi O, Honkela A, Aittokallio T, Wennerberg K, et al. A community effort to assess and improve drug sensitivity prediction algorithms. Nature Biotechnology. 32: 1202-12. PMID 24880487 DOI: 10.1038/nbt.2877 |
0.32 |
|
2014 |
Aytes A, Mitrofanova A, Lefebvre C, Alvarez MJ, Castillo-Martin M, Zheng T, Eastham JA, Gopalan A, Pienta KJ, Shen MM, Califano A, Abate-Shen C. Cross-species regulatory network analysis identifies a synergistic interaction between FOXM1 and CENPF that drives prostate cancer malignancy. Cancer Cell. 25: 638-51. PMID 24823640 DOI: 10.1016/j.ccr.2014.03.017 |
0.56 |
|
2014 |
Califano A, Kellis M, Stolovitzky G. RECOMB/ISCB systems biology, regulatory genomics, and DREAM 2013 special issue. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 21: 371-2. PMID 24784777 DOI: 10.1089/cmb.2014.009p |
0.56 |
|
2014 |
Sonabend AM, Carminucci AS, Amendolara B, Bansal M, Leung R, Lei L, Realubit R, Li H, Karan C, Yun J, Showers C, Rothcock R, O J, Califano A, Canoll P, et al. Convection-enhanced delivery of etoposide is effective against murine proneural glioblastoma. Neuro-Oncology. 16: 1210-9. PMID 24637229 DOI: 10.1093/neuonc/nou026 |
0.56 |
|
2014 |
Llobet-Navas D, Rodríguez-Barrueco R, Castro V, Ugalde AP, Sumazin P, Jacob-Sendler D, Demircan B, Castillo-Martín M, Putcha P, Marshall N, Villagrasa P, Chan J, Sanchez-Garcia F, Pe'er D, Rabadán R, ... ... Califano A, et al. The miR-424(322)/503 cluster orchestrates remodeling of the epithelium in the involuting mammary gland. Genes & Development. 28: 765-82. PMID 24636986 DOI: 10.1101/gad.237404.114 |
0.56 |
|
2014 |
Chudnovsky Y, Kim D, Zheng S, Whyte WA, Bansal M, Bray MA, Gopal S, Theisen MA, Bilodeau S, Thiru P, Muffat J, Yilmaz OH, Mitalipova M, Woolard K, Lee J, ... ... Califano A, et al. ZFHX4 interacts with the NuRD core member CHD4 and regulates the glioblastoma tumor-initiating cell state. Cell Reports. 6: 313-24. PMID 24440720 DOI: 10.1016/j.celrep.2013.12.032 |
0.56 |
|
2014 |
Sonabend AM, Bansal M, Guarnieri P, Lei L, Amendolara B, Soderquist C, Leung R, Yun J, Kennedy B, Sisti J, Bruce S, Bruce R, Shakya R, Ludwig T, Rosenfeld S, ... ... Califano A, et al. The transcriptional regulatory network of proneural glioma determines the genetic alterations selected during tumor progression. Cancer Research. 74: 1440-51. PMID 24390738 DOI: 10.1158/0008-5472.CAN-13-2150 |
0.56 |
|
2014 |
Ikiz B, Alvarez MJ, Ré DB, LeVerche V, Politi K, Lotti F, Phani S, Pradhan R, Yu C, Croft GF, Jacquier A, Henderson CE, Califano A, Przedborski S. The Regulatory Machinery of Neurodegeneration in InVitro Models of Amyotrophic Lateral Sclerosis Cell Reports. DOI: 10.1016/j.celrep.2015.06.019 |
0.56 |
|
2013 |
Jang IS, Margolin A, Califano A. hARACNe: improving the accuracy of regulatory model reverse engineering via higher-order data processing inequality tests. Interface Focus. 3: 20130011. PMID 24511376 DOI: 10.1098/rsfs.2013.0011 |
0.56 |
|
2013 |
Piovan E, Yu J, Tosello V, Herranz D, Ambesi-Impiombato A, Da Silva AC, Sanchez-Martin M, Perez-Garcia A, Rigo I, Castillo M, Indraccolo S, Cross JR, de Stanchina E, Paietta E, Racevskis J, ... ... Califano A, et al. Direct reversal of glucocorticoid resistance by AKT inhibition in acute lymphoblastic leukemia. Cancer Cell. 24: 766-76. PMID 24291004 DOI: 10.1016/j.ccr.2013.10.022 |
0.56 |
|
2013 |
