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Staff at EMBL

Dr. Vladimir Benes

Head of Genomics Core Facility
Genomics Core Facility

EMBL Heidelberg, Meyerhofstra├če 1, 69117 Heidelberg, Germany

E-mail: send a mail

Biography

PhD 1994, Czech Academy of Sciences, Prague.
Postdoctoral research at EMBL.
Facility head since 2001.

Publications

Duplication of a promiscuous transcription factor drives the emergence of a new regulatory network. Pougach, K., Voet, A., Kondrashov, F.A., Voordeckers, K., Christiaens, J.F., Baying, B., Benes, V., Sakai, R., Aerts, J., Zhu, B., Van Dijck, P. & Verstrepen, K.J. Nat Commun. 2014 Sep 10;5:4868. doi: 10.1038/ncomms5868. Europe PMC

Telomerase stimulates ribosomal DNA transcription under hyperproliferative conditions. Gonzalez, O.G., Assfalg, R., Koch, S., Schelling, A., Meena, J.K., Kraus, J., Lechel, A., Katz, S.F., Benes, V., Scharffetter-Kochanek, K., Kestler, H.A., Gunes, C. & Iben, S. Nat Commun. 2014 Aug 13;5:4599. doi: 10.1038/ncomms5599. Europe PMC

Sequencing of a patient with balanced chromosome abnormalities and neurodevelopmental disease identifies disruption of multiple high risk Loci by structural variation. Blake, J., Riddell, A., Theiss, S., Gonzalez, A.P., Haase, B., Jauch, A., Janssen, J.W., Ibberson, D., Pavlinic, D., Moog, U., Benes, V. & Runz, H. PLoS One. 2014 Mar 13;9(3):e90894. doi: 10.1371/journal.pone.0090894. eCollection2014. Europe PMC

SUMOylation regulates the chromatin occupancy and anti-proliferative gene programs of glucocorticoid receptor. Paakinaho, V., Kaikkonen, S., Makkonen, H., Benes, V. & Palvimo, J.J. Nucleic Acids Res. 2014 Feb;42(3):1575-92. doi: 10.1093/nar/gkt1033. Epub 2013Nov 4. Europe PMC

Identification of novel sequence variations in microRNAs in chronic lymphocytic leukemia. Kminkova, J., Mraz, M., Zaprazna, K., Navrkalova, V., Tichy, B., Plevova, K., Malcikova, J., Cerna, K., Rausch, T., Benes, V., Brychtova, Y., Doubek, M., Mayer, J. & Pospisilova, S. Carcinogenesis. 2014 May;35(5):992-1002. doi: 10.1093/carcin/bgt396. Epub 2013Dec 4. Europe PMC

Alternative polyadenylation diversifies post-transcriptional regulation by selective RNA-protein interactions. Gupta, I., Clauder-Munster, S., Klaus, B., Jarvelin, A.I., Aiyar, R.S., Benes, V., Wilkening, S., Huber, W., Pelechano, V. & Steinmetz, L.M. Mol Syst Biol. 2014 Feb 25;10:719. doi: 10.1002/msb.135068. Print 2014. Europe PMC

Accounting for technical noise in single-cell RNA-seq experiments. Brennecke, P., Anders, S., Kim, J.K., Kolodziejczyk, A.A., Zhang, X., Proserpio, V., Baying, B., Benes, V., Teichmann, S.A., Marioni, J.C. & Heisler, M.G. Nat Methods. 2013 Nov;10(11):1093-5. doi: 10.1038/nmeth.2645. Epub 2013 Sep 22. Europe PMC

The need for transparency and good practices in the qPCR literature. Bustin, S.A., Benes, V., Garson, J., Hellemans, J., Huggett, J., Kubista, M., Mueller, R., Nolan, T., Pfaffl, M.W., Shipley, G., Wittwer, C.T., Schjerling, P., Day, P.J., Abreu, M., Aguado, B., Beaulieu, J.F., Beckers, A., Bogaert, S., Browne, J.A., Carrasco-Ramiro, F., Ceelen, L., Ciborowski, K., Cornillie, P., Coulon, S., Cuypers, A., De Brouwer, S., De Ceuninck, L., De Craene, J., De Naeyer, H., De Spiegelaere, W., Deckers, K., Dheedene, A., Durinck, K., Ferreira-Teixeira, M., Fieuw, A., Gallup, J.M., Gonzalo-Flores, S., Goossens, K., Heindryckx, F., Herring, E., Hoenicka, H., Icardi, L., Jaggi, R., Javad, F., Karampelias, M., Kibenge, F., Kibenge, M., Kumps, C., Lambertz, I., Lammens, T., Markey, A., Messiaen, P., Mets, E., Morais, S., Mudarra-Rubio, A., Nakiwala, J., Nelis, H., Olsvik, P.A., Perez-Novo, C., Plusquin, M., Remans, T., Rihani, A., Rodrigues-Santos, P., Rondou, P., Sanders, R., Schmidt-Bleek, K., Skovgaard, K., Smeets, K., Tabera, L., Toegel, S., Van Acker, T., Van den Broeck, W., Van der Meulen, J., Van Gele, M., Van Peer, G., Van Poucke, M., Van Roy, N., Vergult, S., Wauman, J., Tshuikina-Wiklander, M., Willems, E., Zaccara, S., Zeka, F. & Vandesompele, J. Nat Methods. 2013 Oct 30;10(11):1063-7. doi: 10.1038/nmeth.2697. Europe PMC

Primate genome architecture influences structural variation mechanisms and functional consequences. Gokcumen, O., Tischler, V., Tica, J., Zhu, Q., Iskow, R.C., Lee, E., Fritz, M.H., Langdon, A., Stutz, A.M., Pavlidis, P., Benes, V., Mills, R.E., Park, P.J., Lee, C. & Korbel, J.O. Proc Natl Acad Sci U S A. 2013 Sep 24;110(39):15764-9. doi:10.1073/pnas.1305904110. Epub 2013 Sep 6. Europe PMC

Multiple epigenetic mechanisms and the piRNA pathway enforce LINE1 silencing during adult spermatogenesis. Di Giacomo, M., Comazzetto, S., Saini, H., De Fazio, S., Carrieri, C., Morgan, M., Vasiliauskaite, L., Benes, V., Enright, A.J. & O'Carroll, D. Mol Cell. 2013 May 23;50(4):601-8. doi: 10.1016/j.molcel.2013.04.026. Europe PMC

An efficient method for genome-wide polyadenylation site mapping and RNA quantification. Wilkening, S., Pelechano, V., Jarvelin, A.I., Tekkedil, M.M., Anders, S., Benes, V. & Steinmetz, L.M. Nucleic Acids Res. 2013 Mar 1;41(5):e65. doi: 10.1093/nar/gks1249. Epub 2013 Jan7. Europe PMC

Disruption of EXOC6B in a patient with developmental delay, epilepsy, and a de novo balanced t(2;8) translocation. Fruhmesser, A., Blake, J., Haberlandt, E., Baying, B., Raeder, B., Runz, H., Spreiz, A., Fauth, C., Benes, V., Utermann, G., Zschocke, J. & Kotzot, D. Eur J Hum Genet. 2013 Feb 20. doi: 10.1038/ejhg.2013.18. Europe PMC

