|
|
2012
118. Kamburov, A., Stelzl, U., Herwig, R. (2012)
IntScore - a web tool for confidence scoring of biological interactions.
Nucleic Acids Research, in press.
117. Dreher, F., Kreitler, T., Hardt, C., Kamburov, A.,
Yildirimman, R., Schellander, K., Lehrach, H., Lange, B., Herwig, R. (2012)
DIPSBC - a data integration platform for systems biology collaborations.
BMC Bioinformatics, 13:85. [Abstract]
116. Wierling, C., Kühn, A., Hache, H., Daskalaki, A.,
Maschke-Dutz, E., Mareva, S., Li, J., Herwig, R., Lehrach H. (2012)
Prediction in the face of uncertainty: A Monte Carlo-based approach for
systems biology of cancer treatment.
Mutation Research, in press. [Epub
ahead of print]
115. Dreher, F., Kamburov, A., Herwig, R. (2012)
Construction of a pig physical interactome using sequence homology and a
comprehensive reference human interactome.
Evolutionary Bioinformatics Online, 8: 119-126. [Abstract]
114. Clark, M. S., Denekamp, N. Y., Thorne, M. A. S.,
Reinhardt, R., Drungowski, M., Albrecht, M. W., Klages, S., Beck, A., Kube, M.
Lubzens, E. (2012)
Long-term survival of hydrated resting eggs from Brachionus plicatilis.
PLoS One, 7(1):e29365. [Abstract]
113. Hegele, A.(*), Kamburov, A.(*), Grossmann, A., Sourlis,
C., Wowro, S., Weimann, M., Pena, V., Will, C., Lührmann, R., Stelzl, U. (*)
equal contribution (2012)
Dynamic protein-protein interaction wiring of the human spliceosome.
Molecular Cell, 45 (4): 567-580. [Abstract]
2011
112. Chavez, L. (2011)
Epigenetic Analysis of Human Embryonic Stem Cells- Basics, Computational
Methods, Applications
SVH, ISBN-13: 978-3838127620. [BookAd]
111. Göke, J., Jung, M., Behrens, S., Chavez, L., O'Keeffe, S.,
Timmermann, B., Lehrach, H., Adjaye, J., Vingron, M. (2011)
Combinatorial Binding in Human and Mouse Embryonic Stem Cells Identifies
Conserved Enhancers Active in Early Embryonic Development
PLoS Computational Biology, 7(12):e1002304. [Abstract]
110. Thormann, A., Rasche, A. (2011)
Functional Context Network of T2DM, Medical Complications of Type 2
Diabetes. (Ed. Croniger, C.)
InTech Publishing, ISBN-13: 978-9533073637
109. Meinel, T., Schweiger, M.R., Ludewig, A.L., Chenna, R.,
Krobitsch, S., Herwig, R. (2011)
Ortho2ExpressMatrix--a web server that interprets cross-species gene
expression data by gene family information.
BMC Genomics, 12:483. [Abstract] 
108. Kerick, M., Isau, M., Timmermann, B., Sültmann, H.,
Herwig, R., Krobitsch, S., Schäfer, G., Verdorfer, I., Bartsch, G., Klocker,
H., Lehrach, H., Schweiger, M. R. (2011)
Targeted High Throughput Sequencing in Clinical Cancer Settings:
Formaldehyde fixed-paraffin embedded (FFPE) tumor tissues, input amount and
tumor heterogeneity.
BMC Medical Genomics, 4:68. [Abstract]
107. Kamburov, A., Cavill, R., Ebbels, T. M. D., Herwig, R.,
Keun, H.C. (2011)
Integrated pathway-level analysis of transcriptomics and metabolomics data
with IMPaLA.
Bioinformatics, 27 (20): 2917-2918. [Abstract]
106. Yildirimman, R., Brolén, G., Vilardell, M., Eriksson, G.,
Synnergren, J., Gmuender, H., Kamburov, A., Ingelman-Sundberg, M., Castell,
J., Lahoz, A., Kleinjans, J., van Delft, J., Björquist, P., Herwig, R. (2011)
Human embryonic stem cell derived hepatocyte-like cells as a tool for in
vitro hazard assessment of chemical carcinogenicity.
