Publications with input from the Becker Lab
Search PubMed for "becker kf".
Karl-Friedrich Becker´s bibliography in PubMed.
Comparative Molecular Analysis of Gastrointestinal Adenocarcinomas.
Liu Y, Sethi NS, Hinoue T, Schneider BG, Cherniack AD, Sanchez-Vega F, Seoane JA, Farshidfar F, Bowlby R, Islam M, Kim J, Chatila W, Akbani R, Kanchi RS, Rabkin CS, Willis JE, Wang KK, McCall SJ, Mishra L, Ojesina AI, Bullman S, Pedamallu CS, Lazar AJ, Sakai R; Cancer Genome Atlas Research Network, Thorsson V, Bass AJ, Laird PW.
Cancer Cell. 2018 Apr 9;33(4):721-735.e8. doi: 10.1016/j.ccell.2018.03.010. Epub 2018 Apr 2.
Wang Z, Yang B, Zhang M, Guo W, Wu Z, Wang Y, Jia L, Li S; Cancer Genome Atlas Research Network, Xie W, Yang D.
Cancer Cell. 2018 Apr 9;33(4):706-720.e9. doi: 10.1016/j.ccell.2018.03.006. Epub 2018 Apr 2.
A Comprehensive Pan-Cancer Molecular Study of Gynecologic and Breast Cancers.
Berger AC, Korkut A, Kanchi RS, Hegde AM, Lenoir W, Liu W, Liu Y, Fan H, Shen H, Ravikumar V, Rao A, Schultz A, Li X, Sumazin P, Williams C, Mestdagh P, Gunaratne PH, Yau C, Bowlby R, Robertson AG, Tiezzi DG, Wang C, Cherniack AD, Godwin AK, Kuderer NM, Rader JS, Zuna RE, Sood AK, Lazar AJ, Ojesina AI, Adebamowo C, Adebamowo SN, Baggerly KA, Chen TW, Chiu HS, Lefever S, Liu L, MacKenzie K, Orsulic S, Roszik J, Shelley CS, Song Q, Vellano CP, Wentzensen N; Cancer Genome Atlas Research Network, Weinstein JN, Mills GB, Levine DA, Akbani R.
Cancer Cell. 2018 Apr 9;33(4):690-705.e9. doi: 10.1016/j.ccell.2018.03.014. Epub 2018 Apr 2.
Genomic and Functional Approaches to Understanding Cancer Aneuploidy.
Taylor AM, Shih J, Ha G, Gao GF, Zhang X, Berger AC, Schumacher SE, Wang C, Hu H, Liu J, Lazar AJ; Cancer Genome Atlas Research Network, Cherniack AD, Beroukhim R, Meyerson M.
Cancer Cell. 2018 Apr 9;33(4):676-689.e3. doi: 10.1016/j.ccell.2018.03.007. Epub 2018 Apr 2.
Liu J, Lichtenberg T, Hoadley KA, Poisson LM, Lazar AJ, Cherniack AD, Kovatich AJ, Benz CC, Levine DA, Lee AV, Omberg L, Wolf DM, Shriver CD, Thorsson V; Cancer Genome Atlas Research Network, Hu H.
Cell. 2018 Apr 5;173(2):400-416.e11. doi: 10.1016/j.cell.2018.02.052.
A Pan-Cancer Analysis of Enhancer Expression in Nearly 9000 Patient Samples.
Chen H, Li C, Peng X, Zhou Z, Weinstein JN; Cancer Genome Atlas Research Network, Liang H.
Cell. 2018 Apr 5;173(2):386-399.e12. doi: 10.1016/j.cell.2018.03.027.
Comprehensive Characterization of Cancer Driver Genes and Mutations.
Bailey MH, Tokheim C, Porta-Pardo E, Sengupta S, Bertrand D, Weerasinghe A, Colaprico A, Wendl MC, Kim J, Reardon B, Ng PK, Jeong KJ, Cao S, Wang Z, Gao J, Gao Q, Wang F, Liu EM, Mularoni L, Rubio-Perez C, Nagarajan N, Cortés-Ciriano I, Zhou DC, Liang WW, Hess JM, Yellapantula VD, Tamborero D, Gonzalez-Perez A, Suphavilai C, Ko JY, Khurana E, Park PJ, Van Allen EM, Liang H; MC3 Working Group; Cancer Genome Atlas Research Network, Lawrence MS, Godzik A, Lopez-Bigas N, Stuart J, Wheeler D, Getz G, Chen K, Lazar AJ, Mills GB, Karchin R, Ding L.
Cell. 2018 Apr 5;173(2):371-385.e18. doi: 10.1016/j.cell.2018.02.060.
Pathogenic Germline Variants in 10,389 Adult Cancers.