Integrative genomic analyses reveal an androgen-driven somatic alteration landscape in early-onset prostate cancer. Weischenfeldt, J., Simon, R., Feuerbach, L., Schlangen, K., Weichenhan, D., Minner, S., Wuttig, D., Warnatz, H.J., Stehr, H., Rausch, T., Jager, N., Gu, L., Bogatyrova, O., Stutz, A.M., Claus, R., Eils, J., Eils, R., Gerhauser, C., Huang, P.H., Hutter, B., Kabbe, R., Lawerenz, C., Radomski, S., Bartholomae, C.C., Falth, M., Gade, S., Schmidt, M., Amschler, N., Hass, T., Galal, R., Gjoni, J., Kuner, R., Baer, C., Masser, S., von Kalle, C., Zichner, T., Benes, V., Raeder, B., Mader, M., Amstislavskiy, V., Avci, M., Lehrach, H., Parkhomchuk, D., Sultan, M., Burkhardt, L., Graefen, M., Huland, H., Kluth, M., Krohn, A., Sirma, H., Stumm, L., Steurer, S., Grupp, K., Sultmann, H., Sauter, G., Plass, C., Brors, B., Yaspo, M.L., Korbel, J.O. & Schlomm, T. Cancer Cell. 2013 Feb 11;23(2):159-70. doi: 10.1016/j.ccr.2013.01.002. Europe PMC

The digital MIQE guidelines: Minimum Information for Publication of Quantitative Digital PCR Experiments. Huggett, J.F., Foy, C.A., Benes, V., Emslie, K., Garson, J.A., Haynes, R., Hellemans, J., Kubista, M., Mueller, R.D., Nolan, T., Pfaffl, M.W., Shipley, G.L., Vandesompele, J., Wittwer, C.T. & Bustin, S.A. Clin Chem. 2013 Jun;59(6):892-902. doi: 10.1373/clinchem.2013.206375. Epub 2013Apr 9. Europe PMC

Actin-binding protein regulation by microRNAs as a novel microbial strategy to modulate phagocytosis by host cells: the case of N-Wasp and miR-142-3p. Bettencourt, P., Marion, S., Pires, D., Santos, L.F., Lastrucci, C., Carmo, N., Blake, J., Benes, V., Griffiths, G., Neyrolles, O., Lugo-Villarino, G. & Anes, E. Front Cell Infect Microbiol. 2013;3:19. doi: 10.3389/fcimb.2013.00019. Europe PMC

Df31 Protein and snoRNAs Maintain Accessible Higher-Order Structures of Chromatin. Schubert, T., Pusch, M.C., Diermeier, S., Benes, V., Kremmer, E., Imhof, A. & Langst, G. Mol Cell. 2012 Nov 9;48(3):434-44. doi: 10.1016/j.molcel.2012.08.021. Epub 2012Sep 27. Europe PMC

A Role for Fkbp6 and the Chaperone Machinery in piRNA Amplification and Transposon Silencing. Xiol, J., Cora, E., Koglgruber, R., Chuma, S., Subramanian, S., Hosokawa, M., Reuter, M., Yang, Z., Berninger, P., Palencia, A., Benes, V., Penninger, J., Sachidanandam, R. & Pillai, R.S. Mol Cell. 2012 Sep 28;47(6):970-9. doi: 10.1016/j.molcel.2012.07.019. Epub 2012Aug 16. Europe PMC

Direct regulation of microRNA biogenesis and expression by estrogen receptor beta in hormone-responsive breast cancer. Paris, O., Ferraro, L., Grober, O.M., Ravo, M., De Filippo, M.R., Giurato, G., Nassa, G., Tarallo, R., Cantarella, C., Rizzo, F., Di Benedetto, A., Mottolese, M., Benes, V., Ambrosino, C., Nola, E. & Weisz, A. Oncogene. 2012 Sep 20;31(38):4196-206. doi: 10.1038/onc.2011.583. Epub 2012 Jan9. Europe PMC

DELLY: structural variant discovery by integrated paired-end and split-read analysis. Rausch, T., Zichner, T., Schlattl, A., Stutz, A.M., Benes, V. & Korbel, J.O. Bioinformatics. 2012 Sep 15;28(18):i333-i339. Europe PMC

Dissecting the genomic complexity underlying medulloblastoma. Jones, D.T., Jager, N., Kool, M., Zichner, T., Hutter, B., Sultan, M., Cho, Y.J., Pugh, T.J., Hovestadt, V., Stutz, A.M., Rausch, T., Warnatz, H.J., Ryzhova, M., Bender, S., Sturm, D., Pleier, S., Cin, H., Pfaff, E., Sieber, L., Wittmann, A., Remke, M., Witt, H., Hutter, S., Tzaridis, T., Weischenfeldt, J., Raeder, B., Avci, M., Amstislavskiy, V., Zapatka, M., Weber, U.D., Wang, Q., Lasitschka, B., Bartholomae, C.C., Schmidt, M., von Kalle, C., Ast, V., Lawerenz, C., Eils, J., Kabbe, R., Benes, V., van Sluis, P., Koster, J., Volckmann, R., Shih, D., Betts, M.J., Russell, R.B., Coco, S., Tonini, G.P., Schuller, U., Hans, V., Graf, N., Kim, Y.J., Monoranu, C., Roggendorf, W., Unterberg, A., Herold-Mende, C., Milde, T., Kulozik, A.E., von Deimling, A., Witt, O., Maass, E., Rossler, J., Ebinger, M., Schuhmann, M.U., Fruhwald, M.C., Hasselblatt, M., Jabado, N., Rutkowski, S., von Bueren, A.O., Williamson, D., Clifford, S.C., McCabe, M.G., Collins, V.P., Wolf, S., Wiemann, S., Lehrach, H., Brors, B., Scheurlen, W., Felsberg, J., Reifenberger, G., Northcott, P.A., Taylor, M.D., Meyerson, M., Pomeroy, S.L., Yaspo, M.L., Korbel, J.O., Korshunov, A., Eils, R., Pfister, S.M. & Lichter, P. Nature. 2012 Aug 2;488(7409):100-5. doi: 10.1038/nature11284. Europe PMC

RNA-sequencing as useful screening tool in the combat against the misuse of anabolic agents. Riedmaier, I., Benes, V., Blake, J., Bretschneider, N., Zinser, C., Becker, C., Meyer, H.H. & Pfaffl, M.W. Anal Chem. 2012 Aug 7;84(15):6863-8. Epub 2012 Jul 13. Europe PMC

HnRNP L and L-like cooperate in multiple-exon regulation of CD45 alternative splicing. Preussner, M., Schreiner, S., Hung, L.H., Porstner, M., Jack, H.M., Benes, V., Ratsch, G. & Bindereif, A. Nucleic Acids Res. 2012 Jul 1;40(12):5666-78. Epub 2012 Mar 8. Europe PMC

Hfe deficiency impairs pulmonary neutrophil recruitment in response to inflammation. Benesova, K., Vujic Spasic, M., Schaefer, S.M., Stolte, J., Baehr-Ivacevic, T., Waldow, K., Zhou, Z., Klingmueller, U., Benes, V., Mall, M.A. & Muckenthaler, M.U. PLoS One. 2012;7(6):e39363. doi: 10.1371/journal.pone.0039363. Epub 2012 Jun 21. Europe PMC

Genomics of DNA cytosine methylation in Escherichia coli reveals its role in stationary phase transcription. Kahramanoglou, C., Prieto, A.I., Khedkar, S., Haase, B., Gupta, A., Benes, V., Fraser, G.M., Luscombe, N.M. & Seshasayee, A.S. Nat Commun. 2012 Jun 6;3:886. doi: 10.1038/ncomms1878. Europe PMC