Irshad S, Bansal M, Castillo-Martin M, Zheng T, Aytes A, Wenske S, Le Magnen C, Guarnieri P, Sumazin P, Benson MC, Shen MM, Califano A, Abate-Shen C. A molecular signature predictive of indolent prostate cancer. Science Translational Medicine. 5: 202ra122. PMID 24027026 DOI: 10.1126/scitranslmed.3006408 |
0.56 |
|
2013 |
Aytes A, Mitrofanova A, Kinkade CW, Lefebvre C, Lei M, Phelan V, LeKaye HC, Koutcher JA, Cardiff RD, Califano A, Shen MM, Abate-Shen C. ETV4 promotes metastasis in response to activation of PI3-kinase and Ras signaling in a mouse model of advanced prostate cancer. Proceedings of the National Academy of Sciences of the United States of America. 110: E3506-15. PMID 23918374 DOI: 10.1073/pnas.1303558110 |
0.56 |
|
2013 |
Chen J, Repunte-Canonigo V, Kawamura T, Lefebvre C, Shin W, Howell LL, Hemby SE, Harvey BK, Califano A, Morales M, Koob GF, Sanna PP. Hypothalamic proteoglycan syndecan-3 is a novel cocaine addiction resilience factor. Nature Communications. 4: 1955. PMID 23736082 DOI: 10.1038/ncomms2955 |
0.56 |
|
2013 |
Bilal E, Dutkowski J, Guinney J, Jang IS, Logsdon BA, Pandey G, Sauerwine BA, Shimoni Y, Moen Vollan HK, Mecham BH, Rueda OM, Tost J, Curtis C, Alvarez MJ, Kristensen VN, ... ... Califano A, et al. Improving breast cancer survival analysis through competition-based multidimensional modeling. Plos Computational Biology. 9: e1003047. PMID 23671412 DOI: 10.1371/journal.pcbi.1003047 |
0.56 |
|
2013 |
Califano A, Kellis M, Stolovitzky G. Preface: RECOMB systems biology, regulatory genomics, and DREAM 2012 special issue. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 20: 373-4. PMID 23641866 DOI: 10.1089/cmb.2013.008p |
0.56 |
|
2013 |
Keniry M, Pires MM, Mense S, Lefebvre C, Gan B, Justiano K, Lau YK, Hopkins B, Hodakoski C, Koujak S, Toole J, Fenton F, Calahan A, Califano A, DePinho RA, et al. Survival factor NFIL3 restricts FOXO-induced gene expression in cancer. Genes & Development. 27: 916-27. PMID 23630076 DOI: 10.1101/gad.214049.113 |
0.56 |
|
2013 |
Wang ZA, Mitrofanova A, Bergren SK, Abate-Shen C, Cardiff RD, Califano A, Shen MM. Lineage analysis of basal epithelial cells reveals their unexpected plasticity and supports a cell-of-origin model for prostate cancer heterogeneity. Nature Cell Biology. 15: 274-83. PMID 23434823 DOI: 10.1038/ncb2697 |
0.56 |
|
2013 |
Yu J, Putcha P, Califano A, Silva JM. Pooled shRNA screenings: computational analysis. Methods in Molecular Biology (Clifton, N.J.). 980: 371-84. PMID 23359167 DOI: 10.1007/978-1-62703-287-2_22 |
0.56 |
|
2013 |
Maute RL, Schneider C, Sumazin P, Holmes A, Califano A, Basso K, Dalla-Favera R. tRNA-derived microRNA modulates proliferation and the DNA damage response and is down-regulated in B cell lymphoma. Proceedings of the National Academy of Sciences of the United States of America. 110: 1404-9. PMID 23297232 DOI: 10.1073/pnas.1206761110 |
0.56 |
|
2013 |
Bisikirska BC, Adam SJ, Alvarez MJ, Rajbhandari P, Cox R, Lefebvre C, Wang K, Rieckhof GE, Felsher DW, Califano A. STK38 is a critical upstream regulator of MYC's oncogenic activity in human B-cell lymphoma. Oncogene. 32: 5283-91. PMID 23178486 DOI: 10.1038/onc.2012.543 |
0.56 |
|
2013 |
Irshad S, Bansal M, Castillo-Martin M, Zheng T, Aytes A, Wenske S, Le Magnen C, Guarnieri P, Sumazin P, Benson MC, Shen MM, Califano A, Abate-Shen C. A molecular signature predictive of indolent prostate cancer (Science Translational Medicine (2013) 5, (203er9)) Science Translational Medicine. 5. DOI: 10.1126/scitranslmed.3007585 |
0.56 |
|
2013 |