Huang KL, Mashl RJ, Wu Y, Ritter DI, Wang J, Oh C, Paczkowska M, Reynolds S, Wyczalkowski MA, Oak N, Scott AD, Krassowski M, Cherniack AD, Houlahan KE, Jayasinghe R, Wang LB, Zhou DC, Liu D, Cao S, Kim YW, Koire A, McMichael JF, Hucthagowder V, Kim TB, Hahn A, Wang C, McLellan MD, Al-Mulla F, Johnson KJ; Cancer Genome Atlas Research Network, Lichtarge O, Boutros PC, Raphael B, Lazar AJ, Zhang W, Wendl MC, Govindan R, Jain S, Wheeler D, Kulkarni S, Dipersio JF, Reimand J, Meric-Bernstam F, Chen K, Shmulevich I, Plon SE, Chen F, Ding L.
Cell. 2018 Apr 5;173(2):355-370.e14. doi: 10.1016/j.cell.2018.03.039.
Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation.
Malta TM, Sokolov A, Gentles AJ, Burzykowski T, Poisson L, Weinstein JN, Kamińska B, Huelsken J, Omberg L, Gevaert O, Colaprico A, Czerwińska P, Mazurek S, Mishra L, Heyn H, Krasnitz A, Godwin AK, Lazar AJ; Cancer Genome Atlas Research Network, Stuart JM, Hoadley KA, Laird PW, Noushmehr H, Wiznerowicz M.
Cell. 2018 Apr 5;173(2):338-354.e15. doi: 10.1016/j.cell.2018.03.034.
Oncogenic Signaling Pathways in The Cancer Genome Atlas.
Sanchez-Vega F, Mina M, Armenia J, Chatila WK, Luna A, La KC, Dimitriadoy S, Liu DL, Kantheti HS, Saghafinia S, Chakravarty D, Daian F, Gao Q, Bailey MH, Liang WW, Foltz SM, Shmulevich I, Ding L, Heins Z, Ochoa A, Gross B, Gao J, Zhang H, Kundra R, Kandoth C, Bahceci I, Dervishi L, Dogrusoz U, Zhou W, Shen H, Laird PW, Way GP, Greene CS, Liang H, Xiao Y, Wang C, Iavarone A, Berger AH, Bivona TG, Lazar AJ, Hammer GD, Giordano T, Kwong LN, McArthur G, Huang C, Tward AD, Frederick MJ, McCormick F, Meyerson M; Cancer Genome Atlas Research Network, Van Allen EM, Cherniack AD, Ciriello G, Sander C, Schultz N.
Cell. 2018 Apr 5;173(2):321-337.e10. doi: 10.1016/j.cell.2018.03.035.
Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics.
Ding L, Bailey MH, Porta-Pardo E, Thorsson V, Colaprico A, Bertrand D, Gibbs DL, Weerasinghe A, Huang KL, Tokheim C, Cortés-Ciriano I, Jayasinghe R, Chen F, Yu L, Sun S, Olsen C, Kim J, Taylor AM, Cherniack AD, Akbani R, Suphavilai C, Nagarajan N, Stuart JM, Mills GB, Wyczalkowski MA, Vincent BG, Hutter CM, Zenklusen JC, Hoadley KA, Wendl MC, Shmulevich L, Lazar AJ, Wheeler DA, Getz G; Cancer Genome Atlas Research Network.
Cell. 2018 Apr 5;173(2):305-320.e10. doi: 10.1016/j.cell.2018.03.033.
Hoadley KA, Yau C, Hinoue T, Wolf DM, Lazar AJ, Drill E, Shen R, Taylor AM, Cherniack AD, Thorsson V, Akbani R, Bowlby R, Wong CK, Wiznerowicz M, Sanchez-Vega F, Robertson AG, Schneider BG, Lawrence MS, Noushmehr H, Malta TM; Cancer Genome Atlas Network, Stuart JM, Benz CC, Laird PW.
Cell. 2018 Apr 5;173(2):291-304.e6. doi: 10.1016/j.cell.2018.03.022.
The Immune Landscape of Cancer.
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, Malhotra R, Farshidfar F, Colaprico A, Parker JS, Mose LE, Vo NS, Liu J, Liu Y, Rader J, Dhankani V, Reynolds SM, Bowlby R, Califano A, Cherniack AD, Anastassiou D, Bedognetti D, Rao A, Chen K, Krasnitz A, Hu H, Malta TM, Noushmehr H, Pedamallu CS, Bullman S, Ojesina AI, Lamb A, Zhou W, Shen H, Choueiri TK, Weinstein JN, Guinney J, Saltz J, Holt RA, Rabkin CE; Cancer Genome Atlas Research Network, Lazar AJ, Serody JS, Demicco EG, Disis ML, Vincent BG, Shmulevich L.