Genome-wide RNAi screening identifies human proteins with a regulatory function in the early secretory pathway. Simpson, J.C., Joggerst, B., Laketa, V., Verissimo, F., Cetin, C., Erfle, H., Bexiga, M.G., Singan, V.R., Heriche, J.K., Neumann, B., Mateos, A., Blake, J., Bechtel, S., Benes, V., Wiemann, S., Ellenberg, J. & Pepperkok, R. Nat Cell Biol. 2012 Jun 3;14(7):764-74. doi: 10.1038/ncb2510. Europe PMC

Role of CXCL13 in asthma: novel therapeutic target. Baay-Guzman, G.J., Huerta-Yepez, S., Vega, M.I., Aguilar-Leon, D., Campillos, M., Blake, J., Benes, V., Hernandez-Pando, R. & Teran, L.M. Chest. 2012 Apr;141(4):886-94. doi: 10.1378/chest.11-0633. Epub 2011 Oct 20. Europe PMC

Genome Sequencing of Pediatric Medulloblastoma Links Catastrophic DNA Rearrangements with TP53 Mutations. Rausch, T., Jones, D.T., Zapatka, M., Stutz, A.M., Zichner, T., Weischenfeldt, J., Jager, N., Remke, M., Shih, D., Northcott, P.A., Pfaff, E., Tica, J., Wang, Q., Massimi, L., Witt, H., Bender, S., Pleier, S., Cin, H., Hawkins, C., Beck, C., von Deimling, A., Hans, V., Brors, B., Eils, R., Scheurlen, W., Blake, J., Benes, V., Kulozik, A.E., Witt, O., Martin, D., Zhang, C., Porat, R., Merino, D.M., Wasserman, J., Jabado, N., Fontebasso, A., Bullinger, L., Rucker, F.G., Dohner, K., Dohner, H., Koster, J., Molenaar, J.J., Versteeg, R., Kool, M., Tabori, U., Malkin, D., Korshunov, A., Taylor, M.D., Lichter, P., Pfister, S.M. & Korbel, J.O. Cell. 2012 Jan 20;148(1-2):59-71. Europe PMC

Kaposi's Sarcoma Herpesvirus microRNAs Target Caspase 3 and Regulate Apoptosis. Suffert, G., Malterer, G., Hausser, J., Viiliainen, J., Fender, A., Contrant, M., Ivacevic, T., Benes, V., Gros, F., Voinnet, O., Zavolan, M., Ojala, P.M., Haas, J.G. & Pfeffer, S. PLoS Pathog. 2011 Dec;7(12):e1002405. Epub 2011 Dec 8. Europe PMC

Iron regulatory protein-1 and -2: transcriptome-wide definition of binding mRNAs and shaping of the cellular proteome by iron regulatory proteins. Sanchez, M., Galy, B., Schwanhaeusser, B., Blake, J., Bahr-Ivacevic, T., Benes, V., Selbach, M., Muckenthaler, M.U. & Hentze, M.W. Blood. 2011 Nov 24;118(22):e168-79. Epub 2011 Sep 22. Europe PMC

Nuclear hormone 1alpha,25-dihydroxyvitamin D3 elicits a genome-wide shift in the locations of VDR chromatin occupancy. Heikkinen, S., Vaisanen, S., Pehkonen, P., Seuter, S., Benes, V. & Carlberg, C. Nucleic Acids Res. 2011 Nov 1;39(21):9181-93. Epub 2011 Aug 16. Europe PMC

Exome sequencing identifies MRPL3 mutation in mitochondrial cardiomyopathy. Galmiche, L., Serre, V., Beinat, M., Assouline, Z., Lebre, A.S., Chretien, D., Nietschke, P., Benes, V., Boddaert, N., Sidi, D., Brunelle, F., Rio, M., Munnich, A. & Rotig, A. Hum Mutat. 2011 Nov;32(11):1225-31. doi: 10.1002/humu.21562. Epub 2011 Sep14. Europe PMC

Primer Sequence Disclosure: A Clarification of the MIQE Guidelines. Bustin, S.A., Benes, V., Garson, J.A., Hellemans, J., Huggett, J., Kubista, M., Mueller, R., Nolan, T., Pfaffl, M.W., Shipley, G.L., Vandesompele, J. & Wittwer, C.T. Clin Chem. 2011 Jun;57(6):919-21. Epub 2011 Mar 18. Europe PMC

RNA-Seq analysis in mutant zebrafish reveals role of U1C protein in alternative splicing regulation. Rosel, T.D., Hung, L.H., Medenbach, J., Donde, K., Starke, S., Benes, V., Ratsch, G. & Bindereif, A. EMBO J. 2011 May 18;30(10):1965-76. Epub 2011 Apr 5. Europe PMC

The liver-specific microRNA miR-122 controls systemic iron homeostasis in mice. Castoldi, M., Vujic Spasic, M., Altamura, S., Elmen, J., Lindow, M., Kiss, J., Stolte, J., Sparla, R., D'Alessandro, L.A., Klingmuller, U., Fleming, R.E., Longerich, T., Grone, H.J., Benes, V., Kauppinen, S., Hentze, M.W. & Muckenthaler, M.U. J Clin Invest. 2011 Apr;121(4):1386-96. doi: 10.1172/JCI44883. Europe PMC

Differentially expressed genes associated with human limbal epithelial phenotypes: new molecules that potentially facilitate selection of stem cell-enriched populations. Takacs, L., Toth, E., Losonczy, G., Szanto, A., Bahr-Ivacevic, T., Benes, V., Berta, A. & Vereb, G. Invest Ophthalmol Vis Sci. 2011 Mar 10;52(3):1252-60. doi: 10.1167/iovs.10-5242. Europe PMC

Direct and indirect effects of H-NS and Fis on global gene expression control in Escherichia coli. Kahramanoglou, C., Seshasayee, A.S., Prieto, A.I., Ibberson, D., Schmidt, S., Zimmermann, J., Benes, V., Fraser, G.M. & Luscombe, N.M. Nucleic Acids Res. 2011 Mar;39(6):2073-91. doi: 10.1093/nar/gkq934. Epub 2010 Nov21. Europe PMC

Global analysis of estrogen receptor beta binding to breast cancer cell genome reveals an extensive interplay with estrogen receptor alpha for target gene regulation. Grober, O.M., Mutarelli, M., Giurato, G., Ravo, M., Cicatiello, L., De Filippo, M.R., Ferraro, L., Nassa, G., Papa, M.F., Paris, O., Tarallo, R., Luo, S., Schroth, G.P., Benes, V. & Weisz, A. BMC Genomics. 2011 Jan 14;12:36. doi: 10.1186/1471-2164-12-36. Europe PMC

CRX ChIP-seq reveals the cis-regulatory architecture of mouse photoreceptors. Corbo, J.C., Lawrence, K.A., Karlstetter, M., Myers, C.A., Abdelaziz, M., Dirkes, W., Weigelt, K., Seifert, M., Benes, V., Fritsche, L.G., Weber, B.H. & Langmann, T. Genome Res. 2010 Nov;20(11):1512-25. Epub 2010 Aug 6. Europe PMC

Expression profiling of microRNA using real-time quantitative PCR, how to use it and what is available. Benes, V. & Castoldi, M. Methods. 2010 Apr;50(4):244-9. doi: 10.1016/j.ymeth.2010.01.026. Epub 2010 Jan28. Europe PMC

Thyrotroph embryonic factor regulates light-induced transcription of repair genes in zebrafish embryonic cells. Gavriouchkina, D., Fischer, S., Ivacevic, T., Stolte, J., Benes, V. & Dekens, M.P. PLoS One. 2010 Sep 7;5(9):e12542. Europe PMC

Analysis of microribonucleic acid expression by quantitative real-time polymerase chain reaction. Benes, V., Stolte, J., Ibberson, D., Castoldi, M., Muckenthaler, M. In The PCR Revolution: Basic Technologies and Applications (S. Bustin, Ed.) Cambridge Univ Press (2010), ISBN: 978-0-521-88231-6.

