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2013 (7) 2012 (2) 2011 (7) 2010 (6) 2009 (4) 2008 (4) 2006 and before (1)

2013

    Complete genes may pass from food to human blood
    Spisák S, Solymosi N, Ittzés P, Bodor A, Kondor D, Vattay G, Barták BK, Sipos F, Galamb O, Tulassay Z, Szallasi Z, Rasmussen S, Sicheritz-Ponten T, Brunak S, Molnar B, Csabai I
    PLoS ONE 8(7):e69805 doi:10.1371/journal.pone.0069805, 2013
    PubMed
    The comparison of thrombocytosis and platelet-lymphocyte ratio as potential prognostic markers in colorectal cancer
    Baranyai Z, Krzystanek M, Jósa V, Dede K, Ágoston E, Szász AM, Sinkó D, Szarvas V, Salamon F, Eklund AC, Szallasi Z, Jakab F
    Thrombosis and Haemostasis, 2013
    Schattauer
    Tumor Mutation Burden Forecasts Outcome in Ovarian Cancer with BRCA1 or BRCA2 Mutations
    Birkbak NJ, Kochupurakkal B, Izarzugaza JMG, Eklund AC, Li Y, Liu J, Szallasi Z, Matulonis UA, Richardson AL, Iglehart JD, Wang ZC
    Research Article | published 12 Nov 2013 | PLOS ONE 10.1371/journal.pone.0080023, 2013
    PLOS ONE
    Parallel evolution of tumor subclones mimics diversity between tumors.
    Martinez P, Birkbak NJ, Gerlinger M, McGranahan N, Burrell R, Rowan A, Joshi T, Fisher R, Larkin J, Szallasi Z, Swanton C
    J. Pathol. 230(4):356-64 doi:10.1002/path.4214, 2013
    PubMed
    Relevant URL
    Deconvoluting complex tissues for expression quantitative trait locus-based analyses.
    Seo JH, Li Q, Fatima A, Eklund A, Szallasi Z, Polyak K, Richardson AL, Freedman ML
    Philos. Trans. R. Soc. Lond., B, Biol. Sci. 368(1620):20120363 doi:10.1098/rstb.2012.0363, 2013
    PubMed
    Relevant URL
    Prognostic and Predictive Markers in Metastatic Renal Cell Carcinoma
    Khattak MA, Bakr F, Krzystanek M, Szallasi Z, Gerlinger M, Santos C, Swanton C, Pickering LM, Gore ME, Larkin JM
    J. Clin. Oncol. 31(7):971-2 doi:10.1200/JCO.2012.46.9353, 2013
    PubMed
    Biasogram: Visualization of Confounding Technical Bias in Gene Expression Data
    Krzystanek M, Szallasi Z, Eklund AC
    PLOS ONE, April 16 2013, 2013

2012

    Telomeric allelic imbalance indicates defective DNA repair and sensitivity to DNA-damaging agents
    Birkbak NJ, Wang ZC, Kim JY, Eklund AC, Li Q, Tian R, Bowman-Colin C, Li Y, Greene-Colozzi A, Iglehart JD, Tung N, Ryan PD, Garber JE, Silver DP, Szallasi Z, Richardson AL
    Cancer Discov 2(4):366-75 doi:10.1158/2159-8290.CD-11-0206, 2012
    PubMed
    Intratumor heterogeneity and branched evolution revealed by multiregion sequencing
    Gerlinger M, Rowan AJ, Horswell S, Larkin J, Endesfelder D, Gronroos E, Martinez P, Matthews N, Stewart A, Tarpey P, Varela I, Phillimore B, Begum S, McDonald NQ, Butler A, Jones D, Raine K, Latimer C, Santos CR, Nohadani M, Eklund AC, Spencer-Dene B, Clark G, Pickering L, Stamp G, Gore M, Szallasi Z, Downward J, Futreal PA, Swanton C
    N Engl J Med., 2012
    Relevant URL

