Joachim Büch - Max Planck Institute for Informatics

Dr. Joachim Büch

Address: Max-Planck-Institut für Informatik
Saarland Informatics Campus
Campus E1 4
66123 Saarbrücken
Location: E1 4 - 521
Phone: +49 681 9325 3118
Fax: +49 681 9325 3099
E-mail: Get email via email

Private Homepage: Laboratory for viral resistance research

Academic Degree

Dr.rer.nat. (Mathematics), Saarland University, 1984
Thesis: Bifurkation von Minimalflächen und elementare Katastrophen
Advisor: Prof. Dr. F. Tomi
Diplom (Mathematics), Saarland University, 1980
Thesis: Ein Morse-Lemma für ausgeartete kritische Punkte und seine Anwendung auf ein spezielles Plateauproblem
Advisor: Prof. Dr. F. Tomi

Employment

Publications

Conference paper

BIOIMPR-CS

L. Feuerbach, C. Bock, K. Halachev, J. Buech, and T. Lengauer

“Towards Comparative Epigenomics: A Software Toolkit For Cross-Species Epigenome Data Analysis,” in Abstracts of the 2nd MC-GARD Meeting : Interplay Among Genetics, Epigenetics and Non-coding RNA’s, 2008.

@inproceedings{Feuerbach2008,
TITLE = {Towards Comparative Epigenomics: A Software Toolkit For Cross-Species Epigenome Data Analysis},
AUTHOR = {Feuerbach, Lars and Bock, Christoph and Halachev, Konstantin and Buech, Joachim and Lengauer, Thomas},
LANGUAGE = {eng},
LOCALID = {Local-ID: C125756E0038A185-DF2AEF4A18B7C00FC1257507004442BB-Feuerbach2008},
PUBLISHER = {IOS},
YEAR = {2008},
DATE = {2008},
BOOKTITLE = {Abstracts of the 2nd MC-GARD Meeting : Interplay Among Genetics, Epigenetics and Non-coding RNA's},
EDITOR = {Meijer, Gerrit and Ried, Thomas and Giaretti, Walter and Hamilton, Peter},
PAGES = {230--231},
SERIES = {Cellular oncology},
}

Endnote

%0 Conference Proceedings
%A Feuerbach, Lars
%A Bock, Christoph
%A Halachev, Konstantin
%A Buech, Joachim
%A Lengauer, Thomas
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
International Max Planck Research School, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
International Max Planck Research School, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T Towards Comparative Epigenomics: A Software Toolkit For Cross-Species Epigenome Data Analysis : 
%G eng
%U http://hdl.handle.net/11858/00-001M-0000-000F-1D41-4
%F EDOC: 428070
%F OTHER: Local-ID: C125756E0038A185-DF2AEF4A18B7C00FC1257507004442BB-Feuerbach2008
%I IOS
%D 2008
%B Untitled Event
%Z date of event: 2008-05-04 - 2008-05-07
%C Madrid, Spain
%B Abstracts of the 2nd MC-GARD Meeting : Interplay Among Genetics, Epigenetics and Non-coding RNA's
%E Meijer, Gerrit; Ried, Thomas; Giaretti, Walter; Hamilton, Peter
%P 230 - 231
%I IOS
%B Cellular oncology

Article

BIO

C. Bock, K. Halachev, J. Büch, and T. Lengauer

“EpiGRAPH: user-friendly software for statistical analysis and prediction of (epi)genomic data,” Genome Biology, vol. 10, 2009.

