Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 42

1.

Falling from grace: HPRT is not suitable as an endogenous control for cancer-related studies.

Townsend MH, Felsted AM, Ence ZE, Piccolo SR, Robison RA, O'Neill KL.

Mol Cell Oncol. 2019 Feb 26;6(2):1575691. doi: 10.1080/23723556.2019.1575691. eCollection 2019.

PMID:
31131300
2.

Functional and transcriptomic characterization of carboplatin-resistant A2780 ovarian cancer cell line.

Viscarra T, Buchegger K, Jofre I, Riquelme I, Zanella L, Abanto M, Parker AC, Piccolo SR, Roa JC, Ili C, Brebi P.

Biol Res. 2019 Mar 21;52(1):13. doi: 10.1186/s40659-019-0220-0.

3.

Remote sensing tree classification with a multilayer perceptron.

Sumsion GR, Bradshaw MS, Hill KT, Pinto LDG, Piccolo SR.

PeerJ. 2019 Feb 28;7:e6101. doi: 10.7717/peerj.6101. eCollection 2019.

4.

Correction to: Membrane expression of thymidine kinase 1 and potential clinical relevance in lung, breast, and colorectal malignancies.

Weagel EG, Burrup W, Kovtun R, Velazquez EJ, Felsted AM, Townsend MH, Ence ZE, Suh E, Piccolo SR, Weber KS, Robison RA, O'Neill KL.

Cancer Cell Int. 2019 Feb 11;19:29. doi: 10.1186/s12935-019-0749-6. eCollection 2019.

5.

Publisher Correction: The molecular landscape of pediatric acute myeloid leukemia reveals recurrent structural alterations and age-specific mutational interactions.

Bolouri H, Farrar JE, Triche T Jr, Ries RE, Lim EL, Alonzo TA, Ma Y, Moore R, Mungall AJ, Marra MA, Zhang J, Ma X, Liu Y, Liu Y, Auvil JMG, Davidsen TM, Gesuwan P, Hermida LC, Salhia B, Capone S, Ramsingh G, Zwaan CM, Noort S, Piccolo SR, Kolb EA, Gamis AS, Smith MA, Gerhard DS, Meshinchi S.

Nat Med. 2019 Mar;25(3):530. doi: 10.1038/s41591-019-0369-7.

PMID:
30705421
6.

Potential new biomarkers for endometrial cancer.

Townsend MH, Ence ZE, Felsted AM, Parker AC, Piccolo SR, Robison RA, O'Neill KL.

Cancer Cell Int. 2019 Jan 21;19:19. doi: 10.1186/s12935-019-0731-3. eCollection 2019.

7.

Membrane expression of thymidine kinase 1 and potential clinical relevance in lung, breast, and colorectal malignancies.

Weagel EG, Burrup W, Kovtun R, Velazquez EJ, Felsted AM, Townsend MH, Ence ZE, Suh E, Piccolo SR, Weber KS, Robison RA, O'Neill KL.

Cancer Cell Int. 2018 Sep 10;18:135. doi: 10.1186/s12935-018-0633-9. eCollection 2018. Erratum in: Cancer Cell Int. 2019 Feb 11;19:29.

8.

Curated compendium of human transcriptional biomarker data.

Golightly NP, Bell A, Bischoff AI, Hollingsworth PD, Piccolo SR.

Sci Data. 2018 Apr 17;5:180066. doi: 10.1038/sdata.2018.66.

9.

Erratum: The molecular landscape of pediatric acute myeloid leukemia reveals recurrent structural alterations and age-specific mutational interactions.

Bolouri H, Farrar JE, Triche T Jr, Ries RE, Lim EL, Alonzo TA, Ma Y, Moore R, Mungall AJ, Marra MA, Zhang J, Ma X, Liu Y, Liu Y, Auvil JMG, Davidsen TM, Gesuwan P, Hermida LC, Salhia B, Capone S, Ramsingh G, Zwaan CM, Noort S, Piccolo SR, Kolb EA, Gamis AS, Smith MA, Gerhard DS, Meshinchi S.

Nat Med. 2018 Apr 10;24(4):526. doi: 10.1038/nm0418-526b.

