Keywords
Last Name

Stephen Piccolo

TitlePostdoctoral Fellow
InstitutionBoston University School of Medicine
Address75 E. Newton St Evans Building
Boston MA 02118
Phone(617) 414-6960
ORCID ORCID Icon0000-0003-2001-5640
 Publications
Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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  1. Naylor BC, Porter MT, Wilson E, Herring A, Lofthouse S, Hannemann A, Piccolo SR, Rockwood AL, Price JC. DeuteRater: a Tool for Quantifying Peptide Isotope Precision and Kinetic Proteomics. Bioinformatics. 2017 Jan 16. PMID: 28093409.
    View in: PubMed
  2. Tatlow PJ, Piccolo SR. A cloud-based workflow to quantify transcript-expression levels in public cancer compendia. Sci Rep. 2016 Dec 16; 6:39259. PMID: 27982081.
    View in: PubMed
  3. Archer TC, Fertig EJ, Gosline SJ, Hafner M, Hughes SK, Joughin BA, Meyer AS, Piccolo SR, Shajahan-Haq AN. Systems Approaches to Cancer Biology. Cancer Res. 2016 Dec 01; 76(23):6774-6777. PMID: 27864348.
    View in: PubMed
  4. Piccolo SR, Frampton MB. Tools and techniques for computational reproducibility. Gigascience. 2016 Jul 11; 5(1):30. PMID: 27401684.
    View in: PubMed
  5. Wang ZL, Li B, Piccolo SR, Zhang XQ, Li JH, Zhou H, Yang JH, Qu LH. Integrative analysis reveals clinical phenotypes and oncogenic potentials of long non-coding RNAs across 15 cancer types. Oncotarget. 2016 Jun 07; 7(23):35044-55. PMID: 27147563.
    View in: PubMed
  6. Allen GI, Amoroso N, Anghel C, Balagurusamy V, Bare CJ, Beaton D, Bellotti R, Bennett DA, Boehme KL, Boutros PC, Caberlotto L, Caloian C, Campbell F, Chaibub Neto E, Chang YC, Chen B, Chen CY, Chien TY, Clark T, Das S, Davatzikos C, Deng J, Dillenberger D, Dobson RJ, Dong Q, Doshi J, Duma D, Errico R, Erus G, Everett E, Fardo DW, Friend SH, Fröhlich H, Gan J, St George-Hyslop P, Ghosh SS, Glaab E, Green RC, Guan Y, Hong MY, Huang C, Hwang J, Ibrahim J, Inglese P, Iyappan A, Jiang Q, Katsumata Y, Kauwe JS, Klein A, Kong D, Krause R, Lalonde E, Lauria M, Lee E, Lin X, Liu Z, Livingstone J, Logsdon BA, Lovestone S, Ma TW, Malhotra A, Mangravite LM, Maxwell TJ, Merrill E, Nagorski J, Namasivayam A, Narayan M, Naz M, Newhouse SJ, Norman TC, Nurtdinov RN, Oyang YJ, Pawitan Y, Peng S, Peters MA, Piccolo SR, Praveen P, Priami C, Sabelnykova VY, Senger P, Shen X, Simmons A, Sotiras A, Stolovitzky G, Tangaro S, Tateo A, Tung YA, Tustison NJ, Varol E, Vradenburg G, Weiner MW, Xiao G, Xie L, Xie Y, Xu J, Yang H, Zhan X, Zhou Y, Zhu F, Zhu H, Zhu S. Crowdsourced estimation of cognitive decline and resilience in Alzheimer's disease. Alzheimers Dement. 2016 Jun; 12(6):645-53. PMID: 27079753.
    View in: PubMed
  7. Piccolo SR, Hoffman LM, Conner T, Shrestha G, Cohen AL, Marks JR, Neumayer LA, Agarwal CA, Beckerle MC, Andrulis IL, Spira AE, Moos PJ, Buys SS, Johnson WE, Bild AH. Integrative analyses reveal signaling pathways underlying familial breast cancer susceptibility. Mol Syst Biol. 2016 Mar 10; 12(3):860. PMID: 26969729.
    View in: PubMed
  8. Piccolo SR, Andrulis IL, Cohen AL, Conner T, Moos PJ, Spira AE, Buys SS, Johnson WE, Bild AH. Gene-expression patterns in peripheral blood classify familial breast cancer susceptibility. BMC Med Genomics. 2015; 8:72. PMID: 26538066.
    View in: PubMed
  9. Rahman M, Jackson LK, Johnson WE, Li DY, Bild AH, Piccolo SR. Alternative preprocessing of RNA-Sequencing data in The Cancer Genome Atlas leads to improved analysis results. Bioinformatics. 2015 Nov 15; 31(22):3666-72. PMID: 26209429.