Irshad S, Bansal M, Castillo-Martin M, Zheng T, Aytes A, Wenske S, Le Magnen C, Guarnieri P, Sumazin P, Benson MC, Shen MM, Califano A, Abate-Shen C. A molecular signature predictive of indolent prostate cancer (Science Translational Medicine (2013) 5, (203er9)) Science Translational Medicine. 5. DOI: 10.1126/scitranslmed.3007585 |
0.52 |
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2012 |
Zhang QC, Petrey D, Deng L, Qiang L, Shi Y, Thu CA, Bisikirska B, Lefebvre C, Accili D, Hunter T, Maniatis T, Califano A, Honig B. Structure-based prediction of protein-protein interactions on a genome-wide scale. Nature. 490: 556-60. PMID 23023127 DOI: 10.1038/nature11503 |
0.56 |
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2012 |
Wang J, Kobayashi T, Floc'h N, Kinkade CW, Aytes A, Dankort D, Lefebvre C, Mitrofanova A, Cardiff RD, McMahon M, Califano A, Shen MM, Abate-Shen C. B-Raf activation cooperates with PTEN loss to drive c-Myc expression in advanced prostate cancer. Cancer Research. 72: 4765-76. PMID 22836754 DOI: 10.1158/0008-5472.CAN-12-0820 |
0.56 |
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2012 |
Califano A, Butte AJ, Friend S, Ideker T, Schadt E. Leveraging models of cell regulation and GWAS data in integrative network-based association studies. Nature Genetics. 44: 841-7. PMID 22836096 DOI: 10.1038/ng.2355 |
0.56 |
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2012 |
Floc'h N, Kinkade CW, Kobayashi T, Aytes A, Lefebvre C, Mitrofanova A, Cardiff RD, Califano A, Shen MM, Abate-Shen C. Dual targeting of the Akt/mTOR signaling pathway inhibits castration-resistant prostate cancer in a genetically engineered mouse model. Cancer Research. 72: 4483-93. PMID 22815528 DOI: 10.1158/0008-5472.CAN-12-0283 |
0.56 |
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2012 |
Della Gatta G, Palomero T, Perez-Garcia A, Ambesi-Impiombato A, Bansal M, Carpenter ZW, De Keersmaecker K, Sole X, Xu L, Paietta E, Racevskis J, Wiernik PH, Rowe JM, Meijerink JP, Califano A, et al. Reverse engineering of TLX oncogenic transcriptional networks identifies RUNX1 as tumor suppressor in T-ALL. Nature Medicine. 18: 436-40. PMID 22366949 DOI: 10.1038/nm.2610 |
0.32 |
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2012 |
Martínez MR, Corradin A, Klein U, Álvarez MJ, Toffolo GM, di Camillo B, Califano A, Stolovitzky GA. Quantitative modeling of the terminal differentiation of B cells and mechanisms of lymphomagenesis. Proceedings of the National Academy of Sciences of the United States of America. 109: 2672-7. PMID 22308355 DOI: 10.1073/pnas.1113019109 |
0.56 |
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2012 |
Califano A, Kellis M, Stolovitzky G. Preface: RECOMB Systems Biology, Regulatory Genomics, and DREAM 2011 special issue. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 19: 101. PMID 22300312 DOI: 10.1089/cmb.2012.010p |
0.56 |
|
2012 |
Lefebvre C, Rieckhof G, Califano A. Reverse-engineering human regulatory networks. Wiley Interdisciplinary Reviews. Systems Biology and Medicine. 4: 311-25. PMID 22246697 DOI: 10.1002/wsbm.1159 |
0.56 |
|
2012 |
Floratos A, Honig B, Pe'er D, Califano A. Using systems and structure biology tools to dissect cellular phenotypes. Journal of the American Medical Informatics Association : Jamia. 19: 171-5. PMID 22081223 DOI: 10.1136/amiajnl-2011-000490 |
0.52 |
|
2012 |
Bansal M, Califano A. Genome-wide dissection of posttranscriptional and posttranslational interactions. Methods in Molecular Biology (Clifton, N.J.). 786: 131-49. PMID 21938624 DOI: 10.1007/978-1-61779-292-2_8 |