@article{Bock2009a,
TITLE = {{EpiGRAPH}: user-friendly software for statistical analysis and prediction of (epi)genomic data},
AUTHOR = {Bock, Christoph and Halachev, Konstantin and B{\"u}ch, Joachim and Lengauer, Thomas},
LANGUAGE = {eng},
ISBN = {14656906},
URL = {http://genomebiology.com/2009/10/2/R14},
DOI = {10.1186/gb-2009-10-2-r14},
LOCALID = {Local-ID: C125673F004B2D7B-02635734C5DA789AC1257574006AC7FF-Bock2009a},
PUBLISHER = {BioMed Central},
ADDRESS = {London},
YEAR = {2009},
JOURNAL = {Genome Biology},
VOLUME = {10},
EID = {R14},
}

Endnote

%0 Journal Article
%A Bock, Christoph
%A Halachev, Konstantin
%A B&#252;ch, Joachim
%A Lengauer, Thomas
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T EpiGRAPH: user-friendly software for statistical analysis and prediction of (epi)genomic data : 
%G eng
%U http://hdl.handle.net/11858/00-001M-0000-000F-1A25-9
%F EDOC: 520894
%R 10.1186/gb-2009-10-2-r14
%U http://genomebiology.com/2009/10/2/R14
%F OTHER: Local-ID: C125673F004B2D7B-02635734C5DA789AC1257574006AC7FF-Bock2009a
%7 2009
%D 2009
%* Review method: peer-reviewed
%J Genome Biology
%V 10
%Z sequence number: R14
%I BioMed Central
%C London
%@ 14656906

Article

BIO

A. Gress, V. Ramensky, J. Büch, A. Keller, and O. V. Kalinina

“StructMAn: Annotation of Single-nucleotide Polymorphisms in the Structural Context,” Nucleic Acids Research, vol. 44, no. W1/Web Server issue, 2016.

@article{Gress_Buech_Kalinina2016,
TITLE = {{StructMAn}: {A}nnotation of Single-nucleotide Polymorphisms in the Structural Context},
AUTHOR = {Gress, Alexander and Ramensky, Vasily and B{\"u}ch, Joachim and Keller, Andreas and Kalinina, Olga V.},
LANGUAGE = {eng},
DOI = {10.1093/nar/gkw364},
PUBLISHER = {Oxford University Press},
ADDRESS = {Oxford, UK},
YEAR = {2016},
DATE = {2016},
JOURNAL = {Nucleic Acids Research},
VOLUME = {44},
NUMBER = {W1/Web Server issue},
PAGES = {W463--W468},
}

Endnote

%0 Journal Article
%A Gress, Alexander
%A Ramensky, Vasily
%A B&#252;ch, Joachim
%A Keller, Andreas
%A Kalinina, Olga V.
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
External Organizations
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
External Organizations
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T StructMAn: Annotation of Single-nucleotide Polymorphisms in the Structural Context : 
%G eng
%U http://hdl.handle.net/11858/00-001M-0000-002B-42A2-6
%R 10.1093/nar/gkw364
%2 PMC4987916
%7 2016
%D 2016
%* Review method: peer-reviewed
%J Nucleic Acids Research
%V 44
%N W1/Web Server issue
%& W463
%P W463 - W468
%I Oxford University Press
%C Oxford, UK

Article

BIO

A. Pironti, H. Walter, N. Pfeifer, E. Knops, N. Lübke, J. Büch, S. Di Giambenedetto, R. Kaiser, and T. Lengauer

“Determination of Phenotypic Resistance Cutoffs from Routine Clinical Data,” Journal of Acquired Immune Deficiency Syndromes, vol. 74, no. 5, 2017.

@article{Pironti_Pfeifer_Lengauer2017,
TITLE = {Determination of Phenotypic Resistance Cutoffs from Routine Clinical Data},
AUTHOR = {Pironti, Alejandro and Walter, Hauke and Pfeifer, Nico and Knops, Elena and L{\"u}bke, Nadine and B{\"u}ch, Joachim and Di Giambenedetto, Simona and Kaiser, Rolf and Lengauer, Thomas},
LANGUAGE = {eng},
DOI = {10.1097/QAI.0000000000001198},
PUBLISHER = {Lippincott Williams \& Wilkins},
ADDRESS = {Philadelphia, PA},
YEAR = {2017},
JOURNAL = {Journal of Acquired Immune Deficiency Syndromes},
VOLUME = {74},
NUMBER = {5},
PAGES = {e129--e137},
}