Toxicological Sciences, 124(2):278-290. [Abstract]
105. Nikolova, E. V., Herwig, R., Nikolov, S. G., Petrov, V. G.
(2011)
Predictive Dynamical Modelling MicroRNAs Role in Complex Networks. (Ed.
Daskalaki, A.)
IGI-Global Publishing, ISBN-13: 978-1609604837. [BookAd]
104. Vilardell-Nogales, M., Rasche, A., Thormann, A.,
Maschke-Dutz, E., Perez-Jurado, L. A., Lehrach, H., Herwig, R. (2011)
Meta-analysis of heterogeneous Down Syndrome data reveals consistent
genome-wide dosage effects related to neurological processes.
BMC Genomics, 12:229. [Abstract]
103. Müller, H., Schmidt, D., Dreher, F., Herwig, R.,
Ploubidou, A., Lange, B. (2011)
Gene ontology analysis of the centrosome proteomes of Drosophila and
human.
Communicative & Integrative Biology, 4(3):308-311. [Abstract]
102. Cavill, R., Kamburov, A., Blagrove, M., Athersuch, T.,
Ellis, J., Herwig, R., Ebbels, T., Keun, H. C. (2011)
Consensus-phenotype integration of transcriptomic and metabolomic data
implies a role for metabolism in the chemosensitivity of tumor cells.
PLoS Computational Biology, 7(3):e1001113. [Abstract]
101. Jozefczuk, J., Prigione, A., Chavez, L., Adjaye, J. (2011)
Comparative analysis of human Embryonic Stem Cell and induced Pluripotent
Stem Cell-derived hepatocyte-like cells reveals current drawbacks and
possible strategies for improved differentiation.
Stem Cells Dev., 20(7):1259-1275. [Abstract]
100. Kamburov, A., Pentchev, K., Galicka, H., Wierling, C. K.,
Lehrach, H., Herwig, R. (2011)
ConsensusPathDB - towards a more complete picture of cell biology.
Nucleic Acids Research, 39(1):712-717. [Abstract]
2010
99. Abrahams, J. P., Apweiler, R., Balling, R.,
Bertero, M. G., Bujnicki, J. M., Chayen, N. E., Chène, P., Corthals, G. L.,
Dylag, T., Förster, F., Heck, A. J., Henderson, P. J., Herwig, R., Jehenson,
P., Kokalj, S. J., Laue, E., Legrain, P., Martens, L., Migliorini, C.,
Musacchio, A., Podobnik, M., Schertler, G. F., Schreiber, G., Sixma, T. K.,
Smit, A. B., Stuart, D., Svergun, D., Taussig, M. J. (2010)
4D Biology for Health and Disease" Workshop Report.
New Biotechnology, 28(4):291-293. [Abstract]
98. The 1000 Genomes Project Consortium (2010)
A map of human genome variation from population scale sequencing.
Nature, 467: 1061-1073. [Abstract]
97. Denekamp, N. Y., Reinhardt, R., Albrecht, M. W.,
Drungowski, M., Kube, M., Lubzens E. (2010)
The expression pattern of dormancy-associated genes in multiple
life-history stages in the rotifer Brachionus plicatilis.
Hydrobiologia, 662(1):51-63. [Abstract]
96. The FANTOM Consortium (2010)
An atlas of combinatorial transcriptional regulation in mouse and man.
Cell, 5;140(5):744-752. [Abstract]
95. Pentchev, K., Ono, K., Herwig, R., Ideker, T., Kamburov, A.
(2010)
Evidence mining and novelty assessment of protein-protein interactions
with the ConsensusPathDB plugin for Cytoscape.
Bioinformatics, 39(1):712-717. [Abstract]
94. Müller, H., Schmidt, D., Steinbrink, S., Mirgorodskaya, E.,
Lehmann, V., Habermann, K., Dreher, F., Gustavsson, N., Kessler, T., Lehrach,
H., Herwig, R., Gobom, J., Ploubidou, A., Boutros, M., Lange, B. M. H. (2010)
Proteomic and functional analysis of the mitotic Drosophila centrosome.