0.56 |
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2011 |
Sumazin P, Yang X, Chiu HS, Chung WJ, Iyer A, Llobet-Navas D, Rajbhandari P, Bansal M, Guarnieri P, Silva J, Califano A. An extensive microRNA-mediated network of RNA-RNA interactions regulates established oncogenic pathways in glioblastoma. Cell. 147: 370-81. PMID 22000015 DOI: 10.1016/j.cell.2011.09.041 |
0.56 |
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2011 |
Basso K, Mussolin L, Lettieri A, Brahmachary M, Lim WK, Califano A, Basso G, Biondi A, Cazzaniga G, Rosolen A. T-cell lymphoblastic lymphoma shows differences and similarities with T-cell acute lymphoblastic leukemia by genomic and gene expression analyses. Genes, Chromosomes & Cancer. 50: 1063-75. PMID 21987448 DOI: 10.1002/gcc.20924 |
0.32 |
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2011 |
Meyer P, Alexopoulos LG, Bonk T, Califano A, Cho CR, de la Fuente A, de Graaf D, Hartemink AJ, Hoeng J, Ivanov NV, Koeppl H, Linding R, Marbach D, Norel R, Peitsch MC, et al. Verification of systems biology research in the age of collaborative competition. Nature Biotechnology. 29: 811-5. PMID 21904331 DOI: 10.1038/nbt.1968 |
0.56 |
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2011 |
Kruithof-de Julio M, Alvarez MJ, Galli A, Chu J, Price SM, Califano A, Shen MM. Regulation of extra-embryonic endoderm stem cell differentiation by Nodal and Cripto signaling. Development (Cambridge, England). 138: 3885-95. PMID 21862554 DOI: 10.1242/dev.065656 |
0.56 |
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2011 |
Piccaluga PP, De Falco G, Kustagi M, Gazzola A, Agostinelli C, Tripodo C, Leucci E, Onnis A, Astolfi A, Sapienza MR, Bellan C, Lazzi S, Tumwine L, Mawanda M, Ogwang M, ... ... Califano A, et al. Gene expression analysis uncovers similarity and differences among Burkitt lymphoma subtypes. Blood. 117: 3596-608. PMID 21245480 DOI: 10.1182/blood-2010-08-301556 |
0.56 |
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2011 |
Cadeiras M, von Bayern M, Sinha A, Shahzad K, Latif F, Lim WK, Grenett H, Tabak E, Klingler T, Califano A, Deng MC. Drawing networks of rejection - a systems biological approach to the identification of candidate genes in heart transplantation. Journal of Cellular and Molecular Medicine. 15: 949-56. PMID 20497491 DOI: 10.1111/j.1582-4934.2010.01092.x |
0.56 |
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2010 |
Margolin AA, Wang K, Califano A, Nemenman I. Multivariate dependence and genetic networks inference. Iet Systems Biology. 4: 428-40. PMID 21073241 DOI: 10.1049/iet-syb.2010.0009 |
0.56 |
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2010 |
De Keersmaecker K, Real PJ, Gatta GD, Palomero T, Sulis ML, Tosello V, Van Vlierberghe P, Barnes K, Castillo M, Sole X, Hadler M, Lenz J, Aplan PD, Kelliher M, Kee BL, ... ... Califano A, et al. The TLX1 oncogene drives aneuploidy in T cell transformation. Nature Medicine. 16: 1321-7. PMID 20972433 DOI: 10.1038/nm.2246 |
0.56 |
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2010 |
Schreiber SL, Shamji AF, Clemons PA, Hon C, Koehler AN, Munoz B, Palmer M, Stern AM, Wagner BK, Powers S, Lowe SW, Guo X, Krasnitz A, Sawey ET, ... ... Califano A, et al. Towards patient-based cancer therapeutics. Nature Biotechnology. 28: 904-6. PMID 20829823 DOI: 10.1038/nbt0910-904 |
0.56 |
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2010 |