PMID:
29634680
10.

Genome Sequencing and RNA-Motif Analysis Reveal Novel Damaging Noncoding Mutations in Human Tumors.

Singh B, Trincado JL, Tatlow PJ, Piccolo SR, Eyras E.

Mol Cancer Res. 2018 Jul;16(7):1112-1124. doi: 10.1158/1541-7786.MCR-17-0601. Epub 2018 Mar 28.

11.

Publisher Correction: Combating subclonal evolution of resistant cancer phenotypes.

Brady SW, McQuerry JA, Qiao Y, Piccolo SR, Shrestha G, Jenkins DF, Layer RM, Pedersen BS, Miller RH, Esch A, Selitsky SR, Parker JS, Anderson LA, Dalley BK, Factor RE, Reddy CB, Boltax JP, Li DY, Moos PJ, Gray JW, Heiser LM, Buys SS, Cohen AL, Johnson WE, Quinlan AR, Marth G, Werner TL, Bild AH.

Nat Commun. 2018 Feb 5;9(1):572. doi: 10.1038/s41467-017-02383-6.

12.

Classifying cancer genome aberrations by their mutually exclusive effects on transcription.

Dayton JB, Piccolo SR.

BMC Med Genomics. 2017 Dec 21;10(Suppl 4):66. doi: 10.1186/s12920-017-0303-0.

13.

The molecular landscape of pediatric acute myeloid leukemia reveals recurrent structural alterations and age-specific mutational interactions.

Bolouri H, Farrar JE, Triche T Jr, Ries RE, Lim EL, Alonzo TA, Ma Y, Moore R, Mungall AJ, Marra MA, Zhang J, Ma X, Liu Y, Liu Y, Auvil JMG, Davidsen TM, Gesuwan P, Hermida LC, Salhia B, Capone S, Ramsingh G, Zwaan CM, Noort S, Piccolo SR, Kolb EA, Gamis AS, Smith MA, Gerhard DS, Meshinchi S.

Nat Med. 2018 Jan;24(1):103-112. doi: 10.1038/nm.4439. Epub 2017 Dec 11. Erratum in: Nat Med. 2018 Apr 10;24(4):526. Nat Med. 2019 Mar;25(3):530.

14.

Combating subclonal evolution of resistant cancer phenotypes.

Brady SW, McQuerry JA, Qiao Y, Piccolo SR, Shrestha G, Jenkins DF, Layer RM, Pedersen BS, Miller RH, Esch A, Selitsky SR, Parker JS, Anderson LA, Dalley BK, Factor RE, Reddy CB, Boltax JP, Li DY, Moos PJ, Gray JW, Heiser LM, Buys SS, Cohen AL, Johnson WE, Quinlan AR, Marth G, Werner TL, Bild AH.

Nat Commun. 2017 Nov 1;8(1):1231. doi: 10.1038/s41467-017-01174-3. Erratum in: Nat Commun. 2018 Feb 5;9(1):572.

15.

A DREAM Challenge to Build Prediction Models for Short-Term Discontinuation of Docetaxel in Metastatic Castration-Resistant Prostate Cancer.

Seyednasrollah F, Koestler DC, Wang T, Piccolo SR, Vega R, Greiner R, Fuchs C, Gofer E, Kumar L, Wolfinger RD, Kanigel Winner K, Bare C, Neto EC, Yu T, Shen L, Abdallah K, Norman T, Stolovitzky G, Soule HR, Sweeney CJ, Ryan CJ, Scher HI, Sartor O, Elo LL, Zhou FL, Guinney J, Costello JC; Prostate Cancer DREAM Challenge Community.

JCO Clin Cancer Inform. 2017 Nov;1:1-15. doi: 10.1200/CCI.17.00018.

16.

Metastatic colon adenocarcinoma has a significantly elevated expression of IL-10 compared with primary colon adenocarcinoma tumors.

Townsend MH, Felsted AM, Piccolo SR, Robison RA, O'Neill KL.

Cancer Biol Ther. 2018;19(10):913-920. doi: 10.1080/15384047.2017.1360453. Epub 2018 May 10.

17.