Immunity. 2018 Apr 4. pii: S1074-7613(18)30121-3. doi: 10.1016/j.immuni.2018.03.023. [Epub ahead of print]
[Preanalytics and biobanking : Influence of preanalytical factors on tissue sample quality].
Becker KF, Wipperfürth J, Herpel E.
Pathologe. 2018 Apr 4. doi: 10.1007/s00292-018-0437-7. [Epub ahead of print] Review. German.
The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma.
Ricketts CJ, De Cubas AA, Fan H, Smith CC, Lang M, Reznik E, Bowlby R, Gibb EA, Akbani R, Beroukhim R, Bottaro DP, Choueiri TK, Gibbs RA, Godwin AK, Haake S, Hakimi AA, Henske EP, Hsieh JJ, Ho TH, Kanchi RS, Krishnan B, Kwaitkowski DJ, Lui W, Merino MJ, Mills GB, Myers J, Nickerson ML, Reuter VE, Schmidt LS, Shelley CS, Shen H, Shuch B, Signoretti S, Srinivasan R, Tamboli P, Thomas G, Vincent BG, Vocke CD, Wheeler DA, Yang L, Kim WT, Robertson AG; Cancer Genome Atlas Research Network, Spellman PT, Rathmell WK, Linehan WM.
Cell Rep. 2018 Apr 3;23(1):313-326.e5. doi: 10.1016/j.celrep.2018.03.075.
Chiu HS, Somvanshi S, Patel E, Chen TW, Singh VP, Zorman B, Patil SL, Pan Y, Chatterjee SS; Cancer Genome Atlas Research Network, Sood AK, Gunaratne PH, Sumazin P.
Cell Rep. 2018 Apr 3;23(1):297-312.e12. doi: 10.1016/j.celrep.2018.03.064.
Seiler M, Peng S, Agrawal AA, Palacino J, Teng T, Zhu P, Smith PG; Cancer Genome Atlas Research Network, Buonamici S, Yu L.
Cell Rep. 2018 Apr 3;23(1):282-296.e4. doi: 10.1016/j.celrep.2018.01.088.
Systematic Analysis of Splice-Site-Creating Mutations in Cancer.
Jayasinghe RG, Cao S, Gao Q, Wendl MC, Vo NS, Reynolds SM, Zhao Y, Climente-González H, Chai S, Wang F, Varghese R, Huang M, Liang WW, Wyczalkowski MA, Sengupta S, Li Z, Payne SH, Fenyö D, Miner JH, Walter MJ; Cancer Genome Atlas Research Network, Vincent B, Eyras E, Chen K, Shmulevich I, Chen F, Ding L.
Cell Rep. 2018 Apr 3;23(1):270-281.e3. doi: 10.1016/j.celrep.2018.03.052.
Molecular Characterization and Clinical Relevance of Metabolic Expression Subtypes in Human Cancers.
Peng X, Chen Z, Farshidfar F, Xu X, Lorenzi PL, Wang Y, Cheng F, Tan L, Mojumdar K, Du D, Ge Z, Li J, Thomas GV, Birsoy K, Liu L, Zhang H, Zhao Z, Marchand C, Weinstein JN; Cancer Genome Atlas Research Network, Bathe OF, Liang H.
Cell Rep. 2018 Apr 3;23(1):255-269.e4. doi: 10.1016/j.celrep.2018.03.077.
Genomic and Molecular Landscape of DNA Damage Repair Deficiency across The Cancer Genome Atlas.
Knijnenburg TA, Wang L, Zimmermann MT, Chambwe N, Gao GF, Cherniack AD, Fan H, Shen H, Way GP, Greene CS, Liu Y, Akbani R, Feng B, Donehower LA, Miller C, Shen Y, Karimi M, Chen H, Kim P, Jia P, Shinbrot E, Zhang S, Liu J, Hu H, Bailey MH, Yau C, Wolf D, Zhao Z, Weinstein JN, Li L, Ding L, Mills GB, Laird PW, Wheeler DA, Shmulevich I; Cancer Genome Atlas Research Network, Monnat RJ Jr., Xiao Y, Wang C.
Cell Rep. 2018 Apr 3;23(1):239-254.e6. doi: 10.1016/j.celrep.2018.03.076.
Driver Fusions and Their Implications in the Development and Treatment of Human Cancers.
Gao Q, Liang WW, Foltz SM, Mutharasu G, Jayasinghe RG, Cao S, Liao WW, Reynolds SM, Wyczalkowski MA, Yao L, Yu L, Sun SQ; Fusion Analysis Working Group; Cancer Genome Atlas Research Network, Chen K, Lazar AJ, Fields RC, Wendl MC, Van Tine BA, Vij R, Chen F, Nykter M, Shmulevich I, Ding L.