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, et al. A human B-cell interactome identifies MYB and FOXM1 as master regulators of proliferation in germinal centers. Molecular Systems Biology. 6: 377. PMID 20531406 DOI: 10.1038/msb.2010.31 |
0.56 |
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2010 |
Floratos A, Smith K, Ji Z, Watkinson J, Califano A. geWorkbench: an open source platform for integrative genomics. Bioinformatics (Oxford, England). 26: 1779-80. PMID 20511363 DOI: 10.1093/bioinformatics/btq282 |
0.52 |
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2010 |
Zhou X, Sumazin P, Rajbhandari P, Califano A. A systems biology approach to transcription factor binding site prediction. Plos One. 5: e9878. PMID 20360861 DOI: 10.1371/journal.pone.0009878 |
0.56 |
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2010 |
Carro MS, Lim WK, Alvarez MJ, Bollo RJ, Zhao X, Snyder EY, Sulman EP, Anne SL, Doetsch F, Colman H, Lasorella A, Aldape K, Califano A, Iavarone A. The transcriptional network for mesenchymal transformation of brain tumours. Nature. 463: 318-25. PMID 20032975 DOI: 10.1038/nature08712 |
0.56 |
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2010 |
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. 115: 975-84. PMID 19965633 DOI: 10.1182/blood-2009-06-227017 |
0.56 |
|
2009 |
Alvarez MJ, Sumazin P, Rajbhandari P, Califano A. Correlating measurements across samples improves accuracy of large-scale expression profile experiments. Genome Biology. 10: R143. PMID 20042104 DOI: 10.1186/gb-2009-10-12-r143 |
0.56 |
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2009 |
Wang K, Saito M, Bisikirska BC, Alvarez MJ, Lim WK, Rajbhandari P, Shen Q, Nemenman I, Basso K, Margolin AA, Klein U, Dalla-Favera R, Califano A. Genome-wide identification of post-translational modulators of transcription factor activity in human B cells. Nature Biotechnology. 27: 829-39. PMID 19741643 DOI: 10.1038/nbt.1563 |
0.56 |
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2009 |
Zhao X, D' Arca D, Lim WK, Brahmachary M, Carro MS, Ludwig T, Cardo CC, Guillemot F, Aldape K, Califano A, Iavarone A, Lasorella A. The N-Myc-DLL3 cascade is suppressed by the ubiquitin ligase Huwe1 to inhibit proliferation and promote neurogenesis in the developing brain. Developmental Cell. 17: 210-21. PMID 19686682 DOI: 10.1016/j.devcel.2009.07.009 |
0.56 |
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2009 |
Basso K, Sumazin P, Morozov P, Schneider C, Maute RL, Kitagawa Y, Mandelbaum J, Haddad J, Chen CZ, Califano A, Dalla-Favera R. Identification of the human mature B cell miRNome. Immunity. 30: 744-52. PMID 19446474 DOI: 10.1016/j.immuni.2009.03.017 |
0.56 |
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2009 |
Compagno M, Lim WK, Grunn A, Nandula SV, Brahmachary M, Shen Q, Bertoni F, Ponzoni M, Scandurra M, Califano A, Bhagat G, Chadburn A, Dalla-Favera R, Pasqualucci L. Mutations of multiple genes cause deregulation of NF-kappaB in diffuse large B-cell lymphoma. Nature. 459: 717-21. PMID 19412164 DOI: 10.1038/nature07968 |
0.32 |
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2009 |
Aebersold R, Auffray C, Baney E, Barillot E, Brazma A, Brett C, Brunak S, Butte A, Califano A, Celis J, Cufer T, Ferrell J, Galas D, Gallahan D, Gatenby R, et al. Report on EU-USA workshop: how systems biology can advance cancer research (27 October 2008). Molecular Oncology. 3: 9-17. PMID 19383362 DOI: 10.1016/j.molonc.2008.11.003 |
0.56 |
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2009 |