2011

    Chromosomal instability confers intrinsic multidrug resistance
    Lee AJ, Endesfelder D, Rowan AJ, Walther A, Birkbak NJ, Futreal PA, Downward J, Szallasi Z, Tomlinson IP, Howell M, Kschischo M, Swanton C
    Cancer Res. 71(5):1858-70 doi:10.1158/0008-5472.CAN-10-3604, 2011
    PubMed
    A breast cancer meta-analysis of two expression measures of chromosomal instability reveals a relationship with younger age at diagnosis and high risk histopathological variables
    Endesfelder D, McGranahan N, Birkbak NJ, Szallasi Z, Kschischo M, Graham TA, Swanton C
    Oncotarget 2(7):529-37, 2011
    PubMed
    CERT depletion predicts chemotherapy benefit and mediates cytotoxic and polyploid-specific cancer cell death through autophagy induction
    Lee AJ, Roylance R, Sander J, Gorman P, Endesfelder D, Kschischo M, Jones NP, East P, Nicke B, Spassieva S, Obeid LM, Birkbak NJ, Szallasi Z, McKnight NC, Rowan AJ, Speirs V, Hanby AM, Downward J, Tooze SA, Swanton C
    J. Pathol. 226(3):482-94 doi:10.1002/path.2998, 2011
    PubMed
    Jetset: selecting the optimal microarray probe set to represent a gene
    Li Q, Birkbak NJ, Gyorffy B, Szallasi Z, Eklund AC
    BMC Bioinformatics 12:474 doi:10.1186/1471-2105-12-474, 2011
    PubMed
    Relationship of Extreme Chromosomal Instability with Long-term Survival in a Retrospective Analysis of Primary Breast Cancer
    Roylance R, Endesfelder D, Gorman P, Burrell RA, Sander J, Tomlinson I, Hanby AM, Speirs V, Richardson AL, Birkbak NJ, Eklund AC, Downward J, Szallasi Z, Kschischo M, Swanton C
    Cancer Epidemiol. Biomarkers Prev. 20(10):2183-94 doi:10.1158/1055-9965.EPI-11-0343, 2011
    PubMed
    Consistent metagenes from cancer expression profiles yield agent specific predictors of chemotherapy response
    Li Q, Eklund AC, Birkbak NJ, Desmedt C, Haibe-Kains B, Sotiriou C, Symmans WF, Pusztai L, Brunak S, Richardson AL, Szallasi Z
    BMC Bioinformatics 12:310 doi:10.1186/1471-2105-12-310, 2011
    PubMed
    Paradoxical relationship between chromosomal instability and survival outcome in cancer
    Birkbak NJ, Eklund AC, Li Q, McClelland SE, Endesfelder D, Tan P, Tan IB, Richardson AL, Szallasi Z, Swanton C
    Cancer Res. 71(10):3447-52 doi:10.1158/0008-5472.CAN-10-3667, 2011
    PubMed

2010

    Minimising Immunohistochemical False Negative ER Classification Using a Complementary 23 Gene Expression Signature of ER Status
    Li Q, Eklund AC, Juul N, Haibe-Kains B, Workman CT, Richardson AL, Szallasi Z, Swanton C
    PLoS ONE 5(12):e15031 doi:10.1371/journal.pone.0015031, 2010
    PubMed
    Predictive biomarker discovery through the parallel integration of clinical trial and functional genomics datasets
    Swanton C, Larkin JM, Gerlinger M, Eklund AC, Howell M, Stamp G, Downward J, Gore M, Futreal PA, Escudier B, Andre F, Albiges L, Beuselinck B, Oudard S, Hoffmann J, Gyorffy B, Torrance C, Boehme KA, Volkmer H, Toschi L, Nicke B, Beck M, Szallasi Z
    Genome Med 2(8):53 doi:10.1186/gm174, 2010
    PubMed
    Targeting chromosomal instability and tumour heterogeneity in HER2 positive breast cancer
    Burrell RA, Juul N, Johnston SR, Reis-Filho J, Szallasi Z, Swanton C
    J. Cell. Biochem. 111(4):782-90 doi:10.1002/jcb.22781, 2010
    PubMed
    Assessment of an RNA interference screen-derived mitotic and ceramide pathway metagene as a predictor of response to neoadjuvant paclitaxel for primary triple-negative breast cancer: a retrospective analysis of five clinical trials
    Juul N, Szallasi Z, Eklund AC, Li Q, Burrell RA, Gerlinger M, Valero V, Andreopoulou E, Esteva FJ, Symmans WF, Desmedt C, Haibe-Kains B, Sotiriou C, Pusztai L, Swanton C
    Lancet Oncol. 11(4):358-65 doi:10.1016/S1470-2045(10)70018-8, 2010
    PubMed
    Amplification of LAPTM4B and YWHAZ contributes to chemotherapy resistance and recurrence of breast cancer
    Li Y, Zou L, Li Q, Haibe-Kains B, Tian R, Li Y, Desmedt C, Sotiriou C, Szallasi Z, Iglehart JD, Richardson AL, Wang ZC
    Nat. Med. 16(2):214-8 doi:10.1038/nm.2090, 2010
    PubMed
    Efficacy of Neoadjuvant Cisplatin in Triple-Negative Breast Cancer
    Silver DP, Richardson AL, Eklund AC, Wang ZC, Szallasi Z, Li Q, Juul N, Leong CO, Calogrias D, Buraimoh A, Fatima A, Gelman RS, Ryan PD, Tung NM, De Nicolo A, Ganesan S, Miron A, Colin C, Sgroi DC, Ellisen LW, Winer EP, Garber JE
    J. Clin. Oncol. 28(7):1145-53 doi:10.1200/JCO.2009.22.4725, 2010
    PubMed