EMBO Journal, 29:3344-3357. [Abstract]
93. Chavez, L., Jozefczuk, J., Grimm, C., Dietrich, J.,
Timmermann, B., Lehrach, H., Herwig, R.(*), Adjaye, J.(*) (*) equal
contribution (2010)
Computational analysis of genome-wide DNA-methylation during the
differentiation of human embryonic stem cells along the endodermal lineage.
Genome Research, 20:1441-1450. [Abstract]
92. Jung, M., Peterson, H., Chavez, L., Kahlem, P., Lehrach,
H., Vilo, J., Adjaye, J. (2010)
A Data Integration Approach to Mapping OCT4 Gene Regulatory Networks
Operative in Embryonic Stem Cells and Embryonal Carcinoma Cells.
PLoS One, 21;5(5):e10709. [Abstract]
91. Jozefczuk, J., Stachelscheid, H., Chavez, L., Herwig, R.,
Lehrach, H., Zeilinger, K., Gerlach, J. C., Adjaye, J. (2010)
Molecular Characterization of Cultured Adult Human Liver Progenitor Cells.
Tissue Eng Part C Methods, 16(5):821-834. [Abstract]
90. Meinel, T., Mueller, M. S., Ahmed, J., Yildirimman, R.,
Dunkel, M., Herwig, R., Preissner, R. (2010)
SOAP/WSDL-Based Web Services for Biomedicine: Demonstrating the Technique
with the CancerResource.
Proceedings of the MEDICON 2010, 29(5):835-838. [Abstract]
89. Tesfaye, D., Regassa, A., Rings, F., Ghanem, N., Phatsara,
C., Tholen, E., Herwig, R., Un, C., Schellander, K., Hoelker, M. (2010)
Suppression of the transcription factor MSX1 gene delays bovine
preimplantation embryo development in vitro.
Reproduction, 139(5):857-70. [Abstract]
88. Rasche, A., Yildirimman, R., Herwig, R. (2010)
Handbook of Systems Toxicology, ch. Integrative Analysis of microarray
data - a path for systems toxicology. In Handbook of Systems Toxicology (Eds.
D. A. Casciano and S. C. Sahu).
John Wiley & Sons Ltd., ISBN-13: 978-0-470-68401-6. [Abstract]
87. Richard, H., Schulz, M., Sultan, M., Nürnberger, A.,
Schrinner, S., Balzereit, D., Dagand, E., Rasche, A., Lehrach, H., Vingron,
M., Haas, S. A., Yaspo, M. L. (2010)
Prediction of Alternative Isoforms from Exon Expression Levels in RNA-Seq
Experiments.
Nucleic Acids Research, 38(10):e112. [Abstract]
2009
86. Trendelenburg, G., Ziegler, G., Prinz, V.,
Albrecht, M. W., Harhausen, D., Khojasteh, U., Nacken, W., Endres, M.,
Nietfeld, W., Dirnagel, U. (2009)
Mrp-8 & -14 mediate CNS injury in focal cerebral ischemia.
BBA - Molecular Basis of Disease, 1792(12): 1198-1204 . [Abstract]
85. Rasche, A., Herwig R. (2009)
ARH: Predicting Splice Variants from Genome-wide Data with Modified
Entropy.
Bioinformatics, 26(1):84-90. [Abstract]
84. Dreja, T., Jovanovic, Z., Rasche, A., Kluge, R., Herwig,
R., Tung, Y. C. L., Joost, H. G., Yeo, G. S. H., Al-Hasani, H. (2009)
Diet-induced gene expression of isolated pancreatic islets from a
polygenic mouse model for the metabolic syndrome.
Diabetologia, 53(2):309-20. [Abstract]
83. Meinel, T., Herwig, R (2009)
SOAP/WSDL-based Web Services for Biomedicine.