Endnote

%0 Journal Article
%A Pironti, Alejandro
%A Walter, Hauke
%A Pfeifer, Nico
%A Knops, Elena
%A L&#252;bke, Nadine
%A B&#252;ch, Joachim
%A Di Giambenedetto, Simona
%A Kaiser, Rolf
%A Lengauer, Thomas
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
External Organizations
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
External Organizations
External Organizations
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
External Organizations
External Organizations
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T Determination of Phenotypic Resistance Cutoffs from Routine Clinical Data : 
%G eng
%U http://hdl.handle.net/11858/00-001M-0000-002C-3F1D-D
%R 10.1097/QAI.0000000000001198
%7 2017
%D 2017
%J Journal of Acquired Immune Deficiency Syndromes
%O JAIDS
%V 74
%N 5
%& e129
%P e129 - e137
%I Lippincott Williams & Wilkins
%C Philadelphia, PA

Article

BIO

A. Altmann, M. Rosen-Zvi, M. Prosperi, E. Aharoni, H. Neuvirth, A. Sönnerborg, E. Schülter, J. Büch, D. Struck, Y. Peres, F. Incardona, R. Kaiser, M. Zazzi, and T. Lengauer

“Comparison of Classifier Fusion Methods for Predicting Response to Anti HIV-1 Therapy,” PLoS ONE, vol. 3, no. 10, 2008.

@article{Altmann2008a,
TITLE = {Comparison of Classifier Fusion Methods for Predicting Response to Anti {HIV}-1 Therapy},
AUTHOR = {Altmann, Andre and Rosen-Zvi, Michal and Prosperi, Mattia and Aharoni, Ehud and Neuvirth, Hani and S{\"o}nnerborg, Anders and Sch{\"u}lter, Eugen and B{\"u}ch, Joachim and Struck, Daniel and Peres, Yardena and Incardona, Francesca and Kaiser, Rolf and Zazzi, Maurizio and Lengauer, Thomas},
LANGUAGE = {eng},
ISSN = {1932-6203},
URL = {http://dx.plos.org/10.1371/journal.pone.0003470},
DOI = {10.1371/journal.pone.0003470},
LOCALID = {Local-ID: C125756E0038A185-4014325E58E801B4C125750D006D87CB-Altmann2008a},
YEAR = {2008},
DATE = {2008},
JOURNAL = {PLoS ONE},
VOLUME = {3},
NUMBER = {10},
EID = {e3470},
}

Endnote

%0 Journal Article
%A Altmann, Andre
%A Rosen-Zvi, Michal
%A Prosperi, Mattia
%A Aharoni, Ehud
%A Neuvirth, Hani
%A S&#246;nnerborg, Anders
%A Sch&#252;lter, Eugen
%A B&#252;ch, Joachim
%A Struck, Daniel
%A Peres, Yardena
%A Incardona, Francesca
%A Kaiser, Rolf
%A Zazzi, Maurizio
%A Lengauer, Thomas
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T Comparison of Classifier Fusion Methods for Predicting Response to Anti HIV-1 Therapy : 
%G eng
%U http://hdl.handle.net/11858/00-001M-0000-000F-1B3E-9
%F EDOC: 428265
%R 10.1371/journal.pone.0003470
%U http://dx.plos.org/10.1371/journal.pone.0003470
%F OTHER: Local-ID: C125756E0038A185-4014325E58E801B4C125750D006D87CB-Altmann2008a
%D 2008
%J PLoS ONE
%V 3
%N 10
%Z sequence number: e3470
%@ false

Article

BIO

H. Blankenburg, F. Ramírez, J. Büch, and M. Albrecht

“DASMIweb: Online Integration, Analysis and Assessment of Distributed Protein Interaction Data,” Nucleic Acids Research, vol. 37, no. Web Server issue, 2009.