An assessment of air as a source of DNA contamination encountered when performing PCR. Witt, N., Rodger, G., Vandesompele, J., Benes, V., Zumla, A., Rook, G.A. & Huggett, J.F. J Biomol Tech. 2009 Dec;20(5):236-40. Europe PMC

Widespread estrogen-dependent repression of micrornas involved in breast tumor cell growth. Maillot, G., Lacroix-Triki, M., Pierredon, S., Gratadou, L., Schmidt, S., Benes, V., Roche, H., Dalenc, F., Auboeuf, D., Millevoi, S. & Vagner, S. Cancer Res. 2009 Nov 1;69(21):8332-40. Epub 2009 Oct 13. Europe PMC

Inhibition of aurora kinases for tailored risk-adapted treatment of multiple myeloma. Hose, D., Reme, T., Meissner, T., Moreaux, J., Seckinger, A., Lewis, J.D., Benes, V., Benner, A., Hundemer, M., Hielscher, T., Shaughnessy JD, J.r, Barlogie, B., Neben, K., Kramer, A., Hillengass, J., Bertsch, U., Jauch, A., De Vos, J., Rossi, J.F., Mohler, T., Blake, J., Zimmermann, J., Klein, B. & Goldschmidt, H. Blood. 2009 Apr 30;113(18):4331-40. Epub 2009 Jan 26. Europe PMC

The MIQE guidelines: minimum information for publication of quantitative real-time PCR experiments. Bustin, S.A., Benes, V., Garson, J.A., Hellemans, J., Huggett, J., Kubista, M., Mueller, R., Nolan, T., Pfaffl, M.W., Shipley, G.L., Vandesompele, J. & Wittwer, C.T. Clin Chem. 2009 Apr;55(4):611-22. Epub 2009 Feb 26. Europe PMC

Unreliable real-time PCR analysis of human endogenous retrovirus-W (HERV-W) RNA expression and DNA copy number in multiple sclerosis. Garson, J.A., Huggett, J.F., Bustin, S.A., Pfaffl, M.W., Benes, V., Vandesompele, J. & Shipley, G.L. AIDS Res Hum Retroviruses. 2009 Mar;25(3):377-8; author reply 379-81. Europe PMC

Importin 8 is a gene silencing factor that targets argonaute proteins to distinct mRNAs. Weinmann, L., Hock, J., Ivacevic, T., Ohrt, T., Mutze, J., Schwille, P., Kremmer, E., Benes, V., Urlaub, H. & Meister, G. Cell. 2009 Feb 6;136(3):496-507. Epub 2009 Jan 22. Europe PMC

Aging and replicative senescence have related effects on human stem and progenitor cells. Wagner, W., Bork, S., Horn, P., Krunic, D., Walenda, T., Diehlmann, A., Benes, V., Blake, J., Huber, F.X., Eckstein, V., Boukamp, P. & Ho, A.D. PLoS One. 2009 Jun 9;4(6):e5846. Europe PMC

MicroRNA signatures predict oestrogen receptor, progesterone receptor and HER2/neu receptor status in breast cancer. Lowery, A.J., Miller, N., Devaney, A., McNeill, R.E., Davoren, P.A., Lemetre, C., Benes, V., Schmidt, S., Blake, J., Ball, G. & Kerin, M.J. Breast Cancer Res. 2009;11(3):R27. Epub 2009 May 11. Europe PMC

RNA degradation compromises the reliability of microRNA expression profiling. Ibberson, D., Benes, V., Muckenthaler, M.U. & Castoldi, M. BMC Biotechnol. 2009 Dec 21;9:102. Europe PMC

Cyclical DNA methylation of a transcriptionally active promoter. Metivier, R., Gallais, R., Tiffoche, C., Le Peron, C., Jurkowska, R.Z., Carmouche, R.P., Ibberson, D., Barath, P., Demay, F., Reid, G., Benes, V., Jeltsch, A., Gannon, F. & Salbert, G. Nature. 2008 Mar 6;452(7183):45-50. Europe PMC

Transient cyclical methylation of promoter DNA. Kangaspeska, S., Stride, B., Metivier, R., Polycarpou-Schwarz, M., Ibberson, D., Carmouche, R.P., Benes, V., Gannon, F. & Reid, G. Nature. 2008 Mar 6;452(7183):112-5. Europe PMC

Diverse roles of hnRNP L in mammalian mRNA processing: a combined microarray and RNAi analysis. Hung, L.H., Heiner, M., Hui, J., Schreiner, S., Benes, V. & Bindereif, A. RNA. 2008 Feb;14(2):284-96. Epub 2007 Dec 11. Europe PMC

Transcriptome profiling of estrogen-regulated genes in human primary osteoblasts reveals an osteoblast-specific regulation of the insulin-like growth factor binding protein 4 gene. Denger, S., Bahr-Ivacevic, T., Brand, H., Reid, G., Blake, J., Seifert, M., Lin, C.Y., May, K., Benes, V., Liu, E.T. & Gannon, F. Mol Endocrinol. 2008 Feb;22(2):361-79. Epub 2007 Oct 25. Europe PMC

Replicative senescence of mesenchymal stem cells: a continuous and organized process. Wagner, W., Horn, P., Castoldi, M., Diehlmann, A., Bork, S., Saffrich, R., Benes, V., Blake, J., Pfister, S., Eckstein, V. & Ho, A.D. PLoS ONE. 2008 May 21;3(5):e2213. Europe PMC

miChip: an array-based method for microRNA expression profiling using locked nucleic acid capture probes. Castoldi, M., Schmidt, S., Benes, V., Hentze, M.W. & Muckenthaler, M.U. Nat Protoc. 2008;3(2):321-9. Europe PMC

miChip: a microarray platform for expression profiling of microRNAs based on locked nucleic acid (LNA) oligonucleotide capture probes. Castoldi, M., Benes, V., Hentze, M.W. & Muckenthaler, M.U. Methods. 2007 Oct;43(2):146-52. Europe PMC

Life cycle transcriptome of the malaria mosquito Anopheles gambiae and comparison with the fruitfly Drosophila melanogaster. Koutsos, A.C., Blass, C., Meister, S., Schmidt, S., MacCallum, R.M., Soares, M.B., Collins, F.H., Benes, V., Zdobnov, E., Kafatos, F.C. & Christophides, G.K. Proc Natl Acad Sci U S A. 2007 Jul 3;104(27):11304-9. Epub 2007 Jun 11. Europe PMC

Pax-Six-Eya-Dach network during amphioxus development: conservation in vitro but context specificity in vivo. Kozmik, Z., Holland, N.D., Kreslova, J., Oliveri, D., Schubert, M., Jonasova, K., Holland, L.Z., Pestarino, M., Benes, V. & Candiani, S. Dev Biol. 2007 Jun 1;306(1):143-59. Epub 2007 Mar 13. Europe PMC

Adhesion of hematopoietic progenitor cells to human mesenchymal stem cells as a model for cell-cell interaction. Wagner, W., Wein, F., Roderburg, C., Saffrich, R., Faber, A., Krause, U., Schubert, M., Benes, V., Eckstein, V., Maul, H. & Ho, A.D. Exp Hematol. 2007 Feb;35(2):314-25. Europe PMC