Athina Lazakidou (Ed.): Web-Based Applications in Healthcare and
Biomedicine - Springer Press, ISBN-13: 978-1-4419-1273-2. [BookAd]
82. Daskalaki A., Wierling C., Herwig R. (2009)
Computational tools and resources for systems biology approaches in
cancer.
Springer Press, ISBN-13: 978-1-4419-0812-4. [BookAd]
81. Nebrich G., Herrmann M., Hartl D., Diedrich M., Kreitler
T., Wierling C., Klose J., Giavalisco P., Zabel C., Mao L. (2009)
PROTEOMER: A workflow-optimized laboratory information management system
for 2-D electrophoresis-centered proteomics.
Proteomics, 9(7):1795-1808. [Abstract]
80. Chavez, L., Bais, A. S., Vingron, M., Lehrach, H., Adjaye,
J., Herwig, R. (2009)
In silico identification of a core regulatory network of OCT4 in human
embryonic stem cells using an integrated approach.
BMC Genomics, 10:314. [Abstract]
79. Klipp, E., Liebermeister, W., Wierling, C., Kowald, A.,
Lehrach, H., Herwig, R. (2009)
Systems Biology: A Textbook.
Wiley Blackwell. [BookAd]
78. Schweiger, M. R., Kerick, M., Timmermann, B., Albrecht, M.
W., Borodina, T., Parkhomchuk, D., Zatlouka, K., Lehrach, H. (2009)
Genome-Wide Massively Parallel Sequencing of Formaldehyde Fixed-Paraffin
Embedded (FFPE) Tumor Tissues for Copy-Number- and Mutation-Analysis.
PLoS One, 4(5): e5548. [Abstract]
77. Hache, H., Wierling, C., Lehrach, H., Herwig, R. (2009)
GeNGe: systematic generation of gene regulatory networks.
Bioinformatics, 25(9): 1205-1207. [Abstract]
76. Hache, H., Lehrach, H., Herwig, R. (2009)
Reverse Engineering of Gene Regulatory Networks: A Comparative Study.
EURASIP Journal on Bioinformatics and Systems Biology, Volume 2009,
doi:10.1155/2009/617281. [Abstract]
75. Kamburov, A., Wierling, C., Lehrach, H., Herwig, R. (2009)
ConsensusPathDB - a database for integrating human functional interaction
networks.
Nucleic Acids Research, 37: D623-D628. [Abstract]
74. Daskalaki, A. (Editor) (2008)
Handbook of Research on Systems Biology Applications in Medicine.
IGI-Global Publishing. [BookAd]
73. Rasche, A., Al-Hasani, H., Herwig, R. (2008)
Meta-Analysis Approach identifies Candidate Genes and associated Molecular
Networks for Type-2 Diabetes Mellitus.
BMC Genomics, 9:310. [Abstract]
72. Höltig, D., Hennig-Pauka, I., Beyerbach, M., Thies, K.,
Rehm, T., Gerlach, G.F., Waldmann, K.H. (2008)
Comparison of the diagnostic significance of clinical, radiographic and
ultrasonographic results after an experimental aerosol infection of pigs with
Actinobacillus pleuropneumoniae.
Berl. Munch. Tierarztl. Wochenschr., 121(11-12):422-31. [Abstract]
71. Rasche, A., Herwig, R. (2007)
Identification of marker genes for type 2 diabetes.
Genes Nutr., 2(1):137. [Abstract]
70. Kamburov, A., Goldovsky, L., Freilich, S., Kapazoglou, A.,
Kunin, V., Enright, A. J., Tsaftaris, A., Ouzounis, C. A. (2007)
Denoising inferred functional association networks obtained by gene fusion
analysis.
BMC Genomics, 2007, 8:460. [Abstract]
69. Wierling, C., Herwig, R., Lehrach, H. (2007)
Resources, Standards and Tools for Systems Biology.
Briefings in Functional Genomics and Proteomics, 6(3):240-51.
[Abstract]
68. Herwig, R., Schuchhardt, J., Chavez, L., Lehrach, H. (2007)
Analyse von Biochips: Von der Sequenz zum System.