Cell Rep. 2018 Apr 3;23(1):227-238.e3. doi: 10.1016/j.celrep.2018.03.050.
Integrated Genomic Analysis of the Ubiquitin Pathway across Cancer Types.
Ge Z, Leighton JS, Wang Y, Peng X, Chen Z, Chen H, Sun Y, Yao F, Li J, Zhang H, Liu J, Shriver CD, Hu H; Cancer Genome Atlas Research Network, Piwnica-Worms H, Ma L, Liang H.
Cell Rep. 2018 Apr 3;23(1):213-226.e3. doi: 10.1016/j.celrep.2018.03.047.
Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas.
Campbell JD, Yau C, Bowlby R, Liu Y, Brennan K, Fan H, Taylor AM, Wang C, Walter V, Akbani R, Byers LA, Creighton CJ, Coarfa C, Shih J, Cherniack AD, Gevaert O, Prunello M, Shen H, Anur P, Chen J, Cheng H, Hayes DN, Bullman S, Pedamallu CS, Ojesina AI, Sadeghi S, Mungall KL, Robertson AG, Benz C, Schultz A, Kanchi RS, Gay CM, Hegde A, Diao L, Wang J, Ma W, Sumazin P, Chiu HS, Chen TW, Gunaratne P, Donehower L, Rader JS, Zuna R, Al-Ahmadie H, Lazar AJ, Flores ER, Tsai KY, Zhou JH, Rustgi AK, Drill E, Shen R, Wong CK; Cancer Genome Atlas Research Network, Stuart JM, Laird PW, Hoadley KA, Weinstein JN, Peto M, Pickering CR, Chen Z, Van Waes C.
Cell Rep. 2018 Apr 3;23(1):194-212.e6. doi: 10.1016/j.celrep.2018.03.063.
Saltz J, Gupta R, Hou L, Kurc T, Singh P, Nguyen V, Samaras D, Shroyer KR, Zhao T, Batiste R, Van Arnam J; Cancer Genome Atlas Research Network, Shmulevich I, Rao AUK, Lazar AJ, Sharma A, Thorsson V.
Cell Rep. 2018 Apr 3;23(1):181-193.e7. doi: 10.1016/j.celrep.2018.03.086.
Machine Learning Detects Pan-cancer Ras Pathway Activation in The Cancer Genome Atlas.
Way GP, Sanchez-Vega F, La K, Armenia J, Chatila WK, Luna A, Sander C, Cherniack AD, Mina M, Ciriello G, Schultz N; Cancer Genome Atlas Research Network, Sanchez Y, Greene CS.
Cell Rep. 2018 Apr 3;23(1):172-180.e3. doi: 10.1016/j.celrep.2018.03.046.
Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas.
Schaub FX, Dhankani V, Berger AC, Trivedi M, Richardson AB, Shaw R, Zhao W, Zhang X, Ventura A, Liu Y, Ayer DE, Hurlin PJ, Cherniack AD, Eisenman RN, Bernard B, Grandori C; Cancer Genome Atlas Network.
Cell Syst. 2018 Mar 28;6(3):282-300.e2. doi: 10.1016/j.cels.2018.03.003.
Ellrott K, Bailey MH, Saksena G, Covington KR, Kandoth C, Stewart C, Hess J, Ma S, Chiotti KE, McLellan M, Sofia HJ, Hutter C, Getz G, Wheeler D, Ding L; MC3 Working Group; Cancer Genome Atlas Research Network.
Cell Syst. 2018 Mar 28;6(3):271-281.e7. doi: 10.1016/j.cels.2018.03.002.
Berger AW, Raedler K, Langner C, Ludwig L, Dikopoulos N, Becker KF, Slotta-Huspenina J, Quante M, Schwerdel D, Perkhofer L, Kleger A, Zizer E, Oswald F, Seufferlein T, Meining A.
United European Gastroenterol J. 2018 Mar;6(2):290-299. doi: 10.1177/2050640617723810. Epub 2017 Jul 28.
Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma. Cancer Genome Atlas Research Network. Electronic address: andrew_aguirre@dfci.harvard.edu; Cancer Genome Atlas Research Network. Cancer Cell. 2017 Aug 14;32(2):185-203.e13. doi: 10.1016/j.ccell.2017.07.007. PMID: 28810144
Quality Matters: 2016 Annual Conference of the National Infrastructures for Biobanking. Doucet M, Becker KF, Björkman J, Bonnet J, Clément B, Daidone MG, Duyckaerts C, Erb G, Haslacher H, Hofman P, Huppertz B, Junot C, Lundeberg J, Metspalu A, Lavitrano M, Litton JE, Moore H, Morente M, Naimi BY, Oelmueller U, Ollier B, Parodi B, Ruan L, Stanta G, Turano P, Vaught J, Watson P, Wichmann HE, Yuille M, Zaomi M, Zatloukal K, Dagher G. Biopreserv Biobank. 2016 Dec 19. [Epub ahead of print] PubMed PMID: 27992240.