@article{Albrecht2009b,
TITLE = {{DASMIweb}: Online Integration, Analysis and Assessment of Distributed Protein Interaction Data},
AUTHOR = {Blankenburg, Hagen and Ram{\'i}rez, Fidel and B{\"u}ch, Joachim and Albrecht, Mario},
LANGUAGE = {eng},
DOI = {10.1093/nar/gkp438},
LOCALID = {Local-ID: C125673F004B2D7B-548AC988A29CD251C12575EC0053A799-Albrecht2009b},
PUBLISHER = {Oxford University Press},
ADDRESS = {Oxford},
YEAR = {2009},
DATE = {2009},
JOURNAL = {Nucleic Acids Research},
VOLUME = {37},
NUMBER = {Web Server issue},
PAGES = {W122--W128},
}

Endnote

%0 Journal Article
%A Blankenburg, Hagen
%A Ram&#237;rez, Fidel
%A B&#252;ch, Joachim
%A Albrecht, Mario
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T DASMIweb: Online Integration, Analysis and Assessment of Distributed Protein Interaction Data : 
%G eng
%U http://hdl.handle.net/11858/00-001M-0000-000F-1A15-D
%F EDOC: 520906
%F OTHER: Local-ID: C125673F004B2D7B-548AC988A29CD251C12575EC0053A799-Albrecht2009b
%2 PMC2703953
%R 10.1093/nar/gkp438
%7 2009
%D 2009
%* Review method: peer-reviewed
%J Nucleic Acids Research
%V 37
%N Web Server issue
%& W122
%P W122 - W128
%I Oxford University Press
%C Oxford
%U https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2703953/

Conference poster

BIO

A. Pironti, A. Altmann, J. Büch, and T. Lengauer

“A Computational Method for Predicting First-Line Antiretroviral Therapy Success.” 2011.

@inproceedings{Pironti2011,
TITLE = {A Computational Method for Predicting First-Line Antiretroviral Therapy Success},
AUTHOR = {Pironti, Alejandro and Altmann, Andr{\'e} and B{\"u}ch, Joachim and Lengauer, Thomas},
LANGUAGE = {eng},
LOCALID = {Local-ID: C125673F004B2D7B-FDD25ED3A5493D0AC1257878004D2FCC-Pironti2011},
YEAR = {2011},
DATE = {2011},
}

Endnote

%0 Generic
%A Pironti, Alejandro
%A Altmann, Andr&#233;
%A B&#252;ch, Joachim
%A Lengauer, Thomas
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T A Computational Method for Predicting First-Line Antiretroviral Therapy Success : 
%G eng
%U http://hdl.handle.net/11858/00-001M-0000-0010-1308-D
%F EDOC: 618809
%F OTHER: Local-ID: C125673F004B2D7B-FDD25ED3A5493D0AC1257878004D2FCC-Pironti2011
%D 2011
%Z name of event: Untitled Event
%Z date of event: 2011-03-23 - 2011-03-25
%Z place of event: Paphos, Cyprus

Article

BIO

H. Blankenburg, R. D. Finn, A. Prlić, A. M. Jenkinson, F. Ramírez, D. Emig, S.-E. Schelhorn, J. Büch, T. Lengauer, and M. Albrecht

“DASMI: Exchanging, Annotating and Assessing Molecular Interaction Data,” Bioinformatics, vol. 25, no. 10, 2009.

@article{Albrecht2009a,
TITLE = {{DASMI}: Exchanging, Annotating and Assessing Molecular Interaction Data},
AUTHOR = {Blankenburg, Hagen and Finn, Robert D. and Prli{\'c}, Andreas and Jenkinson, Andrew M. and Ram{\'i}rez, Fidel and Emig, Dorothea and Schelhorn, Sven-Eric and B{\"u}ch, Joachim and Lengauer, Thomas and Albrecht, Mario},
LANGUAGE = {eng},
ISSN = {1367-4803},
DOI = {10.1093/bioinformatics/btp142},
LOCALID = {Local-ID: C125673F004B2D7B-B8DDEA6F0FE26990C12575EC0052FA94-Albrecht2009a},
PUBLISHER = {Oxford University Press},
ADDRESS = {Oxford},
YEAR = {2009},
DATE = {2009},
JOURNAL = {Bioinformatics},
VOLUME = {25},
NUMBER = {10},
PAGES = {1321--1328},
}

