PubRank

Andrea Califano

Author PubWeight™ 181.84‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 Prediction of central nervous system embryonal tumour outcome based on gene expression. Nature 2002 15.36
2 ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context. BMC Bioinformatics 2006 14.49
3 Reverse engineering of regulatory networks in human B cells. Nat Genet 2005 13.16
4 The transcriptional network for mesenchymal transformation of brain tumours. Nature 2009 8.44
5 Mutations of multiple genes cause deregulation of NF-kappaB in diffuse large B-cell lymphoma. Nature 2009 7.37
6 NOTCH1 directly regulates c-MYC and activates a feed-forward-loop transcriptional network promoting leukemic cell growth. Proc Natl Acad Sci U S A 2006 6.80
7 A promoter-level mammalian expression atlas. Nature 2014 6.25
8 An extensive microRNA-mediated network of RNA-RNA interactions regulates established oncogenic pathways in glioblastoma. Cell 2011 5.75
9 The DLEU2/miR-15a/16-1 cluster controls B cell proliferation and its deletion leads to chronic lymphocytic leukemia. Cancer Cell 2010 4.71
10 Dialogue on reverse-engineering assessment and methods: the DREAM of high-throughput pathway inference. Ann N Y Acad Sci 2007 3.89
11 Reverse engineering cellular networks. Nat Protoc 2006 3.67
12 Transcriptional analysis of the B cell germinal center reaction. Proc Natl Acad Sci U S A 2003 3.45
13 Lessons from the DREAM2 Challenges. Ann N Y Acad Sci 2009 3.44
14 Structure-based prediction of protein-protein interactions on a genome-wide scale. Nature 2012 3.37
15 A systems biology approach to prediction of oncogenes and molecular perturbation targets in B-cell lymphomas. Mol Syst Biol 2008 2.99
16 A human B-cell interactome identifies MYB and FOXM1 as master regulators of proliferation in germinal centers. Mol Syst Biol 2010 2.92
17 Lineage analysis of basal epithelial cells reveals their unexpected plasticity and supports a cell-of-origin model for prostate cancer heterogeneity. Nat Cell Biol 2013 2.90
18 Genome-wide identification of post-translational modulators of transcription factor activity in human B cells. Nat Biotechnol 2009 2.79
19 Comparative analysis of microarray normalization procedures: effects on reverse engineering gene networks. Bioinformatics 2007 2.63
20 iTools: a framework for classification, categorization and integration of computational biology resources. PLoS One 2008 2.18
21 The N-Myc-DLL3 cascade is suppressed by the ubiquitin ligase Huwe1 to inhibit proliferation and promote neurogenesis in the developing brain. Dev Cell 2009 2.04
22 geWorkbench: an open source platform for integrative genomics. Bioinformatics 2010 2.03
23 Gene expression analysis of peripheral T cell lymphoma, unspecified, reveals distinct profiles and new potential therapeutic targets. J Clin Invest 2007 1.97
24 The TLX1 oncogene drives aneuploidy in T cell transformation. Nat Med 2010 1.93
25 Identification of the human mature B cell miRNome. Immunity 2009 1.82
26 Tracking CD40 signaling during germinal center development. Blood 2004 1.81
27 tRNA-derived microRNA modulates proliferation and the DNA damage response and is down-regulated in B cell lymphoma. Proc Natl Acad Sci U S A 2013 1.66
28 ChIP-on-chip significance analysis reveals large-scale binding and regulation by human transcription factor oncogenes. Proc Natl Acad Sci U S A 2008 1.65
29 Integrated biochemical and computational approach identifies BCL6 direct target genes controlling multiple pathways in normal germinal center B cells. Blood 2009 1.64
30 Towards patient-based cancer therapeutics. Nat Biotechnol 2010 1.63
31 Identification of Hodgkin and Reed-Sternberg cell-specific genes by gene expression profiling. J Clin Invest 2003 1.63
32 BCL6 suppression of BCL2 via Miz1 and its disruption in diffuse large B cell lymphoma. Proc Natl Acad Sci U S A 2009 1.62
33 Reverse engineering of TLX oncogenic transcriptional networks identifies RUNX1 as tumor suppressor in T-ALL. Nat Med 2012 1.56
34 Theory and limitations of genetic network inference from microarray data. Ann N Y Acad Sci 2007 1.51
35 Gene expression analysis uncovers similarity and differences among Burkitt lymphoma subtypes. Blood 2011 1.40
36 Gene expression profiling of hairy cell leukemia reveals a phenotype related to memory B cells with altered expression of chemokine and adhesion receptors. J Exp Med 2004 1.37
37 A molecular signature predictive of indolent prostate cancer. Sci Transl Med 2013 1.32
38 Master regulators used as breast cancer metastasis classifier. Pac Symp Biocomput 2009 1.32
39 Gene expression analysis of angioimmunoblastic lymphoma indicates derivation from T follicular helper cells and vascular endothelial growth factor deregulation. Cancer Res 2007 1.28
40 Verification of systems biology research in the age of collaborative competition. Nat Biotechnol 2011 1.28
41 Dissecting the interface between signaling and transcriptional regulation in human B cells. Pac Symp Biocomput 2009 1.28