Activity of distinct growth factor receptor network components in breast tumors uncovers two biologically relevant subtypes.

Rahman M, MacNeil SM, Jenkins DF, Shrestha G, Wyatt SR, McQuerry JA, Piccolo SR, Heiser LM, Gray JW, Johnson WE, Bild AH.

Genome Med. 2017 Apr 26;9(1):40. doi: 10.1186/s13073-017-0429-x.

18.

DeuteRater: a tool for quantifying peptide isotope precision and kinetic proteomics.

Naylor BC, Porter MT, Wilson E, Herring A, Lofthouse S, Hannemann A, Piccolo SR, Rockwood AL, Price JC.

Bioinformatics. 2017 May 15;33(10):1514-1520. doi: 10.1093/bioinformatics/btx009.

PMID:
28093409
19.

A cloud-based workflow to quantify transcript-expression levels in public cancer compendia.

Tatlow PJ, Piccolo SR.

Sci Rep. 2016 Dec 16;6:39259. doi: 10.1038/srep39259.

20.

Systems Approaches to Cancer Biology.

Archer TC, Fertig EJ, Gosline SJ, Hafner M, Hughes SK, Joughin BA, Meyer AS, Piccolo SR, Shajahan-Haq AN.

Cancer Res. 2016 Dec 1;76(23):6774-6777. Epub 2016 Nov 18.

21.

Tools and techniques for computational reproducibility.

Piccolo SR, Frampton MB.

Gigascience. 2016 Jul 11;5(1):30. doi: 10.1186/s13742-016-0135-4. Review.

22.

Integrative analysis reveals clinical phenotypes and oncogenic potentials of long non-coding RNAs across 15 cancer types.

Wang ZL, Li B, Piccolo SR, Zhang XQ, Li JH, Zhou H, Yang JH, Qu LH.

Oncotarget. 2016 Jun 7;7(23):35044-55. doi: 10.18632/oncotarget.9037.

23.

Crowdsourced estimation of cognitive decline and resilience in Alzheimer's disease.

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; Alzheimer's Disease Neuroimaging Initiative.

Alzheimers Dement. 2016 Jun;12(6):645-53. doi: 10.1016/j.jalz.2016.02.006. Epub 2016 Apr 11.

24.

Integrative analyses reveal signaling pathways underlying familial breast cancer susceptibility.

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.

Mol Syst Biol. 2016 Mar 10;12(3):860. doi: 10.15252/msb.20156506.

25.

Gene-expression patterns in peripheral blood classify familial breast cancer susceptibility.

Piccolo SR, Andrulis IL, Cohen AL, Conner T, Moos PJ, Spira AE, Buys SS, Johnson WE, Bild AH.

BMC Med Genomics. 2015 Nov 4;8:72. doi: 10.1186/s12920-015-0145-6.

26.

Alternative preprocessing of RNA-Sequencing data in The Cancer Genome Atlas leads to improved analysis results.

Rahman M, Jackson LK, Johnson WE, Li DY, Bild AH, Piccolo SR.

Bioinformatics. 2015 Nov 15;31(22):3666-72. doi: 10.1093/bioinformatics/btv377. Epub 2015 Jul 24.

27.

Inferring pathway dysregulation in cancers from multiple types of omic data.

MacNeil SM, Johnson WE, Li DY, Piccolo SR, Bild AH.

Genome Med. 2015 Jun 26;7(1):61. doi: 10.1186/s13073-015-0189-4. eCollection 2015.

28.

Histone deacetylase 6 (HDAC6) promotes the pro-survival activity of 14-3-3ζ via deacetylation of lysines within the 14-3-3ζ binding pocket.

Mortenson JB, Heppler LN, Banks CJ, Weerasekara VK, Whited MD, Piccolo SR, Johnson WE, Thompson JW, Andersen JL.

J Biol Chem. 2015 May 15;290(20):12487-96. doi: 10.1074/jbc.M114.607580. Epub 2015 Mar 13.

29.

ASSIGN: context-specific genomic profiling of multiple heterogeneous biological pathways.

Shen Y, Rahman M, Piccolo SR, Gusenleitner D, El-Chaar NN, Cheng L, Monti S, Bild AH, Johnson WE.