2009

    An online survival analysis tool to rapidly assess the effect of 22,277 genes on breast cancer prognosis using microarray data of 1,809 patients
    Györffy B, Lanczky A, Eklund AC, Denkert C, Budczies J, Li Q, Szallasi Z
    Breast Cancer Res. Treat. 123(3):725-31 doi:10.1007/s10549-009-0674-9, 2009
    PubMed
    Optimization of the BLASTN substitution matrix for prediction of non-specific DNA microarray hybridization
    Aron C Eklund; Pia Friis; Rasmus Wernersson; Zoltan Szallasi
    Nucleic Acids Res. 38(4):e27 doi:10.1093/nar/gkp1116, 2009
    PubMed
    Read article
    Evaluation of microarray preprocessing algorithms based on concordance with rt-PCR in clinical samples
    Gyorffy B, Molnar B, Lage H, Szallasi Z, Eklund AC
    PLoS ONE 4(5):e5645 doi:10.1371/journal.pone.0005645, 2009
    PubMed
    Chromosomal instability determines taxane response
    Swanton C, Nicke B, Schuett M, Eklund AC, Ng C, Li Q, Hardcastle T, Lee A, Roy R, East P, Kschischo M, Endesfelder D, Wylie P, Kim SN, Chen JG, Howell M, Ried T, Habermann JK, Auer G, Brenton JD, Szallasi Z, Downward J
    Proc. Natl. Acad. Sci. U.S.A. 106(21):8671-6 doi:10.1073/pnas.0811835106, 2009
    PubMed

2008

    Concordance of exon array and real-time PCR assessment of gene expression following cancer cell cytotoxic drug exposure
    Lee AJ, East P, Pepper S, Nicke B, Szallasi Z, Eklund AC, Downward J, Swanton C
    Cell Cycle 7(24):3947-8, 2008
    PubMed
    Functional genomic analysis of drug sensitivity pathways to guide adjuvant strategies in breast cancer
    Swanton C, Szallasi Z, Brenton JD, Downward J
    Breast Cancer Res. 10(5):214 doi:10.1186/bcr2159, 2008
    PubMed
    A large-scale analysis of tissue-specific pathology and gene expression of human disease genes and complexes
    Lage K, Hansen NT, Karlberg EO, Eklund AC, Roque F, Donahoe PK, Szallasi Z, Jensen TS, Brunak S
    Proc. Natl. Acad. Sci. U.S.A. 105(52):20870-5 doi:10.1073/pnas.0810772105, 2008
    PubMed
    Correction of technical bias in clinical microarray data improves concordance with known biological information
    Eklund AC, Szallasi Z
    Genome Biol. 9(2):R26 doi:10.1186/gb-2008-9-2-r26, 2008
    PubMed
    Web

2006

    A signature of chromosomal instability inferred from gene expression profiles predicts clinical outcome in multiple human cancers
    Carter SL, Eklund AC, Kohane IS, Harris LN, Szallasi Z
    Nat. Genet. 38(9):1043-8, 2006
    PubMed

2013 (7) 2012 (2) 2011 (7) 2010 (6) 2009 (4) 2008 (4) 2006 and before (1)