Federated Biobanking with Corporate Service Unit: The Munich Biobank Alliance Blueprint. Thasler RM, Berghammer AJ, Kirchner T, Slotta-Huspenina J, Becker KF, Schiergens T, Thasler WE, Wichmann HE. Biopreserv Biobank. 2016 Dec 19. [Epub ahead of print] PubMed PMID: 27991833.
Prognostic value of the autophagy markers LC3 and p62/ SQSTM1 in early-stage non-small cell lung cancer. Anna M. Schläfli, Olivia Adams, José A. Galván, Mathias Gugger, Spasenija Savic, Lukas Bubendorf, Ralph A. Schmid, Karl-Friedrich Becker, Mario P. Tschan, Rupert Langer and Sabina Berezowska. ONCOTARGET Advance Online Publication Mai 2016.
Recent progress in protein profiling of clinical tissues for next-generation molecular diagnostics. Boellner S, Becker KF. Expert Rev Mol Diagn. 2015 Jul 27:1-16.
Quantitative and integrated proteome and microRNA analysis of endothelial replicative senescence. Yentrapalli R, Azimzadeh O, Kraemer A, Malinowsky K, Sarioglu H, Becker KF, Atkinson MJ, Moertl S, Tapio S. J Proteomics. 2015 May 24;126:12-23. doi: 10.1016/j.jprot.2015.05.023.
Reverse Phase Protein Arrays—Quantitative Assessment of Multiple Biomarkers in Biopsies for Clinical Use. S Boellner, KF Becker. Microarrays 2015, 4 (2), 98-114
Critical roles of specimen type and temperature before and during fixation in the detection of phosphoproteins in breast cancer tissues. Gündisch S, Annaratone L, Beese C, Drecol E, Marchiò C, Quaglino E, Sapino A, Becker KF, Bussolati G. Lab Invest. 2015 Mar 2. doi: 10.1038/labinvest.2015.37. [Epub ahead of print]
Using tissue samples for proteomic studies - critical considerations. Becker KF. Proteomics Clin Appl. 2015 Jan 12. doi: 10.1002/prca.201400106. [Epub ahead of print]
Expression Patterns of Snail1, E-Cadherin and N-Cadherin Proteins in the Developing Kidney and in Wilms’ Tumor (Nephroblastoma). Sebastian Christoph Schmid, Kareen Blechschmidt, Stefan Schulz, Karl Friedrich Becker, Gregor Weirich. Rare Cancers and Therapy, December 2014, Volume 2, Issue 1-2, pp 1-9,
Report from the OECI Oncology Days 2014. van Harten W, Stanta G, Bussolati G, Riegman P, Hoefler G, Becker KF, Folprecht G, Truini M, Haybaeck J, Buiga R, Dono M, Bagg A, López Guerrero J, Zupo S, Lemare F, de Lorenzo F, Goedbloed N, Razavi D, Lövey J, Cadariu P, Rollandi G, Paparo F, Pierotti M, Ciuleanu T, De Paoli P, Weiner G, Saghatchian M, Lombardo C. Ecancermedicalscience. 2014 Dec 31;8:496. doi: 10.3332/ecancer.2014.496. eCollection 2014.
Evaluation of colon cancer histomorphology: a comparison between formalin and PAXgene tissue fixation by an international ring trial. Gündisch S, Slotta-Huspenina J, Verderio P, Ciniselli CM, Pizzamiglio S, Schott C, Drecoll E, Viertler C, Zatloukal K, Kap M, Riegman P, Esposito I, Specht K, Babaryka G, Asslaber M, Bodó K, den Bakker M, den Hollander J, Fend F, Neumann J, Reu S, Perren A, Langer R, Lugli A, Becker I, Richter T, Kayser G, May AM, Carneiro F, Lopes JM, Sobin L, Höfler H, Becker KF. Virchows Archiv: Volume 465, Issue 5 (2014), Page 509-519
Heat Shock Protein 90 (HSP90) and Her2 in Adenocarcinomas of the Esophagus. Slotta-Huspenina J, Becker KF, Feith M, Walch A, Langer R. Cancers (Basel). 2014 Jun 27;6(3):1382-93. doi: 10.3390/cancers6031382.