Molecular composition of cell-cell contact between hematopoietic stem cells and mesenchymal stem cells. Wagner, W; Wein, F; Roderburg, C; Benes, V.; Frankhauser, M; Wuchter, P; Eckstein, V; Ho, AD Biology of blood and marrow transplantation 2007 13(2)

Modular Proteins from the Drosophila sallimus (sls) Gene and their Expression in Muscles with Different Extensibility. Burkart, C., Qiu, F., Brendel, S., Benes, V., Haag, P., Labeit, S., Leonard, K. & Bullard, B. J Mol Biol. 2007 Jan 27;. Europe PMC

A sensitive array for microRNA expression profiling (miChip) based on locked nucleic acids (LNA). Castoldi, M., Schmidt, S., Benes, V., Noerholm, M., Kulozik, A.E., Hentze, M.W. & Muckenthaler, M.U. RNA. 2006 May;12(5):913-20. Epub 2006 Mar 15. Europe PMC

The molecular elasticity of the insect flight muscle proteins projectin and kettin. Bullard, B., Garcia, T., Benes, V., Leake, M.C., Linke, W.A. & Oberhauser, A.F. Proc Natl Acad Sci U S A. 2006 Mar 21;103(12):4451-6. Epub 2006 Mar 14. Europe PMC

Adhesion of hematopoietic progenitor cells to hurnan mesenchymal stromal cells as a model for interaction between stem cells and their niche. Wagner, Wolfgang; Wein, Frederik; Roderburg, Christoph; Benes, V., Diehlmann, Anke; Krause, Ulf; Frankhauser, Maria; Wuchter, Patrick; Volker, Eckstein; Ho, Anthony D. Blood November 2006 108(11)

Vertebrate-type intron-rich genes in the marine annelid Platynereis dumerilii. Raible, F., Tessmar-Raible, K., Osoegawa, K., Wincker, P., Jubin, C., Balavoine, G., Ferrier, D., Benes, V., de Jong, P., Weissenbach, J., Bork, P. & Arendt, D. Science 2005 Nov 25;310(5752):1325-6. Europe PMC

Multiple mechanisms induce transcriptional silencing of a subset of genes, including oestrogen receptor alpha, in response to deacetylase inhibition by valproic acid and trichostatin A. Reid, G., Metivier, R., Lin, C.Y., Denger, S., Ibberson, D., Ivacevic, T., Brand, H., Benes, V., Liu, E.T. & Gannon, F. Oncogene 2005 Jul 21;24(31):4894-907. Europe PMC

Quantitative real-time RT-PCR - a perspective. Bustin, S.A., Benes, V., Nolan, T. & Pfaffl, M.W. J Mol Endocrinol 2005 Jun;34(3):597-601. Europe PMC

Alternative splicing microarrays reveal functional expression of neuron-specific regulators in Hodgkin lymphoma cells. Relogio, A., Ben-Dov, C., Baum, M., Ruggiu, M., Gemund, C., Benes, V., Darnell, R.B. & Valcarcel, J. J Biol Chem 2005 Feb 11;280(6):4779-84. Epub 2004 Nov 16. Europe PMC

Transcriptional complexes engaged by apo-estrogen receptor-alpha isoforms have divergent outcomes. Metivier, R., Penot, G., Carmouche, R.P., Hubner, M.R., Reid, G., Denger, S., Manu, D., Brand, H., Kos, M., Benes, V. & Gannon, F. EMBO J 2004 Sep 15;23(18):3653-66. Epub 2004 Sep 02. Europe PMC

Characterization of an Escherichia coli elaC deletion mutant. Schilling, O., Ruggeberg, S., Vogel, A., Rittner, N., Weichert, S., Schmidt, S., Doig, S., Franz, T., Benes, V., Andrews, S.C., Baum, M. & Meyer-Klaucke, W. Biochem Biophys Res Commun 2004 Aug 6;320(4):1365-73. Europe PMC

Targeted mutagenesis of the murine IRP1 and IRP2 genes reveals context-dependent RNA processing differences in vivo. Galy, B., Ferring, D., Benesova, M., Benes, V. & Hentze, M.W. RNA 2004 Jul;10(7):1019-25. Europe PMC

Diversity of vertebrate splicing factor U2AF35: identification of alternatively spliced U2AF1 mRNAS. Pacheco, T.R., Gomes, A.Q., Barbosa-Morais, N.L., Benes, V., Ansorge, W., Wollerton, M., Smith, C.W., Valcarcel, J. & Carmo-Fonseca, M. J Biol Chem. 2004 Jun 25;279(26):27039-49. Epub 2004 Apr 19. Europe PMC

Developmentally regulated switching of titin size alters myofibrillar stiffness in the perinatal heart. Opitz, C.A., Leake, M.C., Makarenko, I., Benes, V. & Linke, W.A. Circ Res. 2004 Apr 16;94(7):967-75. Epub 2004 Feb 26. Europe PMC

Microcontact printing of DNA molecules. Lange, S.A., Benes, V., Kern, D.P., Horber, J.K. & Bernard, A. Anal Chem. 2004 Mar 15;76(6):1641-7. Europe PMC

BAC engineering for the generation of ES cell-targeting constructs and mouse transgenes. Testa, G., Vintersten, K., Zhang, Y., Benes, V., Muyrers, J.P. & Stewart, A.F. Methods Mol Biol. 2004;256:123-39. Europe PMC

ET recombination: DNA engineering using homologous recombination in E. coli. Muyrers, J.P., Zhang, Y., Benes, V., Testa, G., Rientjes, J.M. & Stewart, A.F. Methods Mol Biol 2004;256:107-21. Europe PMC

Standardization of protocols in cDNA microarray analysis. Benes, V. & Muckenthaler, M. Trends Biochem Sci 2003 May;28(5):244-9. Europe PMC

Engineering the mouse genome with bacterial artificial chromosomes to create multipurpose alleles. Testa, G., Zhang, Y., Vintersten, K., Benes, V., Pijnappel, W.W., Chambers, I., Smith, A.J., Smith, A.G. & Stewart, A.F. Nat Biotechnol 2003 Apr;21(4):443-7. Europe PMC

Cloning and developmental expression of amphioxus Dachschund. Candiani, S., Kreslova, J., Benes, V., Oliveri, D., Castagnola, P., Pestarino, M. & Kozmik, Z. Gene Expr Patterns 2003 Mar;3(1):65-9. Europe PMC

Automatisierte DNA-Extraktion durch Kombination von Liquid Handling und Zentrifugation. Zimmermann, J., Zinn, T., Benes, V., Ibberson, D., Boulin, C., Griebel, R., Lomax, P., Mausel, M., Schubell, U. & Gunther-Eberle, K. Laborwelt 2003 4(5) 41-42

Small is beautiful: Flexible Automatisierunginsel in der genomischen Forschung. Zimmermann, J., Schmidt, S., Benes, V., Boulin, C., Griebel, R., Lomax, P., Zinn, T., Mausel, M., Schubell, U. & Gunther-Eberle, K. Biospektrum 2003 9 764-766