Endnote

%0 Journal Article
%A Blankenburg, Hagen
%A Finn, Robert D.
%A Prli&#263;, Andreas
%A Jenkinson, Andrew M.
%A Ram&#237;rez, Fidel
%A Emig, Dorothea
%A Schelhorn, Sven-Eric
%A B&#252;ch, Joachim
%A Lengauer, Thomas
%A Albrecht, Mario
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
External Organizations
External Organizations
External Organizations
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T DASMI: Exchanging, Annotating and Assessing Molecular Interaction Data : 
%G eng
%U http://hdl.handle.net/11858/00-001M-0000-000F-1A13-2
%F EDOC: 520905
%R 10.1093/bioinformatics/btp142
%F OTHER: Local-ID: C125673F004B2D7B-B8DDEA6F0FE26990C12575EC0052FA94-Albrecht2009a
%7 2009
%D 2009
%* Review method: peer-reviewed
%J Bioinformatics
%V 25
%N 10
%& 1321
%P 1321 - 1328
%I Oxford University Press
%C Oxford
%@ false

Article

BIO

A. Altmann, M. Däumer, N. Beerenwinkel, Y. Peres, E. Schülter, J. Büch, S.-Y. Rhee, A. Sönnerborg, W. J. Fessel, R. W. Shafer, M. Zazzi, R. Kaiser, and T. Lengauer

“Predicting the Response to Combination Antiretroviral Therapy: Retrospective Validation of geno2pheno-THEO on a Large Clinical Database,” The Journal of Infectious Diseases, vol. 199, no. 7, 2009.

@article{Altmann2009JID,
TITLE = {Predicting the Response to Combination Antiretroviral Therapy: Retrospective Validation of geno2pheno-{THEO} on a Large Clinical Database},
AUTHOR = {Altmann, Andre and D{\"a}umer, Martin and Beerenwinkel, Niko and Peres, Yardena and Sch{\"u}lter, Eugen and B{\"u}ch, Joachim and Rhee, Soo-Yon and S{\"o}nnerborg, Anders and Fessel, W. Jeffrey and Shafer, Robert W and Zazzi, Maurizio and Kaiser, Rolf and Lengauer, Thomas},
LANGUAGE = {eng},
ISSN = {0022-1899},
DOI = {10.1086/597305},
PUBLISHER = {Oxford University Press},
ADDRESS = {Oxford, UK},
YEAR = {2009},
DATE = {2009},
JOURNAL = {The Journal of Infectious Diseases},
VOLUME = {199},
NUMBER = {7},
PAGES = {999--1006},
}

Endnote

%0 Journal Article
%A Altmann, Andre
%A D&#228;umer, Martin
%A Beerenwinkel, Niko
%A Peres, Yardena
%A Sch&#252;lter, Eugen
%A B&#252;ch, Joachim
%A Rhee, Soo-Yon
%A S&#246;nnerborg, Anders
%A Fessel, W. Jeffrey
%A Shafer, Robert W
%A Zazzi, Maurizio
%A Kaiser, Rolf
%A Lengauer, Thomas
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
External Organizations
External Organizations
External Organizations
External Organizations
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
External Organizations
External Organizations
External Organizations
External Organizations
External Organizations
External Organizations
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T Predicting the Response to Combination Antiretroviral Therapy: Retrospective Validation of geno2pheno-THEO on a Large Clinical Database : 
%G eng
%U http://hdl.handle.net/11858/00-001M-0000-000F-1A33-7
%F EDOC: 520922
%R 10.1086/597305
%7 2009
%D 2009
%* Review method: peer-reviewed
%J The Journal of Infectious Diseases
%V 199
%N 7
%& 999
%P 999 - 1006
%I Oxford University Press
%C Oxford, UK
%@ false

Article

BIO

T. Sing, A. J. Low, N. Beerenwinkel, O. Sander, P. K. Cheung, F. S. Domingues, J. Büch, M. Däumer, R. Kaiser, T. Lengauer, and P. R. Harrigan

“Predicting HIV coreceptor usage on the basis of genetic and clinical covariates,” Antiviral Therapy, vol. 12, no. 7, 2007.