Realizing the promise of reverse phase protein arrays for clinical, translational and basic research : a workshop report. Akbani R, Becker KF, Carragher N, Goldstein T, de Koning L, Korf U, Liotta LA, Mills GB, Nishizuka SS, Pawlak M, Petricoin EF, Pollard HB, Serrels B, Zhu J. Mol Cell Proteomics. 2014 Jul;13(7):1625-43. doi: 10.1074/mcp.O113.034918.
Activation of the PI3K/AKT pathway correlates with prognosis in stage II colon cancer. Malinowsky K, Nitsche U, Janssen KP, Bader FG, Späth C, Drecoll E, Keller G, Höfler H, Slotta-Huspenina J, Becker KF. Br J Cancer. 2014 Mar 11. doi: 10.1038/bjc.2014.100.
Variation in Cell Signaling Protein Expression May Introduce Sampling Bias in Primary Epithelial Ovarian Cancer. Mittermeyer G, Malinowsky K, Beese C, Höfler H, Schmalfeldt B, Becker KF, Avril S. (2013) PLoS ONE 8(10): e77825. doi:10.1371/journal.pone.0077825
Delayed Times to Tissue Fixation Result in Unpredictable Global Phosphoproteome Changes. Gündisch S, Grundner-Culemann K, Wolff C, Schott C, Reischauer B, Machatti M, Groelz D, Schaab C, Tebbe A, Becker KF. J Proteome Res. 2013 Oct 4;12(10):4424-4434.
Characterization of signalling pathways by reverse phase protein arrays. Malinowsky K, Wolff C, Schott C, Becker KF. Methods Mol Biol. 2013;1049:285-99. doi: 10.1007/978-1-62703-547-7_21.
The PI3K/Akt/mTOR Pathway Is Implicated in the Premature Senescence of Primary Human Endothelial Cells Exposed to Chronic Radiation. Yentrapalli R, Azimzadeh O, Sriharshan A, Malinowsky K, Merl J, et al. (2013). PLoS ONE 8(8): e70024. doi:10.1371/journal.pone.0070024
A specific expression profile of heat-shock proteins and glucose-regulated proteins is associated with response to neoadjuvant chemotherapy in oesophageal adenocarcinomas. Slotta-Huspenina J, Wolff C, Drecoll E, Feith M, Bettstetter M, Malinowsky K, Bauer L, Becker K, Ott K, Höfler H, Becker KF, Langer R. Br J Cancer. 2013 Jul 23;109(2):370-8. doi: 10.1038/bjc.2013.319. Epub 2013 Jul 9.
The PAXgene® Tissue System Preserves Phosphoproteins in Human Tissue Specimens and Enables Comprehensive Protein Biomarker Research.
S Gündisch, C Schott, C Wolff, K Tran, C Beese, C Viertler, K Zatloukal, KF Becker PLOS ONE (2013) 8 (3), e60638
Variability of protein and phosphoprotein levels in clinical tissue specimens during the pre-analytical phase. Gündisch S, Hauck SM, Sarioglu H, Schott C, Viertler C, Kap M, Schuster T, Reischauer B, Rosenberg R, Verhoef C, Mischinger HJ, Riegman P, Zatloukal K, Becker KF. J Proteome Res. 2012 Nov 8. [Epub ahead of print]. Link to the Journal
Molecular analysis of HER2 signaling in human breast cancer by functional protein pathway activation mapping. Wulfkuhle JD, Berg D, Wolff C, Langer R, Tran K, Illi J, Espina V, Pierobon M, Deng J, Demichele A, Walch A, Bronger H, Becker I, Waldhor C, Hofler H, Esserman LJ, Liotta LA, Becker KF, Petricoin EF 3rd. Clin Cancer Res. 2012 Oct 8.fileadmin/w00bvj/path/AGBecker/Presseinfo-Brustkrebs-Test.pdf
Evidence of Prognostic Relevant Expression Profiles of Heat-Shock Proteins and Glucose-Regulated Proteins in Oesophageal Adenocarcinomas. Slotta-Huspenina J, Berg D, Bauer K, Wolff C, Malinowsky K, et al. (2012). PLoS ONE 7(7): e41420. doi:10.1371/journal.pone.0041420
Intratumoral heterogeneity of microRNA expression in breast cancer. Raychaudhuri M, Schuster T, Buchner T, Malinowsky K, Bronger H, Schwarz-Boeger U, Höfler H, Avril S. J Mol Diagn. 2012 Jul;14(4):376-84. doi: 10.1016/j.jmoldx.2012.01.016. Epub 2012 Jun 15.
Common protein biomarkers assessed by reverse phase protein arrays show considerable intratumoral heterogeneity in breast cancer tissues. Malinowsky K, Raychaudhuri M, Buchner T, Thulke S, Wolff C, Höfler H, Becker KF, Avril S. PLoS One. 2012;7(7):e40285. Epub 2012 Jul 5.