Ganten, D., and Ruckpaul, K. (Hrsg.) Grundlagen der Molekularen Medizin ,
3. Auflage, Springer Verlag, Berlin, 64-100. [BookAd]
67. Adjaye, J., Herwig, R., Brink, T.C., Herrmann, D., Greber,
B., Groth, D., Carnwath, J.W., Lehrach, H., Niemann, H. (2007)
Conserved molecular profiles of bovine and human blastocysts as a
consequence of the transition from maternal to embryonic control of gene
expression.
Physiological Genomics, 31:315-327. [Abstract]
66. Hache, H., Wierling, C., Lehrach, H., Herwig, R. (2007)
Reconstruction and Validation of Gene Regulatory Networks with Neural
Networks.
Proceedings of the 2nd Foundations of Systems Biology in Engineering
Conference (FOSBE), Stuttgart, 319-324. [PDF]
65. Sultan, M., Piccini, I., Balzereit, D., Herwig, R., Saran,
N.G., Lehrach, H., Reeves, R.H., Yaspo, M.-L. (2007)
Gene expression variation in individual "Down syndrome" mice.
Genome Biology, 8:R91. [Abstract]
64. Poustka, A.J., Kuhn, A., Groth, D., Weise, V., Shunsuke,
Y., Burke, R.D., Herwig, R., Lehrach, H., Panopoulou, G. (2007)
A global view of gene expression in lithium and zinc treated sea urchin
embryos: new components of gene regulatory networks.
Genome Biology, 8:R85. [Abstract]
63. Liu, J.-P. and Drungowski, M., Nyarsik, L., Schwartz, R.,
Lehrach, H., Herwig, R., Janitz, M. (2007)
Oligonucleotide fingerprinting of arrayed genomic DNA sequences using
LNA-modified hybridization probes.
Combinatorial Chemistry and High-Throughput Screening, 10:269-276.
[Abstract]
62. Bennett, J.T., Joubin, K., Cheng, S., Aanstad, P.,
Herwig,R., Clark, M., Lehrach, H., Schier, A.F. (2007)
Nodal signaling activates differentiation genes during zebrafish
gastrulation.
Developmental Biology, 304:525-540. [Abstract]
61. Jann, O.C., Aerts, J., Jones, M., Hastings, N.,
Law, A., McKay, S., Marques, E., Prasad, A., Yu, J., Moore, S.S., Floriot,
S., Mahi, M., Eggen, A., Silveri, L., Negrini, R., Milanesi, E.,
Ajmone-Marsan, P., Valentini, A., Marchitelli, C., Savarese, M., Janitz, M.,
Herwig, R., Hennig, S., Gorni, C., Connor, E., Sonstegard, T., Smith, T.,
Droegemueller, C., Williams, J.L. (2006)
A second generation radiation hybrid map to aid the assembly of the bovine
genome sequence.
BMC Genomics, 7:283. [Abstract]
60. Makrantonaki, E., Adjaye, J., Herwig, R., Brink, T.C.,
Groth, D., Hultschig, C., Lehrach, H., Zouboulis, C.Z. (2006)
Ageing of human sebocytes in vitro induced by exposure to a defined
hormone environment.
Dermatology, 213(3):262-264. [Abstract]
59. Babaie, Y., Herwig, R., Greber, B., Brink, T.C., Wruck, W.,
Groth, D., Lehrach, H., Burdon, T., Adjaye, J. (2007)
Analysis of Oct4-dependent transcriptional networks regulating
self-renewal and pluripotency in human embryonic stem cells.
Stem Cells, 25(2):500-10. [Abstract]
58. Wierling, C., Herwig, R. (2006)
Systems biology and drug discovery - A new path in genome research.
Screening - Trends in drug discovery, 7(3):39-41.
57. Assmus, H., Herwig, R., Cho, K.H., Wolkenhauer O. (2006)
Understanding the dynamics of biological systems: roles in medical
research.
Expert Reviews in Molecular Diagnostics, 6(6):891-902. [Abstract]
56. Makrantonaki, E.(*), Adjaye, J.(*), Herwig, R.(*), Brink,
T.C., Groth, D., Hultschig, C., Lehrach, H., Zouboulis, C.Z. (2006) (*) equal
contribution
Age-specific hormonal decline is accompanied by transcriptional changes in
human sebocytes in vitro.