42 ETV4 promotes metastasis in response to activation of PI3-kinase and Ras signaling in a mouse model of advanced prostate cancer. Proc Natl Acad Sci U S A 2013 1.26
43 Motif-based construction of a functional map for mammalian olfactory receptors. Genomics 2003 1.23
44 Dual targeting of the Akt/mTOR signaling pathway inhibits castration-resistant prostate cancer in a genetically engineered mouse model. Cancer Res 2012 1.20
45 Improving breast cancer survival analysis through competition-based multidimensional modeling. PLoS Comput Biol 2013 1.20
46 MEF2B mutations lead to deregulated expression of the oncogene BCL6 in diffuse large B cell lymphoma. Nat Immunol 2013 1.17
47 B-Raf activation cooperates with PTEN loss to drive c-Myc expression in advanced prostate cancer. Cancer Res 2012 1.15
48 Rewiring makes the difference. Mol Syst Biol 2011 1.13
49 A complementary role for ELF3 and TFL1 in the regulation of flowering time by ambient temperature. Plant J 2009 1.10
50 PFT1, the MED25 subunit of the plant Mediator complex, promotes flowering through CONSTANS dependent and independent mechanisms in Arabidopsis. Plant J 2011 1.07
51 Toward better benchmarking: challenge-based methods assessment in cancer genomics. Genome Biol 2014 1.05
52 Discovering transcriptional regulatory regions in Drosophila by a nonalignment method for phylogenetic footprinting. Proc Natl Acad Sci U S A 2007 1.01
53 Reverse-engineering human regulatory networks. Wiley Interdiscip Rev Syst Biol Med 2012 0.98
54 The miR-424(322)/503 cluster orchestrates remodeling of the epithelium in the involuting mammary gland. Genes Dev 2014 0.98
55 Gene expression analysis provides a potential rationale for revising the histological grading of follicular lymphomas. Haematologica 2008 0.96
56 Pattern-based mining strategy to detect multi-locus association and gene x environment interaction. BMC Proc 2007 0.93
57 Genome-wide dissection of posttranscriptional and posttranslational interactions. Methods Mol Biol 2012 0.92
58 Using systems and structure biology tools to dissect cellular phenotypes. J Am Med Inform Assoc 2011 0.92
59 Drawing networks of rejection - a systems biological approach to the identification of candidate genes in heart transplantation. J Cell Mol Med 2011 0.89
60 Gene expression changes consistent with neuroAIDS and impaired working memory in HIV-1 transgenic rats. Mol Neurodegener 2014 0.87
61 Pharmacogenetics: ethical issues and policy options. Kennedy Inst Ethics J 2002 0.86
62 Regulation of extra-embryonic endoderm stem cell differentiation by Nodal and Cripto signaling. Development 2011 0.86
63 A systems biology approach to transcription factor binding site prediction. PLoS One 2010 0.85
64 Report on EU-USA workshop: how systems biology can advance cancer research (27 October 2008). Mol Oncol 2008 0.84
65 Survival factor NFIL3 restricts FOXO-induced gene expression in cancer. Genes Dev 2013 0.83
66 Gene expression dynamics during germinal center transit in B cells. Ann N Y Acad Sci 2003 0.83
67 Pooled shRNA screenings: computational analysis. Methods Mol Biol 2013 0.82
68 Interrogation of a context-specific transcription factor network identifies novel regulators of pluripotency. Stem Cells 2015 0.81
69 T-cell lymphoblastic lymphoma shows differences and similarities with T-cell acute lymphoblastic leukemia by genomic and gene expression analyses. Genes Chromosomes Cancer 2011 0.81
70 Report: workshop on mediastinal grey zone lymphoma. Eur J Haematol Suppl 2005 0.80
71 Quantitative modeling of the terminal differentiation of B cells and mechanisms of lymphomagenesis. Proc Natl Acad Sci U S A 2012 0.80
72 Correlating measurements across samples improves accuracy of large-scale expression profile experiments. Genome Biol 2009 0.80
73 The challenges of systems biology. Preface. Ann N Y Acad Sci 2009 0.79
74 CASTOR: clustering algorithm for sequence taxonomical organization and relationships. J Comput Biol 2003 0.79
75 Hypothalamic proteoglycan syndecan-3 is a novel cocaine addiction resilience factor. Nat Commun 2013 0.78
76 Management of complicated gallstones: results of an alternative approach to difficult cholecystectomies. Minim Invasive Ther Allied Technol 2010 0.78
77 A systems approach to drug discovery in Alzheimer's disease. Neurotherapeutics 2015 0.77
78 Direct ChIP-Seq significance analysis improves target prediction. BMC Genomics 2015 0.75
79 Correction: Inferring Protein Modulation from Gene Expression Data Using Conditional Mutual Information. PLoS One 2016 0.75
80 Preface: RECOMB Conference on Systems Biology, Regulatory Genomics, and DREAM Challenges 2010 special issue. J Comput Biol 2011 0.75
81 Preface: RECOMB systems biology, regulatory genomics, and DREAM 2012 special issue. J Comput Biol 2013 0.75
82 New JBI emphasis on translational bioinformatics. J Biomed Inform 2009 0.75
83 The use of superelastic suture clips in laparoscopic gastric banding. Minim Invasive Ther Allied Technol 2008 0.75
84 Identification of Causal Genetic Drivers of Human Disease through Systems-Level Analysis of Regulatory Networks. Cell 2016 0.75