@article{Sing2007,
TITLE = {Predicting {HIV} coreceptor usage on the basis of genetic and clinical covariates},
AUTHOR = {Sing, Tobias and Low, Andrew J. and Beerenwinkel, Niko and Sander, Oliver and Cheung, Peter K. and Domingues, Francisco S. and B{\"u}ch, Joachim and D{\"a}umer, Martin and Kaiser, Rolf and Lengauer, Thomas and Harrigan, P. Richard},
LANGUAGE = {eng},
ISSN = {1359-6535},
LOCALID = {Local-ID: C12573CC004A8E26-041B87421EE2D602C12573AF003CAC93-Sing2007},
YEAR = {2007},
DATE = {2007},
JOURNAL = {Antiviral Therapy},
VOLUME = {12},
NUMBER = {7},
PAGES = {1097--1106},
}

Endnote

%0 Journal Article
%A Sing, Tobias
%A Low, Andrew J.
%A Beerenwinkel, Niko
%A Sander, Oliver
%A Cheung, Peter K.
%A Domingues, Francisco S.
%A B&#252;ch, Joachim
%A D&#228;umer, Martin
%A Kaiser, Rolf
%A Lengauer, Thomas
%A Harrigan, P. Richard
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T Predicting HIV coreceptor usage on the basis of genetic and clinical covariates : 
%G eng
%U http://hdl.handle.net/11858/00-001M-0000-000F-205E-D
%F EDOC: 356578
%F OTHER: Local-ID: C12573CC004A8E26-041B87421EE2D602C12573AF003CAC93-Sing2007
%D 2007
%* Review method: peer-reviewed
%J Antiviral Therapy
%V 12
%N 7
%& 1097
%P 1097 - 1106
%@ false

Article

BIO

M. Döring, J. Büch, G. Friedrich, A. Pironti, P. Kalaghatgi, E. Knops, E. Heger, M. Obermeier, M. Däumer, A. Thielen, R. Kaiser, T. Lengauer, and N. Pfeifer

“Geno2pheno[ngs-freq]: a Genotypic Interpretation System for Identifying Viral Drug Resistance using Next-Generation Sequencing Data,” Nucleic Acids Research, vol. 46, no. Web Server issue, 2018.

@article{Doering2018,
TITLE = {Geno2pheno[ngs-freq]: a Genotypic Interpretation System for Identifying Viral Drug Resistance using Next-Generation Sequencing Data},
AUTHOR = {D{\"o}ring, Matthias and B{\"u}ch, Joachim and Friedrich, Georg and Pironti, Alejandro and Kalaghatgi, Prabhav and Knops, Elena and Heger, Eva and Obermeier, Martin and D{\"a}umer, Martin and Thielen, Alexander and Kaiser, Rolf and Lengauer, Thomas and Pfeifer, Nico},
LANGUAGE = {eng},
ISSN = {0305-1048},
DOI = {10.1093/nar/gky349},
PUBLISHER = {Oxford University Press},
ADDRESS = {Oxford},
YEAR = {2018},
DATE = {2018},
JOURNAL = {Nucleic Acids Research},
VOLUME = {46},
NUMBER = {Web Server issue},
PAGES = {W271--W277},
EID = {gky349},
}

Endnote

%0 Journal Article
%A D&#246;ring, Matthias
%A B&#252;ch, Joachim
%A Friedrich, Georg
%A Pironti, Alejandro
%A Kalaghatgi, Prabhav
%A Knops, Elena
%A Heger, Eva
%A Obermeier, Martin
%A D&#228;umer, Martin
%A Thielen, Alexander
%A Kaiser, Rolf
%A Lengauer, Thomas
%A Pfeifer, Nico
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
External Organizations
External Organizations
External Organizations
External Organizations
External Organizations
External Organizations
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T Geno2pheno[ngs-freq]: a Genotypic Interpretation System for Identifying Viral Drug Resistance using Next-Generation Sequencing Data : 
%G eng
%U http://hdl.handle.net/21.11116/0000-0001-3F53-C
%R 10.1093/nar/gky349
%2 PMC6031006
%7 2018
%D 2018
%J Nucleic Acids Research
%O Nucleic Acids Res
%V 46
%N Web Server issue
%& W271
%P W271 - W277
%Z sequence number: gky349
%I Oxford University Press
%C Oxford
%@ false