Aging Cell, 5(4):331-344. [Abstract]
55. Herwig, R., Lehrach, H. (2006)
Expression profiling of drug response - from genes to pathways.
Dialogues in Clinical Neuroscience, 8(3):283-293. [Abstract]
54. Wierling, C., Herwig, R. (2006)
Vom Gen zum System.
GIT Labor-Fachzeitschrift, 50(5):484-486.
53. Wierling, C. (2006)
PyBioS - ein Modellierungs- und Simulationssystem für komplexe biologische
Prozesse.
In Forschung und wissenschaftliches Rechnen. Beiträge zum Heinz-Billing
Preis 2005 (Hrsg. K. Kremer, V. Macho), 69:53-71.
Gesellschaft für wissenschaftliche Datenverarbeitung Göttingen (GWDG) [Heinz-Billing
Preis 2005]
52. Wolski, E., Lalowski, M., Martus, P., Herwig,
R., Giavalisco, P., Gobom, J., Sickmann, A., Lehrach, H., Reinert, K. (2005)
Transformation and other factors of the peptide mass spectrometry pairwise
peak-list comparison process.
BMC Bioinformatics, 6:280. [Abstract]
51. Adjaye, J., Huntriss, J., Herwig, R., BenKahla, A., Brink,
T.C., Wierling, C., Hultschig, C., Groth, D., Yaspo, M.-L., Picton, H.M.,
Lanzendorf, S., Gosden, R.G., Lehrach, H.(2005)
Primary differentiation in the human blastocyst: Comparative molecular
portraits of inner cell mass and trophectoderm cells.
Stem Cells, 23:1514-1525. [Abstract]
50. Kühner, S., Wöhlbrand, L., Fritz, I., Wruck, W., Hultschig,
C., Hufnagel, P., Kube, M., Reinhardt, R., Rabus, R. (2005)
Substrate-Dependent Regulation of Anaerobic Degradation Pathways for
Toluene and Ethylbenzene in a Denitrifying Bacterium, Strain EbN1.
Journal of Bacteriology, 187,4:1493-1503. [Abstract]
49. Papakonstantinou, E., Aletras, A.J., Glass,E., Tsogas,
P.,Dionyssopoulos, A., Adjaye, J., Fimmel, S., Gouvousis, P., Herwig, R.,
Lehrach, H., Zouboulis, C., Karakiulakis, G. (2005)
Matrix metalloproteinases of epithelial origin in facial sebum of patients
with acne and their regulation by isotretinoin.
Journal of Investigative Dermatology, 125,4:673-684. [Abstract]
48. Klipp, E., Herwig, R., Kowald, A., Wierling, C., Lehrach,
H. (2005)
Systems Biology in Practice.
Wiley-VCH, Weinheim. [Abstract]
47. Janitz, K., Wehland, M., Herwig, R., Janitz, M.,
Kreutz, R. (2004)
Validation of microarray expression profiling in glomeruli isolated by
laser-microdissection in a genetic rat model with hypertension and
proteinuria.
Hypertension, 44,4:568. [Abstract]
46. Illiger, J., Herwig, R., Steinfath, M., Przewieslik, T.,
Elge, T., Bull, Ch., Radelof, U., Lehrach, H., Janitz, M. (2004)
Establishment of T cell- and Natural Killer cell-specific unigene sets -
towards high-throughput genomics of leukemia.
European Journal of Immunogenetics, 31,6:253-257. [Abstract]
45. Adjaye, J., Herwig, R., Herrmann, D., Wruck, W., BenKahla,
A., Brink, T.C., Nowak, M., Carnwath, J.W., Hultschig, C., Niemann, H.,
Lehrach, H. (2004)
Cross-species hybridisation of human and bovine orthologous genes on high
density cDNA microarrays.
BMC Genomics, 5:83. [Abstract]
44. Groth, D., Lehrach, H., Steffen Hennig (2004)
GOblet: a platform for Gene Ontology annotation of anonymous sequence
data.