Stolovitzky G, Prill RJ, Califano A. Lessons from the DREAM2 Challenges. Annals of the New York Academy of Sciences. 1158: 159-95. PMID 19348640 DOI: 10.1111/j.1749-6632.2009.04497.x |
0.56 |
|
2009 |
Stolovitzky G, Kahlem P, Califano A. The challenges of systems biology. Preface. Annals of the New York Academy of Sciences. 1158: ix-xii. PMID 19348626 DOI: 10.1111/j.1749-6632.2009.04470.x |
0.56 |
|
2009 |
Shortliffe EH, Califano A, Hunter L. New JBI emphasis on translational bioinformatics. Journal of Biomedical Informatics. 42: 199-200. PMID 19298948 DOI: 10.1016/j.jbi.2009.03.001 |
0.56 |
|
2009 |
Lim WK, Lyashenko E, Califano A. Master regulators used as breast cancer metastasis classifier. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 504-15. PMID 19209726 |
0.32 |
|
2009 |
Wang K, Alvarez MJ, Bisikirska BC, Linding R, Basso K, Dalla Favera R, Califano A. Dissecting the interface between signaling and transcriptional regulation in human B cells. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 264-75. PMID 19209707 |
0.56 |
|
2009 |
Margolin AA, Palomero T, Sumazin P, Califano A, Ferrando AA, Stolovitzky G. ChIP-on-chip significance analysis reveals large-scale binding and regulation by human transcription factor oncogenes. Proceedings of the National Academy of Sciences of the United States of America. 106: 244-9. PMID 19118200 DOI: 10.1073/pnas.0806445106 |
0.56 |
|
2008 |
Cadeiras M, Bayern M, Burke E, Dedrick R, Gangadin A, Latif F, Latif F, Shahzad K, Shazad K, Sinha A, Tabak EG, Marboe CC, Califano AC, Deng MC. Gene expression profiles of patients with antibody-mediated rejection after cardiac transplantation. The Journal of Heart and Lung Transplantation : the Official Publication of the International Society For Heart Transplantation. 27: 932-4. PMID 18656812 DOI: 10.1016/j.healun.2008.05.001 |
0.56 |
|
2008 |
Dinov ID, Rubin D, Lorensen W, Dugan J, Ma J, Murphy S, Kirschner B, Bug W, Sherman M, Floratos A, Kennedy D, Jagadish HV, Schmidt J, Athey B, Califano A, et al. iTools: a framework for classification, categorization and integration of computational biology resources. Plos One. 3: e2265. PMID 18509477 DOI: 10.1371/journal.pone.0002265 |
0.56 |
|
2008 |
Piccaluga PP, Califano A, Klein U, Agostinelli C, Bellosillo B, Gimeno E, Serrano S, Solè F, Zang Y, Falini B, Zinzani PL, Pileri SA. Gene expression analysis provides a potential rationale for revising the histological grading of follicular lymphomas. Haematologica. 93: 1033-8. PMID 18492688 DOI: 10.3324/haematol.12754 |
0.56 |
|
2008 |
Mani KM, Lefebvre C, Wang K, Lim WK, Basso K, Dalla-Favera R, Califano A. A systems biology approach to prediction of oncogenes and molecular perturbation targets in B-cell lymphomas. Molecular Systems Biology. 4: 169. PMID 18277385 DOI: 10.1038/msb.2008.2 |
0.56 |
|
2007 |
Li Z, Zheng T, Califano A, Floratos A. Pattern-based mining strategy to detect multi-locus association and gene x environment interaction. Bmc Proceedings. 1: S16. PMID 18466505 |
0.52 |
|
2007 |
Piccaluga PP, Agostinelli C, Califano A, Carbone A, Fantoni L, Ferrari S, Gazzola A, Gloghini A, Righi S, Rossi M, Tagliafico E, Zinzani PL, Zupo S, Baccarani M, Pileri SA. Gene expression analysis of angioimmunoblastic lymphoma indicates derivation from T follicular helper cells and vascular endothelial growth factor deregulation. Cancer Research. 67: 10703-10. PMID 18006812 DOI: 10.1158/0008-5472.CAN-07-1708 |
0.56 |