Conference report

BIO

K. Roomp, N. Beerenwinkel, T. Sing, E. Schülter, J. Büch, S. Sierra-Aragon, M. Däumer, D. Hoffmann, R. Kaiser, T. Lengauer, and J. Selbig

“Arevir: A Secure Platform for Designing Personalized Antiretroviral Therapies Against HIV,” Lecture Notes in Bioinformatics (LNBI), vol. 4075. 2006.

Abstract

Despite the availability of antiretroviral combination therapies, success in

drug treatment of HIV-infected patients is limited. One reason for therapy

failure is the development of drug-resistant genetic variants. In principle,

the viral genomic sequence provides resistance information and could thus guide

the selection of an optimal drug combination. In practice however, the benefit

of this procedure is impaired by (1) the difficulty in inferring the clinically

relevant information from the genotype of the virus and (2) the restricted

availability of this information. We have developed a secure platform for

collaborative research aimed at optimizing anti-HIV therapies, called Arevir. A

relational database schema was designed and implemented together with a

web-based user interface. Our system provides a basis for monitoring patients,

decision-support, and computational analyses. Thus, it merges clinical,

diagnostic and bioinformatics efforts to exploit genomic and patient therapy

data in clinical practice.

BibTeX

@misc{Roomp2006,
TITLE = {Arevir: A Secure Platform for Designing Personalized Antiretroviral Therapies Against {HIV}},
AUTHOR = {Roomp, Kirsten and Beerenwinkel, Niko and Sing, Tobias and Sch{\"u}lter, Eugen and B{\"u}ch, Joachim and Sierra-Aragon, Saleta and D{\"a}umer, Martin and Hoffmann, Daniel and Kaiser, Rolf and Lengauer, Thomas and Selbig, Joachim},
LANGUAGE = {eng},
ISSN = {0302-9743},
LOCALID = {Local-ID: C125673F004B2D7B-236FC044A3DD67ADC125729D006059AE-Roomp2006},
YEAR = {2006},
DATE = {2006},
ABSTRACT = {Despite the availability of antiretroviral combination therapies, success in drug treatment of HIV-infected patients is limited. One reason for therapy failure is the development of drug-resistant genetic variants. In principle, the viral genomic sequence provides resistance information and could thus guide the selection of an optimal drug combination. In practice however, the benefit of this procedure is impaired by (1) the difficulty in inferring the clinically relevant information from the genotype of the virus and (2) the restricted availability of this information. We have developed a secure platform for collaborative research aimed at optimizing anti-HIV therapies, called Arevir. A relational database schema was designed and implemented together with a web-based user interface. Our system provides a basis for monitoring patients, decision-support, and computational analyses. Thus, it merges clinical, diagnostic and bioinformatics efforts to exploit genomic and patient therapy data in clinical practice.},
BOOKTITLE = {Lecture Notes in Bioinformatics (LNBI)},
VOLUME = {4075},
PAGES = {185--194},
}