Nucleic Acids Research, 32(Web Server issue):W313-W317. [Abstract]
43. Bauer, O., Guerasimova, A., Sauer, S., Thamm, S.,
Steinfath, M., Herwig, R., Janitz, M., Lehrach, H., Radelof, U. (2004)
Multiplexed hybridization of positively charge-tagged peptide nucleic
acids detected by matrix-assisted laser desorption/ionization time-of-flight
mass spectrometry.
Rapid Communications in Mass Spectrometry, 18:1821-1829. [Abstract]
42. Kahlem, P., Sultan, M., Herwig, R., Steinfath, M.,
Balzereit, D., Eppens, B., Saran, N.G., Pletcher, M.T., South, S.T., Stetten,
G., Lehrach, H., Reeves. R.H., Yaspo, M.-L. (2004)
Transcript Level Alterations Reflect Gene Dosage Effects Across Multiple
Tissues in a Mouse Model of Down Syndrome.
Genome Research, 14:1258-1267. [Abstract]
41. Dickmeis, T., Plessy, C., Rastedar, S., Aanstad, P.,
Herwig, R., Chalmel, F., Fischer, N., Strähle, U. (2004)
Expression profiling and comparative genomics identify a conserved
regulatory region controlling midline expression in the zebrafish embryo.
Genome Research, 14:228-238. [Abstract]
40. Poustka, A.J., Groth, D., Hennig, S., Thamm, S.,
Cameron, A., Beck, A., Reinhardt, R., Herwig, R., Panopoulou, G., Lehrach, H.
(2003)
Generation, annotation, evolutionary analysis and database integration of
20,000 unique sea urchin EST clusters.
Genome Research, 13:2736-2746. [Abstract]
39. Grzeskowiak, R., Witt, H., Drungowski, M., Thermann, R.,
Henning, S., Perrot, A., Osterziel, K.J., Klingbiel, D., Scheid, S., Spang,
R., Lehrach, H., Ruiz, P. (2003)
Expression profiling of human idiophatic dilated cardiomyopathy.
Cardiovascular Research, 59.2:400-411. [Abstract]
38. Dietrich, C., Herwig, R., Vingron, M. (2003)
Exploring potential target genes of signaling pathways by predicting conserved
transcription factor binding sites.
Bioinformatics, 19 (Suppl. 2):ii50-ii56. [Abstract]
37. Panopoulou, G., Hennig, S., Groth, D., Krause, A., Poustka,
A.J., Herwig, R., and Vingron, M., Lehrach, H. (2003)
New Evidence for Genome-Wide Duplications at the Origin of Vertebrates
Using an Amphixous Gene Set and Complete Animal Genomes.
Genome Research, 13:1056-1066. [Abstract]
36. Hennig, S., Groth, D., Lehrach, H. (2003)
Automated Gene Ontology annotation for anonymous sequence data.
Nucleic Acids Research, 31:3712-3715. [Abstract]
35. Herwig, R., Schuchhardt, J., Eickhoff, H., Herzel, H.,
Lehrach, H. (2003)
Datenanalyse von Biochips: Von der Sequenz zum System.
Ganten, D., and Ruckpaul, K. (Hrsg.) Grundlagen der Molekularen Medizin ,
2. Auflage, Springer Verlag, Berlin, pp. 360-387.
34. Kaynak, B., von Heydebreck, A., Mebus, S., Seelow, D.,
Hennig, S., Vogel, J., Sperling, H.P., Pregla, R., Alexi-Meskishvilli, V.,
Hetzer, R., Lange, P.E., Vingron, M., Lehrach, H., Sperling, S. (2003)
Genome-Wide Array Analysis of Normal and Malformed Human Hearts.
Circulation, 107(19):2467-2474. [Abstract].
33. Sudbrak, R., Reihardt, R., Hennig, S., Lehrach, H.,
Günther, E., Walter, L. (2003)
Comparative and evolutionary analysis of the rhesus macaque extended MHC
class II region.
Immunogenetics, 54:699-704. [Abstract].