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2007 |
Stolovitzky G, Monroe D, Califano A. Dialogue on reverse-engineering assessment and methods: the DREAM of high-throughput pathway inference. Annals of the New York Academy of Sciences. 1115: 1-22. PMID 17925349 DOI: 10.1196/annals.1407.021 |
0.56 |
|
2007 |
Margolin AA, Califano A. Theory and limitations of genetic network inference from microarray data. Annals of the New York Academy of Sciences. 1115: 51-72. PMID 17925348 DOI: 10.1196/annals.1407.019 |
0.56 |
|
2007 |
Lim WK, Wang K, Lefebvre C, Califano A. Comparative analysis of microarray normalization procedures: effects on reverse engineering gene networks. Bioinformatics (Oxford, England). 23: i282-8. PMID 17646307 DOI: 10.1093/bioinformatics/btm201 |
0.44 |
|
2007 |
Sosinsky A, Honig B, Mann RS, Califano A. Discovering transcriptional regulatory regions in Drosophila by a nonalignment method for phylogenetic footprinting. Proceedings of the National Academy of Sciences of the United States of America. 104: 6305-10. PMID 17395715 DOI: 10.1073/pnas.0701614104 |
0.56 |
|
2007 |
Piccaluga PP, Agostinelli C, Califano A, Rossi M, Basso K, Zupo S, Went P, Klein U, Zinzani PL, Baccarani M, Dalla Favera R, Pileri SA. Gene expression analysis of peripheral T cell lymphoma, unspecified, reveals distinct profiles and new potential therapeutic targets. The Journal of Clinical Investigation. 117: 823-34. PMID 17304354 DOI: 10.1172/JCI26833 |
0.56 |
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2007 |
Margolin AA, Palomero T, Ferrando AA, Califano A, Stolovitzky G. ChIP-on-chip significance analysis reveals ubiquitous transcription factor binding Bmc Bioinformatics. 8. DOI: 10.1186/1471-2105-8-S8-S2 |
0.56 |
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2006 |
Margolin AA, Wang K, Lim WK, Kustagi M, Nemenman I, Califano A. Reverse engineering cellular networks. Nature Protocols. 1: 662-71. PMID 17406294 DOI: 10.1038/nprot.2006.106 |
0.56 |
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2006 |
Palomero T, Lim WK, Odom DT, Sulis ML, Real PJ, Margolin A, Barnes KC, O'Neil J, Neuberg D, Weng AP, Aster JC, Sigaux F, Soulier J, Look AT, Young RA, ... Califano A, et al. NOTCH1 directly regulates c-MYC and activates a feed-forward-loop transcriptional network promoting leukemic cell growth. Proceedings of the National Academy of Sciences of the United States of America. 103: 18261-6. PMID 17114293 DOI: 10.1073/pnas.0606108103 |
0.56 |
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2006 |
Margolin AA, Nemenman I, Basso K, Wiggins C, Stolovitzky G, Dalla Favera R, Califano A. ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context. Bmc Bioinformatics. 7: S7. PMID 16723010 DOI: 10.1186/1471-2105-7-S1-S7 |
0.56 |
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2006 |
Wang K, Nemenman I, Banerjee N, Margolin AA, Califano A. Genome-wide discovery of modulators of transcriptional interactions in human B lymphocytes Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 3909: 348-362. |
0.56 |
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2005 |
Poppema S, Kluiver JL, Atayar C, van den Berg A, Rosenwald A, Hummel M, Lenze D, Lammert H, Stein H, Joos S, Barth T, Dyer M, Lichter P, Klein U, Cattoretti G, ... ... Califano A, et al. Report: workshop on mediastinal grey zone lymphoma. European Journal of Haematology. Supplementum. 45-52. PMID 16007868 DOI: 10.1111/j.1600-0609.2005.00454.x |
0.56 |