The genome sequence of the malaria mosquito Anopheles gambiae. Holt, R.A., Subramanian, G.M., Halpern, A., Sutton, G.G., Charlab, R., Nusskern, D.R., Wincker, P., Clark, A.G., Ribeiro, J.M., Wides, R., Salzberg, S.L., Loftus, B., Yandell, M., Majoros, W.H., Rusch, D.B., Lai, Z., Kraft, C.L., Abril, J.F., Anthouard, V., Arensburger, P., Atkinson, P.W., Baden, H., de Berardinis, V., Baldwin, D., Benes, V., Biedler, J., Blass, C., Bolanos, R., Boscus, D., Barnstead, M., Cai, S., Center, A., Chatuverdi, K., Christophides, G.K., Chrystal, M.A., Clamp, M., Cravchik, A., Curwen, V., Dana, A., Delcher, A., Dew, I., Evans, C.A., Flanigan, M., Grundschober-Freimoser, A., Friedli, L., Gu, Z., Guan, P., Guigo, R., Hillenmeyer, M.E., Hladun, S.L., Hogan, J.R., Hong, Y.S., Hoover, J., Jaillon, O., Ke, Z., Kodira, C., Kokoza, E., Koutsos, A., Letunic, I., Levitsky, A., Liang, Y., Lin, J.J., Lobo, N.F., Lopez, J.R., Malek, J.A., McIntosh, T.C., Meister, S., Miller, J., Mobarry, C., Mongin, E., Murphy, S.D., O'Brochta, D.A., Pfannkoch, C., Qi, R., Regier, M.A., Remington, K., Shao, H., Sharakhova, M.V., Sitter, C.D., Shetty, J., Smith, T.J., Strong, R., Sun, J., Thomasova, D., Ton, L.Q., Topalis, P., Tu, Z., Unger, M.F., Walenz, B., Wang, A., Wang, J., Wang, M., Wang, X., Woodford, K.J., Wortman, J.R., Wu, M., Yao, A., Zdobnov, E.M., Zhang, H., Zhao, Q., Zhao, S., Zhu, S.C., Zhimulev, I., Coluzzi, M., della Torre, A., Roth, C.W., Louis, C., Kalush, F., Mural, R.J., Myers, E.W., Adams, M.D., Smith, H.O., Broder, S., Gardner, M.J., Fraser, C.M., Birney, E., Bork, P., Brey, P.T., Venter, J.C., Weissenbach, J., Kafatos, F.C., Collins, F.H. & Hoffman, S.L. Science 2002 Oct 4;298(5591):129-49. Europe PMC

A genomic switch at the transition from cell proliferation to terminal differentiation in the Drosophila eye. Jasper, H., Benes, V., Atzberger, A., Sauer, S., Ansorge, W. & Bohmann, D. Dev Cell 2002 Oct;3(4):511-21. Europe PMC

Functional equivalency of amphioxus and vertebrate Pax258 transcription factors suggests that the activation of mid-hindbrain specific genes in vertebrates occurs via the recruitment of Pax regulatory elements. Krelova, J., Holland, L.Z., Schubert, M., Burgtorf, C., Benes, V. & Kozmik, Z. Gene 2002 Jan 9;282(1-2):143-50. Europe PMC

The genomic response of the Drosophila embryo to JNK signaling. Jasper, H., Benes, V., Schwager, C., Sauer, S., Clauder-Munster, S., Ansorge, W. & Bohmann, D. Dev Cell 2001 Oct;1(4):579-86. Europe PMC

Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat, M., Lemcke, K., Rieger, M., Ansorge, W., Unseld, M., Fartmann, B., Valle, G., Blocker, H., Perez-Alonso, M., Obermaier, B., Delseny, M., Boutry, M., Grivell, L.A., Mache, R., Puigdomenech, P., De Simone, V., Choisne, N., Artiguenave, F., Robert, C., Brottier, P., Wincker, P., Cattolico, L., Weissenbach, J., Saurin, W., Quetier, F., Schafer, M., Muller-Auer, S., Gabel, C., Fuchs, M., Benes, V., Wurmbach, E., Drzonek, H., Erfle, H., Jordan, N., Bangert, S., Wiedelmann, R., Kranz, H., Voss, H., Holland, R., Brandt, P., Nyakatura, G., Vezzi, A., D'Angelo, M., Pallavicini, A., Toppo, S., Simionati, B., Conrad, A., Hornischer, K., Kauer, G., Lohnert, T.H., Nordsiek, G., Reichelt, J., Scharfe, M., Schon, O., Bargues, M., Terol, J., Climent, J., Navarro, P., Collado, C., Perez-Perez, A., Ottenwalder, B., Duchemin, D., Cooke, R., Laudie, M., Berger-Llauro, C., Purnelle, B., Masuy, D., de Haan, M., Maarse, A.C., Alcaraz, J.P., Cottet, A., Casacuberta, E., Monfort, A., Argiriou, A., flores, M., Liguori, R., Vitale, D., Mannhaupt, G., Haase, D., Schoof, H., Rudd, S., Zaccaria, P., Mewes, H.W., Mayer, K.F., Kaul, S., Town, C.D., Koo, H.L., Tallon, L.J., Jenkins, J., Rooney, T., Rizzo, M., Walts, A., Utterback, T., Fujii, C.Y., Shea, T.P., Creasy, T.H., Haas, B., Maiti, R., Wu, D., Peterson, J., Van Aken, S., Pai, G., Militscher, J., Sellers, P., Gill, J.E., Feldblyum, T.V., Preuss, D., Lin, X., Nierman, W.C., Salzberg, S.L., White, O., Venter, J.C., Fraser, C.M., Kaneko, T., Nakamura, Y., Sato, S., Kato, T., Asamizu, E., Sasamoto, S., Kimura, T., Idesawa, K., Kawashima, K., Kishida, Y., Kiyokawa, C., Kohara, M., Matsumoto, M., Matsuno, A., Muraki, A., Nakayama, S., Nakazaki, N., Shinpo, S., Takeuchi, C., Wada, T., Watanabe, A., Yamada, M., Yasuda, M. & Tabata, S. Nature 2000 Dec 14;408(6814):820-2. Europe PMC

Point mutation of bacterial artificial chromosomes by ET recombination. Muyrers, J.P., Zhang, Y., Benes, V., Testa, G., Ansorge, W. & Stewart, A.F. EMBO Rep. 2000 Sep;1(3):239-43. Europe PMC

A member of a gene family on Xp22.3, VCX-A, is deleted in patients with X-linked nonspecific mental retardation. Fukami, M., Kirsch, S., Schiller, S., Richter, A., Benes, V., Franco, B., Muroya, K., Rao, E., Merker, S., Niesler, B., Ballabio, A., Ansorge, W., Ogata, T. & Rappold, G.A. Am J Hum Genet 2000 Sep;67(3):563-73. Europe PMC

An estimate of large-scale sequencing accuracy. Hill, F., Gemund, C., Benes, V., Ansorge, W. & Gibson, T.J. EMBO Rep. 2000 Jul;1(1):29-31. Europe PMC

Anopheles gambiae pilot gene discovery project: identification of mosquito innate immunity genes from expressed sequence tags generated from immune-competent cell lines. Dimopoulos, G., Casavant, T.L., Chang, S., Scheetz, T., Roberts, C., Donohue, M., Schultz, J., Benes, V., Bork, P., Ansorge, W., Soares, M.B. & Kafatos, F.C. Proc Natl Acad Sci U S A 2000 Jun 6;97(12):6619-24 Europe PMC

Genetic diversity of Borrelia burgdorferi sensu lato in ticks from mainland Portugal. De Michelis, S., Sewell, H.S., Collares-Pereira, M., Santos-Reis, M., Schouls, L.M., Benes, V., Holmes, E.C. & Kurtenbach, K. J Clin Microbiol 2000 Jun;38(6):2128-33. Europe PMC