Bioinformatics. 2015 Jun 1;31(11):1745-53. doi: 10.1093/bioinformatics/btv031. Epub 2015 Jan 22.

30.

Robust meta-analysis shows that glioma transcriptional subtyping complements traditional approaches.

Lee S, Piccolo SR, Allen-Brady K.

Cell Oncol (Dordr). 2014 Oct;37(5):317-29. doi: 10.1007/s13402-014-0190-8. Epub 2014 Aug 21.

PMID:
25142794
31.

Genomic classification of the RAS network identifies a personalized treatment strategy for lung cancer.

El-Chaar NN, Piccolo SR, Boucher KM, Cohen AL, Chang JT, Moos PJ, Bild AH.

Mol Oncol. 2014 Oct;8(7):1339-54. doi: 10.1016/j.molonc.2014.05.005. Epub 2014 May 20.

32.

A field guide to genomics research.

Bild AH, Chang JT, Johnson WE, Piccolo SR.

PLoS Biol. 2014 Jan;12(1):e1001744. doi: 10.1371/journal.pbio.1001744. Epub 2014 Jan 7. No abstract available.

33.

Multiplatform single-sample estimates of transcriptional activation.

Piccolo SR, Withers MR, Francis OE, Bild AH, Johnson WE.

Proc Natl Acad Sci U S A. 2013 Oct 29;110(44):17778-83. doi: 10.1073/pnas.1305823110. Epub 2013 Oct 15.

34.

Genomic pathway analysis reveals that EZH2 and HDAC4 represent mutually exclusive epigenetic pathways across human cancers.

Cohen AL, Piccolo SR, Cheng L, Soldi R, Han B, Johnson WE, Bild AH.

BMC Med Genomics. 2013 Sep 30;6:35. doi: 10.1186/1755-8794-6-35.

35.

Clinical and molecular models of glioblastoma multiforme survival.

Piccolo SR, Frey LJ.

Int J Data Min Bioinform. 2013;7(3):245-65.

36.

A single-sample microarray normalization method to facilitate personalized-medicine workflows.

Piccolo SR, Sun Y, Campbell JD, Lenburg ME, Bild AH, Johnson WE.

Genomics. 2012 Dec;100(6):337-44. doi: 10.1016/j.ygeno.2012.08.003. Epub 2012 Aug 19.

37.

Menthol induces cell-cycle arrest in PC-3 cells by down-regulating G2/M genes, including polo-like kinase 1.

Kim SH, Lee S, Piccolo SR, Allen-Brady K, Park EJ, Chun JN, Kim TW, Cho NH, Kim IG, So I, Jeon JH.

Biochem Biophys Res Commun. 2012 Jun 8;422(3):436-41. doi: 10.1016/j.bbrc.2012.05.010. Epub 2012 May 9.

PMID:
22580005
38.

Multiplicity: an organizing principle for cancers and somatic mutations.

Frey LJ, Piccolo SR, Edgerton ME.

BMC Med Genomics. 2011 Jun 29;4:52. doi: 10.1186/1755-8794-4-52.

39.

Predicting phenotypic severity of uncertain gene variants in the RET proto-oncogene.

Crockett DK, Piccolo SR, Ridge PG, Margraf RL, Lyon E, Williams MS, Mitchell JA.

PLoS One. 2011 Mar 30;6(3):e18380. doi: 10.1371/journal.pone.0018380.

40.

Evaluation of genetic risk scores for lipid levels using genome-wide markers in the Framingham Heart Study.

Piccolo SR, Abo RP, Allen-Brady K, Camp NJ, Knight S, Anderson JL, Horne BD.

BMC Proc. 2009 Dec 15;3 Suppl 7:S46.

41.

Somatic mutation signatures of cancer.

Piccolo SR, Frey LJ.

AMIA Annu Symp Proc. 2008 Nov 6:202-6.

42.

Polygenic model for predicting breast cancer risk via genome-wide polymorphisms.

Piccolo SR, Camp N, Frey LJ.

AMIA Annu Symp Proc. 2008 Nov 6:1094.

PMID:
18999159

Supplemental Content

Loading ...
Support Center