    View in: PubMed
  10. MacNeil SM, Johnson WE, Li DY, Piccolo SR, Bild AH. Inferring pathway dysregulation in cancers from multiple types of omic data. Genome Med. 2015; 7(1):61. PMID: 26170901.
    View in: PubMed
  11. Mortenson JB, Heppler LN, Banks CJ, Weerasekara VK, Whited MD, Piccolo SR, Johnson WE, Thompson JW, Andersen JL. Histone deacetylase 6 (HDAC6) promotes the pro-survival activity of 14-3-3? via deacetylation of lysines within the 14-3-3? binding pocket. J Biol Chem. 2015 May 15; 290(20):12487-96. PMID: 25770209.
    View in: PubMed
  12. Shen Y, Rahman M, Piccolo SR, Gusenleitner D, El-Chaar NN, Cheng L, Monti S, Bild AH, Johnson WE. ASSIGN: context-specific genomic profiling of multiple heterogeneous biological pathways. Bioinformatics. 2015 Jun 1; 31(11):1745-53. PMID: 25617415.
    View in: PubMed
  13. Lee S, Piccolo SR, Allen-Brady K. Robust meta-analysis shows that glioma transcriptional subtyping complements traditional approaches. Cell Oncol (Dordr). 2014 Oct; 37(5):317-29. PMID: 25142794.
    View in: PubMed
  14. El-Chaar NN, Piccolo SR, Boucher KM, Cohen AL, Chang JT, Moos PJ, Bild AH. Genomic classification of the RAS network identifies a personalized treatment strategy for lung cancer. Mol Oncol. 2014 Oct; 8(7):1339-54. PMID: 24908424.
    View in: PubMed
  15. Bild AH, Chang JT, Johnson WE, Piccolo SR. A field guide to genomics research. PLoS Biol. 2014 Jan; 12(1):e1001744. PMID: 24409093.
    View in: PubMed
  16. Piccolo SR, Withers MR, Francis OE, Bild AH, Johnson WE. Multiplatform single-sample estimates of transcriptional activation. Proc Natl Acad Sci U S A. 2013 Oct 29; 110(44):17778-83. PMID: 24128763.
    View in: PubMed
  17. Cohen AL, Piccolo SR, Cheng L, Soldi R, Han B, Johnson WE, Bild AH. Genomic pathway analysis reveals that EZH2 and HDAC4 represent mutually exclusive epigenetic pathways across human cancers. BMC Med Genomics. 2013; 6:35. PMID: 24079712.
    View in: PubMed
  18. Piccolo SR, Frey LJ. Clinical and molecular models of glioblastoma multiforme survival. Int J Data Min Bioinform. 2013; 7(3):245-65. PMID: 23819258.
    View in: PubMed
  19. Piccolo SR, Sun Y, Campbell JD, Lenburg ME, Bild AH, Johnson WE. A single-sample microarray normalization method to facilitate personalized-medicine workflows. Genomics. 2012 Dec; 100(6):337-44. PMID: 22959562.
    View in: PubMed
  20. Kim SH, Lee S, Piccolo SR, Allen-Brady K, Park EJ, Chun JN, Kim TW, Cho NH, Kim IG, So I, Jeon JH. Menthol induces cell-cycle arrest in PC-3 cells by down-regulating G2/M genes, including polo-like kinase 1. Biochem Biophys Res Commun. 2012 Jun 8; 422(3):436-41. PMID: 22580005.
    View in: PubMed
  21. Frey LJ, Piccolo SR, Edgerton ME. Multiplicity: an organizing principle for cancers and somatic mutations. BMC Med Genomics. 2011; 4:52. PMID: 21714919.
    View in: PubMed
  22. Crockett DK, Piccolo SR, Ridge PG, Margraf RL, Lyon E, Williams MS, Mitchell JA. Predicting phenotypic severity of uncertain gene variants in the RET proto-oncogene. PLoS One. 2011; 6(3):e18380. PMID: 21479187.
    View in: PubMed
  23. Piccolo SR, Abo RP, Allen-Brady K, Camp NJ, Knight S, Anderson JL, Horne BD. Evaluation of genetic risk scores for lipid levels using genome-wide markers in the Framingham Heart Study. BMC Proc. 2009; 3 Suppl 7:S46. PMID: 20018038.
    View in: PubMed
  24. Piccolo SR, Camp N, Frey LJ. Polygenic model for predicting breast cancer risk via genome-wide polymorphisms. AMIA Annu Symp Proc. 2008; 1094. PMID: 18999159.
    View in: PubMed
  25. Piccolo SR, Frey LJ. Somatic mutation signatures of cancer. AMIA Annu Symp Proc. 2008; 202-6. PMID: 18999255.
    View in: PubMed
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