Progress in Arabidopsis genome sequencing and functional genomics. Wambutt, R., Murphy, G., Volckaert, G., Pohl, T., Dusterhoft, A., Stiekema, W., Entian, K.D., Terryn, N., Harris, B., Ansroge, W., Brandt, P., Grivell, L., Rieger, M., Weichselgartner, M., de Simone, V., Obermaier, B., Mache, R., Muller, M., Kreis, M., Delseny, M., Puigdomenech, P., Watson, M., Schmidtheini, T., Reichert, B., Portatelle, D., Perez-Alonso, M., Bountry, M., Bancroft, I., Vos, P., Hoheisel, J., Zimmermann, W., Wedler, H., Ridley, P., Langham, S.A., McCullagh, B., Bilham, L., Robben, J., Van der Schueren, J., Grymonprez, B., Chuang, Y.J., Vandenbussche, F., Braeken, M., Weltjens, I., Voet, M., Bastiens, I., Aert, R., Defoor, E., Weitzenegger, T., Bothe, G. & Rose, M. J Biotechnol 2000 Mar 31;78(3):281-92. Europe PMC

Sequence and expression of the kettin gene in drosophila melanogaster and caenorhabditis elegans. Kolmerer, B., Clayton, J., Benes, V., Allen, T., Ferguson, C., Leonard, K., Weber, U., Knekt, M., Ansorge, W., Labeit, S. & Bullard, B. J Mol Biol 2000 Feb 18;296(2):435-48 Europe PMC

BAC trimming: Minimizing clone overlaps. Hill, F., Benes, V., Thomasova, D., Stewart, A.F., Kafatos, F.C. & Ansorge, W. Genomics 2000 Feb 15;64(1):111-113 Europe PMC

Genomic locus and promoter region of rat Smad7, an important antagonist of TGFbeta signaling. Stopa, M., Benes, V., Ansorge, W., Gressner, A.M. & Dooley, S. Mamm Genome 2000 Feb;11(2):169-76 Europe PMC

SAGE techniques in analysis of transcript profiles from yeast grown on two different carbon sources. Kal, A.J., van Zonnenveld, A.J., Benes, V. van den Berg, M., Groot Koerkamp, M., Albermann, K., Strack, N., Ruijter, J.M., Richter, A., Dujon, B. Ansorge, W. & Tabak, H.F. In "DNA micro-array workshop", (2000) Frankfurt, Dechema, 39, 75

Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. Mayer, K., Schuller, C., Wambutt, R., Murphy, G., Volckaert, G., Pohl, T., Dusterhoft, A., Stiekema, W., Entian, K.D., Terryn, N., Harris, B., Ansorge, W., Brandt, P., Grivell, L., Rieger, M., Weichselgartner, M., de Simone, V., Obermaier, B., Mache, R., Muller, M., Kreis, M., Delseny, M., Puigdomenech, P., Watson, M., McCombie, W.R. & et, al Nature 1999 Dec 16;402(6763):769-77 Europe PMC

Sec61beta, a subunit of the protein translocation channel, is required during Drosophila development. Valcarcel, R., Weber, U., Jackson, D.B., Benes, V., Ansorge, W., Bohmann, D. & Mlodzik, M. J Cell Sci 1999 Dec;112 ( Pt 23):4389-96 Europe PMC

DNA binding and transactivating properties of the paired and homeobox protein Pax4. Kalousova, A., Benes, V., Paces, J., Paces, V. & Kozmik, Z. Biochem Biophys Res Commun 1999 Jun 16;259(3):510-8. Europe PMC

Dynamics of gene expression revealed by comparison of serial analysis of gene expression transcript profiles from yeast grown on two different carbon sources. Kal, A.J., van Zonneveld, A.J., Benes, V., van den Berg, M., Koerkamp, M.G., Albermann, K., Strack, N., Ruijter, J.M., Richter, A., Dujon, B., Ansorge, W. & Tabak, H.F. Mol Biol Cell 1999 Jun;10(6):1859-72 Europe PMC

5000 bases in a single sequencing reaction on ARAKIS, towards 1 mega base DNA sequencer with automated loading. Stegemann, J., Ventzki, R., Erfle, H., Schwager, C., Faulstich, K., Benes, V., Zimmermann, J., Li, Y. and Ansorge, W. In "Genome Sequencing & Biology", Abstract book, Cold Spring Harbour Laboratory, p. 222

5000 bases in a single sequencing reaction on ARAKIS, towards 1 Mega base DNA sequencer with automated loading Stegemann, J., Ventzki, R., Erfle, H., Schwager, C., Faulstich, K., Benes, V., Zimmermann, J., Li, Y. & Ansorge, W. In "AMS '99, 6th International Automation in Mapping and DNA Sequencing Conference Abstract Book", The Sanger Centre, Hinxton, Cambridge, UK, p. 25

5000 bases in a single sequencing reaction on ARAKIS, towards 1 mega base DNA sequencer with automated loading. Stegemann, J., Ventzki, R., Erfle, H., Schwager, C., Faulstich, K., Benes, V., Zimmermann, J., Li, Y. & Ansorge, W. In "Microbial and Comparative Genomics", 11th Int. Genome Sequencing and Analysis Conference, Abstract book, p. 97

Bacteriophage phi29 early protein p17 is conditionally required for the first rounds of viral DNA replication. Crucitti, P., Lazaro, J.M., Benes, V. & Salas, M. Gene 1998 Nov 26;223(1-2):135-42. Europe PMC

Analysis of 1.9 Mb of contiguous sequence from chromosome 4 of Arabidopsis thaliana Bevan, M., Bancroft, I., Bent, E., Love, K., Goodman, H., Dean, C., Bergkamp, R., Dirkse, W., Van Staveren, M., Stiekema, W., Drost, L., Ridley, P., Hudson, S.A., Patel, K., Murphy, G., Piffanelli, P., Wedler, H., Wedler, E., Wambutt, R., Weitzenegger, T., Pohl, T.M., Terryn, N., Gielen, J., Villarroel, R., Chalwatzis, N. & et, al Nature 1998 Jan 29 391(6666) 485-488 Europe PMC

Systematic gain-of-function genetics in Drosophila. Rorth, P., Szabo, K., Bailey, A., Laverty, T., Rehm, J., Rubin, G.M., Weigmann, K., Milan, M., Benes, V., Ansorge, W. & Cohen, S.M. Development. 1998 Mar;125(6):1049-57. Europe PMC

Simultaneous loading of 200 sample lanes for DNA sequencing on vertical and horizontal, standard and ultrathin gels. Ventzki, R., Stegemann, J., Benes, V., Rechmann, S. & Ansorge, W. In "10th International Genome Sequencing and Analysis Conference Abstract Book", Miami Beach, Florida, USA, C-57

Towards 1 mega base automated DNA sequencer with automated loading: cDNA and SAGE projects. Stegemann, J., Ventzki, R., Schwager, C., Benes, V., Zimmermann, J. & Ansorge, W. In "The 1998 CSH Meeting on Genome Mapping, Sequencing and Biology Abstract Book", Cold Spring Harbor, New Yrk, USA, p. 107

High throughput 1 mega base automated DNA sequencer with automated loading. Stegemann, J., Ventzki, R., Schwager, C., Benes, V., Faulstich, K., Zimmermann, J. & Ansorge, W. In "5th International Automation in Mapping and DNA Sequencing Conference Abstract Book", Washington University, 11

Towards 1 mega base automated DNA sequencer with automated loading. Stegemann, J., Ventzki, R., Schwager, C., Benes, V., Faulstich, K., Zimmermann, J. & Ansorge, W. In Microbial & Comparative Genomics, Vol. 3, No. 3, 1998, "10th International Genome Sequencing and Analysis Conference Abstract Book", Addenda p. 2, Miami Beach, Florida, USA