A New Technology for Stabilization of Biomolecules in Tissues for Combined Histological and Molecular Analyses. Viertler C, Groelz D, Gündisch S, Kashofer K, Reischauer B, Riegman PH, Winther R, Wyrich R, Becker KF, Oelmüller U, Zatloukal K. J Mol Diagn. 2012 Jun 27. [Epub ahead of print]
uPA and PAI-1-Related Signaling Pathways Differ between Primary Breast Cancers and Lymph Node Metastases. Malinowsky K, Wolff C, Berg D, Schuster T, Walch A, Bronger H, Mannsperger H, Schmidt C, Korf U, Höfler H, Becker KF. Transl Oncol. 2012 Apr;5(2):98-104.
Antibody validation by combining immunohistochemistry and protein extraction from formalin-fixed paraffin-embedded tissues. Schuster C, Malinowsky K, Liebmann S, Berg D, Wolff C, Tran K, Schott C, Reu S, Neumann J, Faber C, Höfler H, Kirchner T, Becker KF, Hlubek F. Histopathology. 2012 Mar 6. doi: 10.1111/j.1365-2559.2012.04184.x. [Epub ahead of print]
Profiling signalling pathways in formalin-fixed and paraffin-embedded breast cancer tissues reveals cross-talk between EGFR, HER2, HER3 and uPAR. Berg D, Wolff C, Malinowsky K, Tran K, Walch A, Bronger H, Schuster T, Höfler H, Becker KF. J Cell Physiol. 2012 Jan;227(1):204-12. doi: 10.1002/jcp.22718.
The HOPE fixation technique - a promising alternative to common prostate cancer biobanking approaches. Braun M, Menon R, Nikolov P, Kirsten R, Petersen K, Schilling D, Schott C, Gundisch S, Fend F, Becker KF, Perner S. BMC Cancer. 2011 Dec 7;11(1):511. [Epub ahead of print]
Histological Assessment of PAXgene Tissue Fixation and Stabilization Reagents. Kap M, Smedts F, Oosterhuis W, Winther R, Christensen N, Reischauer B, Viertler C, Groelz D, Becker KF, Zatloukal K, Langer R, Slotta-Huspenina J, Bodo K, de Jong B, Oelmuller U, Riegman P. PLoS One. 2011;6(11):e27704. Epub 2011 Nov 16.
Discovery of new molecular subtypes in oesophageal adenocarcinoma. Berg D, Wolff C, Langer R, Schuster T, Feith M, Slotta-Huspenina J, Malinowsky K, Becker KF. PLoS One. 2011;6(9):e23985. Epub 2011 Sep 23.
Producing reverse phase protein microarrays from formalin-fixed tissues. Wolff C, Schott C, Malinowsky K, Berg D, Becker KF. Methods Mol Biol. 2011;785:123-40.
Use of formalin-fixed and paraffin-embedded tissues for diagnosis and therapy in routine clinical settings. Berg D, Malinowsky K, Reischauer B, Wolff C, Becker KF. Methods Mol Biol. 2011;785:109-22.
Protein Microarray-based Comparison of HER2, Estrogen Receptor, and Progesterone Receptor Status in Core Biopsies and Surgical Specimens From FFPE Breast Cancer Tissues. Berg D, Langer R, Tran K, Walch A, Schuster T, Bronger H, Becker KF. Appl Immunohistochem Mol Morphol. 2011 Jul;19(4):300-5.
Comparison of formalin-free tissue fixatives: a proteomic study testing their application for routine pathology and research. Kothmaier H, Rohrer D, Stacher E, Quehenberger F, Becker KF, Popper HH. Arch Pathol Lab Med. 2011 Jun;135(6):744-52.
Successful protein extraction from over-fixed and long-term stored formalin-fixed tissues. Wolff C, Schott C, Porschewski P, Reischauer B, Becker KF. PLoS One. 2011 Jan 31;6(1):e16353.
Targeted therapies in cancer - challenges and chances offered by newly developed techniques for protein analysis in clinical tissues. Malinowsky K, Wolff C, Gündisch S, Berg D, Becker KF. J Cancer 2011; 2:26-35.
Signalling networks associated with urokinase-type plasminogen activator (uPA) and its inhibitor PAI-1 in breast cancer tissues: new insights from protein microarray analysis. Wolff C, Malinowsky K, Berg D, Schragner K, Schuster T, Walch A, Bronger H, Höfler H, Becker KF. J Pathol. 2011 Jan;223(1):54-63. doi: 10.1002/path.2791. Epub 2010 Oct 26.