Endnote

%0 Conference Proceedings
%A Roomp, Kirsten
%A Beerenwinkel, Niko
%A Sing, Tobias
%A Sch&#252;lter, Eugen
%A B&#252;ch, Joachim
%A Sierra-Aragon, Saleta
%A D&#228;umer, Martin
%A Hoffmann, Daniel
%A Kaiser, Rolf
%A Lengauer, Thomas
%A Selbig, Joachim
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T Arevir: A Secure Platform for Designing Personalized Antiretroviral Therapies Against HIV : 
%G eng
%U http://hdl.handle.net/11858/00-001M-0000-000F-2221-0
%F EDOC: 314426
%F OTHER: Local-ID: C125673F004B2D7B-236FC044A3DD67ADC125729D006059AE-Roomp2006
%D 2006
%Z Review method: peer-reviewed
%B Third International Workshop on Data Integration in the Life Sciences
%Z date of event: 2006-07-22 - 2006-07-22
%C Hinxton, UK
%X Despite the availability of antiretroviral combination therapies, success in 
drug treatment of HIV-infected patients is limited. One reason for therapy 
failure is the development of drug-resistant genetic variants. In principle, 
the viral genomic sequence provides resistance information and could thus guide 
the selection of an optimal drug combination. In practice however, the benefit 
of this procedure is impaired by (1) the difficulty in inferring the clinically 
relevant information from the genotype of the virus and (2) the restricted 
availability of this information. We have developed a secure platform for 
collaborative research aimed at optimizing anti-HIV therapies, called Arevir. A 
relational database schema was designed and implemented together with a 
web-based user interface. Our system provides a basis for monitoring patients, 
decision-support, and computational analyses. Thus, it merges clinical, 
diagnostic and bioinformatics efforts to exploit genomic and patient therapy 
data in clinical practice.
%B Lecture Notes in Bioinformatics
%V 4075
%P 185 - 194
%@ false

Conference poster

BIO

A. Altmann, M. Rosen-Zvi, M. Prosperi, E. Aharoni, H. Neuvirth, E. Schülter, J. Büch, Y. Peres, I. Incardona, A. Sönnerborg, R. Kaiser, M. Zazzi, and T. Lengauer

“The EuResist Approach for Predicting Response to Anti HIV-1 Therapy,” Reviews in Antiviral Therapy, vol. 2008, no. 2. Virology Education, Utrecht, 2008.

@inproceedings{Altmann2008EDRW,
TITLE = {The {EuResist} approach for predicting response to anti {HIV-1} therapy},
AUTHOR = {Altmann, Andre and Rosen-Zvi, Michal and Prosperi, Mattia and Aharoni, Ehud and Neuvirth, Hani and Sch{\"u}lter, Eugen and B{\"u}ch, Joachim and Peres, Yardena and Incardona, Incardona and S{\"o}nnerborg, Anders and Kaiser, Rolf and Zazzi, Maurizio and Lengauer, Thomas},
LANGUAGE = {eng},
ISSN = {1872-437X},
LOCALID = {Local-ID: C125756E0038A185-37BB8F81589204E4C1257546004DB142-Altmann2008EDRW},
PUBLISHER = {Virology Education},
YEAR = {2008},
DATE = {2008},
JOURNAL = {Reviews in Antiviral Therapy},
VOLUME = {2008},
ISSUE = {2},
PAGES = {107--107},
ADDRESS = {Budapest, Hungary},
}

Endnote

%0 Generic
%A Altmann, Andre
%A Rosen-Zvi, Michal
%A Prosperi, Mattia
%A Aharoni, Ehud
%A Neuvirth, Hani
%A Sch&#252;lter, Eugen
%A B&#252;ch, Joachim
%A Peres, Yardena
%A Incardona, Incardona
%A S&#246;nnerborg, Anders
%A Kaiser, Rolf
%A Zazzi, Maurizio
%A Lengauer, Thomas
%+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
External Organizations
External Organizations
External Organizations
External Organizations
External Organizations
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
External Organizations
External Organizations
External Organizations
External Organizations
External Organizations
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society
%T The EuResist Approach for Predicting Response to Anti HIV-1 Therapy : 
%G eng
%U http://hdl.handle.net/11858/00-001M-0000-000F-17D3-8
%F EDOC: 427971
%F OTHER: Local-ID: C125756E0038A185-37BB8F81589204E4C1257546004DB142-Altmann2008EDRW
%D 2008
%Z name of event: 6th European HIV Drug Resistance Workshop
%Z date of event: 2008-03-26 - 2008-03-28
%Z place of event: Budapest, Hungary
%J Reviews in Antiviral Therapy
%V 2008
%N 2
%P 107 - 107
%@ false

Responsibilities

System Integration and Service
Database Support
Web Applicaltion Development