4000 bases in a single sequencing reaction on ARAKIS, as sequencing system for 120 clones and throughput of 120 kb per run. Stegemann, J., Ventzki, R., Faulstich, K., Benes, V., Zimmermann, J., Li, Y. & Ansorge, W. In "10th International Genome Sequencing and Analysis Conference Abstract Book", Miami Beach, Florida, C-28

Strawberry vein banding virus--definitive member of the genus Caulimovirus. Petrzik, K., Benes, V., Mraz, I., Honetslegrova-Franova, J., Ansorge, W. & Spak, J. Virus Genes 1998 16(3) 303-305 Europe PMC

Bacteriophage B103: complete DNA sequence of its genome and relationship to other Bacillus phages. Pecenkova, T., Benes, V., Paces, J., Vlcek, C. & Paces, V. Gene 1997 Oct 15;199(1-2):157-63. Europe PMC

Automated cycle sequencing with Taquenase: protocols for internal labeling, dye primer and "doublex" simultaneous sequencing. Voss, H., Nentwich, U., Duthie, S., Wiemann, S., Benes, V., Zimmermann, J. & Ansorge, W. Biotechniques 1997 Aug;23(2):312-8 Europe PMC

Direct primer walking on P1 plasmid DNA. Benes, V., Kilger, C., Voss, H., Paabo, S. & Ansorge, W. Biotechniques 1997 Jul;23(1):98-100 Europe PMC

DNA sequencing and analysis of 130 kb from yeast chromosome XV. Voss, H., Benes, V., Andrade, M.A., Valencia, A., Rechmann, S., Teodoru, C., Schwager, C., Paces, V., Sander, C. & Ansorge, W. Yeast 1997 Jun 15;13(7):655-72 Europe PMC

Simultaneous loading of 200 sample lanes for DNA sequencing on vertical and horizontal, standard and ultrathin gels. Erfle, H., Ventzki, R., Voss, H., Rechmann, S., Benes, V., Stegemann, J. & Ansorge, W. Nucleic Acids Res 1997 Jun 1;25(11):2229-30 Europe PMC

The nucleotide sequence of Saccharomyces cerevisiae chromosome XII. Johnston, M., Hillier, L., Riles, L., Albermann, K., Andre, B., Ansorge, W., Benes, V., Bruckner, M., Delius, H., Dubois, E., Dusterhoft, A., Entian, K.D., Floeth, M., Goffeau, A., Hebling, U., Heumann, K., Heuss-Neitzel, D., Hilbert, H., Hilger, F., Kleine, K., Kotter, P., Louis, E.J., Messenguy, F., Mewes, H.W., Hoheisel, J.D. & et, al Nature 1997 May 29;387(6632 Suppl):87-90 Europe PMC

The nucleotide sequence of Saccharomyces cerevisiae chromosome XV. Dujon, B., Albermann, K., Aldea, M., Alexandraki, D., Ansorge, W., Arino, J., Benes, V., Bohn, C., Bolotin-Fukuhara, M., Bordonne, R., Boyer, J., Camasses, A., Casamayor, A., Casas, C., Cheret, G., Cziepluch, C., Daignan-Fornier, B., Dang, D.V., de Haan, M., Delius, H., Durand, P., Fairhead, C., Feldmann, H., Gaillon, L., Kleine, K. & et, al Nature 1997 May 29;387(6632 Suppl):98-102 Europe PMC

The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI. Bussey, H., Storms, R.K., Ahmed, A., Albermann, K., Allen, E., Ansorge, W., Araujo, R., Aparicio, A., Barrell, B., Badcock, K., Benes, V., Botstein, D., Bowman, S., Bruckner, M., Carpenter, J., Cherry, J.M., Chung, E., Churcher, C., Coster, F., Davis, K., Davis, R.W., Dietrich, F.S., Delius, H., DiPaolo, T., Hani, J. & et, al Nature 1997 May 29;387(6632 Suppl):103-5 Europe PMC

Molecular characterization of two high affinity sulfate transporters in Saccharomyces cerevisiae. Cherest, H., Davidian, J.C., Thomas, D., Benes, V., Ansorge, W. & Surdin-Kerjan, Y. Genetics 1997 Mar;145(3):627-35 Europe PMC

System for simultaneous sequencing of 240 clones with 5 dyes, 1300 bases readings (up to 5000 bases per sequence reaction) with novel loading technique for vertical and horizontal standard or ultrathin gels. Stegemann, J., Ventzki, R., Schwager, C., Erfle, H., Benes, V., Voss, H., & Ansorge, W. FASEB J. 1997 11(9)

Sequencing and analysis of 51 kb on the right arm of chromosome XV from Saccharomyces cerevisiae reveals 30 open reading frames. Wiemann, S., Rechmann, S., Benes, V., Voss, H., Schwager, C., Vlcek, C., Stegemann, J., Zimmermann, J., Erfle, H., Paces, V. & Ansorge, W. Yeast 1996 Mar 15;12(3):281-8 Europe PMC

"Doublex" fluorescent DNA sequencing: two independent sequences obtained simultaneously in one reaction with internal labeling and unlabeled primers. Wiemann, S., Stegemann, J., Zimmermann, J., Voss, H., Benes, V. & Ansorge, W. Anal Biochem 1996 Feb 15;234(2):166-74 Europe PMC

Sequencing 39,350 bp of Saccharomyces cerevisiae chromosome XII utilizing ordered shotgun libraries. Scholler, P., Benes, V., Voss, H., Ansorge, W. & Hoheisel, J.D. DNA Seq 1996;6(5):257-62 Europe PMC

120 clones throughput automated DNA sequencing system and sequencing 500 kB of yeast genome. Ansorge, W., Stegemann, J., Ventzki, R., Zimmermann, J., Schwager, C., Benes, V., Drzonek, H., Erfle, H. & Voss, H. Genome mapping & sequencing meeting, May 8-12, 1996, Cold Spring Harbor, New York.

Nucleotide sequence analysis of a 30-kb region of the bovine herpesvirus 1 genome which exhibits a colinear gene arrangement with the UL21 to UL4 genes of herpes simplex virus. Vlcek, C., Benes, V., Lu, Z., Kutish, G.F., Paces, V., Rock, D., Letchworth, G.J. & Schwyzer, M. Virology. 1995 Jun 20;210(1):100-8. Europe PMC

Protein-induced bending or flexing at the 5'-end of the duck beta A-globin promoter. Matlova, R., Horska, K., Benes, V., Cvekl, A. & Sponar, J. Gene. 1995 Apr 24;156(2):277-81. Europe PMC

M13 and pUC vectors with new unique restriction sites for cloning. Benes, V., Hostomsky, Z., Arnold, L. & Paces, V. Gene. 1993 Aug 16;130(1):151-2. Europe PMC

Isolation, biochemical characterization and crystallization of the p15gag proteinase of myeloblastosis associated virus expressed in E. coli. Pichova, I., Strop, P., Sedlacek, J., Kapralek, F., Benes, V., Travnicek, M., Pavlickova, L., Soucek, M., Kostka, V. & Foundling, S. Int J Biochem. 1992 Feb;24(2):235-42. Europe PMC

Nucleotide sequence of the right early region of Bacillus phage phi 15 and comparison with related phages: reorganization of gene 17 during evolution. Benes, V., Arnold, L., Smrt, J. & Paces, V. Gene. 1989 Feb 20;75(2):341-7. Europe PMC