"Liquid morphology": Immunochemical analysis of proteins extracted from formalin-fixed paraffin-embedded tissues: Combining proteomics with immunohistochemistry. Becker KF, Taylor CR. Appl Immunohistochem Mol Morphol. 2011 Jan;19(1):1-9.
2010
Interaction of Snail and p38 mitogen-activated protein kinase results in shorter overall survival of ovarian cancer patients. Hipp S, Berg D, Ergin B, Schuster T, Hapfelmeier A, Walch A, Avril S, Schmalfeldt B, Höfler H, Becker KF. Virchows Arch. 2010 Dec;457(6):705-13.
UPA and PAI-1 analysis from fixed tissues - new perspectives for a known set of predictive markers. Malinowsky K, Böllner C, Hipp S, Berg D, Schmitt M, Becker KF. Curr Med Chem. 2010;17(35):4370-7.
Proteomic analysis of PAXgene-fixed tissues. Ergin B, Meding S, Langer R, Kap M, Viertler C, Schott C, Ferch U, Riegman P, Zatloukal K, Walch A, Becker KF. J Proteome Res. 2010 Oct 1;9(10):5188-96.
[Update on protein analysis of fixed tissues]. Becker KF, Berg D, Malinowsky K, Wolff C, Ergin B, Meding S, Walch A, Höfler H. Pathologe. 2010 Oct;31 Suppl 2:263-7. German.
[Analysis of signalling pathways in formalin-fixed breast cancer tissues]. Berg D, Bronger H, Walch A, Höfler H, Becker KF. Pathologe. 2010 Oct;31 Suppl 2:296-9. German.
Deciphering signaling pathways in clinical tissues for personalized medicine using protein microarrays. Malinowsky K, Wolff C, Ergin B, Berg D, Becker KF. J Cell Physiol. 2010 Nov;225(2):364-70. Review.
MEN1 in pancreatic endocrine tumors: analysis of gene and protein status in 169 sporadic neoplasms reveals alterations in the vast majority of cases. Corbo V, Dalai I, Scardoni M, Barbi S, Beghelli S, Bersani S, Albarello L, Doglioni C, Schott C, Capelli P, Chilosi M, Boninsegna L, Becker KF, Falconi M, Scarpa A. Endocr Relat Cancer. 2010 Aug 16;17(3):771-83.
Molecular profiling of signalling pathways in formalin-fixed and paraffin-embedded cancer tissues. Berg D, Hipp S, Malinowsky K, Böllner C, Becker KF. Eur J Cancer. 2010 Jan;46(1):47-55. Epub . Review.
Key publications
E-cadherin gene mutations provide clues to diffuse type gastric carcinomas. Becker KF, Atkinson MJ, Reich U, Becker I, Nekarda H, Siewert JR, Höfler H. Cancer Res. 1994 Jul 15;54(14):3845-52.
Tumour-associated E-cadherin mutations alter cellular morphology, decrease cellular adhesion and increase cellular motility. Handschuh G, Candidus S, Luber B, Reich U, Schott C, Oswald S, Becke H, Hutzler P, Birchmeier W, Höfler H, Becker KF. Oncogene. 1999 Jul 29;18(30):4301-12.
Differential expression of the epithelial-mesenchymal transition regulators snail, SIP1, and twist in gastric cancer. Rosivatz E, Becker I, Specht K, Fricke E, Luber B, Busch R, Höfler H, Becker KF. Am J Pathol. 2002 Nov;161(5):1881-91.
Quantitative protein analysis from formalin-fixed tissues: implications for translational clinical research and nanoscale molecular diagnosis. Becker KF, Schott C, Hipp S, Metzger V, Porschewski P, Beck R, Nährig J, Becker I, Höfler H. J Pathol. 2007 Feb;211(3):370-8.
http://www.ncbi.nlm.nih.gov/pubmed/23045247Molecular Analysis of HER2 Signaling in Human Breast Cancer by Functional Protein Pathway Activation Mapping. Wulfkuhle JD, Berg D, Wolff C, Langer R, Tran K, Illi J, Espina V, Pierobon M, Deng J, Demichele A, Walch A, Bronger H, Becker I, Waldhör C, Höfler H, Esserman L; on behalf of the I-SPY 1 TRIAL Investigators, Liotta LA, Becker KF, Petricoin EF 3rd. Clin Cancer Res. 2012 Dec 1;18(23):6426-6435. Epub 2012 Oct 8
Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma. Cancer Genome Atlas Research Network. Electronic address: andrew_aguirre@dfci.harvard.edu; Cancer Genome Atlas Research Network. Cancer Cell. 2017 Aug 14;32(2):185-203.e13. doi: 10.1016/j.ccell.2017.07.007. PMID: 28810144