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2005 |
Basso K, Margolin AA, Stolovitzky G, Klein U, Dalla-Favera R, Califano A. Reverse engineering of regulatory networks in human B cells. Nature Genetics. 37: 382-90. PMID 15778709 DOI: 10.1038/ng1532 |
0.56 |
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2004 |
Basso K, Klein U, Niu H, Stolovitzky GA, Tu Y, Califano A, Cattoretti G, Dalla-Favera R. Tracking CD40 signaling during germinal center development. Blood. 104: 4088-96. PMID 15331443 DOI: 10.1182/blood-2003-12-4291 |
0.56 |
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2003 |
Klein U, Tu Y, Stolovitzky GA, Keller JL, Haddad J, Miljkovic V, Cattoretti G, Califano A, Dalla-Favera R. Gene expression dynamics during germinal center transit in B cells. Annals of the New York Academy of Sciences. 987: 166-72. PMID 12727636 |
0.56 |
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2003 |
Liu AH, Zhang X, Stolovitzky GA, Califano A, Firestein SJ. Motif-based construction of a functional map for mammalian olfactory receptors. Genomics. 81: 443-56. PMID 12706103 DOI: 10.1016/S0888-7543(03)00022-3 |
0.56 |
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2003 |
Liu AH, Califano A. CASTOR: clustering algorithm for sequence taxonomical organization and relationships. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 10: 21-45. PMID 12676049 DOI: 10.1089/106652703763255651 |
0.56 |
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2003 |
Klein U, Tu Y, Stolovitzky GA, Keller JL, Haddad J, Miljkovic V, Cattoretti G, Califano A, Dalla-Favera R. Transcriptional analysis of the B cell germinal center reaction. Proceedings of the National Academy of Sciences of the United States of America. 100: 2639-44. PMID 12604779 DOI: 10.1073/pnas.0437996100 |
0.56 |
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2003 |
Küppers R, Klein U, Schwering I, Distler V, Bräuninger A, Cattoretti G, Tu Y, Stolovitzky GA, Califano A, Hansmann ML, Dalla-Favera R. Identification of Hodgkin and Reed-Sternberg cell-specific genes by gene expression profiling. The Journal of Clinical Investigation. 111: 529-37. PMID 12588891 DOI: 10.1172/JCI16624 |
0.56 |
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2003 |
Basso K, Klein U, Niu H, Stolovitzky GA, Tu Y, Califano A, Cattoretti G, Dalla-Favera R. Tracking CD40 signaling during normal germinal center development gene expression profiling Annals of the New York Academy of Sciences. 987: 288-290. |
0.56 |
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2002 |
Pomeroy SL, Tamayo P, Gaasenbeek M, Sturla LM, Angelo M, McLaughlin ME, Kim JY, Goumnerova LC, Black PM, Lau C, Allen JC, Zagzag D, Olson JM, Curran T, Wetmore C, ... ... Califano A, et al. Prediction of central nervous system embryonal tumour outcome based on gene expression. Nature. 415: 436-42. PMID 11807556 DOI: 10.1038/415436a |
0.56 |
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2000 |
Hart RK, Royyuru AK, Stolovitzky G, Califano A. Systematic and fully automated identification of protein sequence patterns. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 7: 585-600. PMID 11108480 DOI: 10.1089/106652700750050952 |
0.56 |
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1994 |
Califano A, Mohan R. Multidimensional Indexing for Recognizing Visual Shapes Ieee Transactions On Pattern Analysis and Machine Intelligence. 16: 373-392. DOI: 10.1109/34.277591 |
0.56 |
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