32. Gitton, Y., Dahmane, N., Baik, S., Altaba, R.
(Group 1), Neidhardt, L., Scholze, M., Herrmann, B. (Group 2), Kahlem, P.,
Ben-Kahla, A., Schrinner, S., Yildirimman, R., Herwig, R., Lehrach, H.,
Yaspo, M.-L. (Group 3) (Groups contributed equally) (2002)
A gene expression map of human chromosome 21 orthologues in the mouse.
Nature, 420:586-590. [Abstract]
31. Wierling, C.K., Steinfath, M., Elge, T., Schulze-Kremer,
S., Aanstad, P., Clark, M., Lehrach, H., Herwig, R. (2002)
Simulation of DNA array hybridization experiments and evaluation of
critical parameters during subsequent image and data analysis.
BMC Bioinformatics, 3:29. [Abstract]
30. Herwig, R., Schulz, B., Weisshaar B., Hennig, S.,
Steinfath, S., Drungowski, M., Stahl, D., Wruck, W., Menze, A., O'Brien, J.,
Lehrach, H., Radelof, U. (2002)
Construction of a "unigene" cDNA clone set by oligonucleotide
fingerprinting allows access to 25,000 potential sugar beet genes.
The Plant Journal, 32:845-857. [Abstract]
29. Tang, T.-H., Bachellerie, J.-P., Rozhdestvensky, T.,
Bortolin, M.-L., Huber, H., Drungowski, M., Elge, T., Brosius, J.,
Hüttenhofer, A. (2002)
Identification of 86 candidates for small non-messenger RNAs from the
archaeon Archaeoglobus fulgidus.
PNAS, 99: 7536-7541. [Abstract]
28. Hennig, S., Panopoulou, G., Lehrach, H., Poustka, A. (2002)
Comparative EST analysis.
In Analysing gene expression - a handbook of methods: possibilities and
pitfalls (eds. S. Lorkowski and P. Cullen); Wiley-VCH, Weinheim, pp.
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27. Bauer, O., Janitz, M., Guerasimova, A., Herwig, R.,
Lehrach, H., Radelof, U. (2002)
Oligonucleotide fingerprinting including differential cDNA library
screening.
In Analysing gene expression - a handbook of methods: possibilities and
pitfalls (eds. S. Lorkowski and P. Cullen); Wiley-VCH, Weinheim, pp.
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26. Herwig, R., Lehrach H. (2002)
Clustering gene expression profiles.
In Analysing gene expression - a handbook of methods: possibilities and
pitfalls (eds. S. Lorkowski and P. Cullen); Wiley-VCH, Weinheim, pp.
790-798. [Abstract]
25. Fuchs, T., Malecova, B., Linhart, C., Sharan, R., Khen,
M.,Herwig, R., Shmulevich, D., Elkon, R., Steinfath, M., O'Brien, J.,
Radelof, U., Lehrach, H., Lancet, D., Shamir, R. (2002)
DEFOG: a practical scheme for deciphering families of genes.
Genomics, 80(3):295-302. [Abstract]
24. Wruck, W., Griffiths, H., Steinfath, M., Lehrach, H., Uwe
Radelof, U., O'Brien, J. (2002)
Xdigitise: visualization of hybridization experiments.
Bioinformatics, 18:757-760. [Abstract]
23. Olbrich, H., Häffner, K., Kispert, A., Völkel, A., Volz, A.,
Sasmaz, G., Reinhardt, R., Hennig, S., Lehrach, H., Konietzko, N., Zariwala,
M., Noone, P.G., Knowles, M., Mitchison, H.M., Meeks, M., Eddie, M.K., Chung,
E.M.K., Hildebrandt, F., Sudbrak, R., Omran, H. (2002)
Mutations in DNAH5 cause primary ciliary dyskinesia and randomization of
left-right asymmetry.
Nature Genetics, 30:143-144. [Abstract]
22. Herwig, R., Aanstad, P., Clark, M., Lehrach, H.
(2001).
Statistical evaluation of differential expression on cDNA nylon arrays
with replicated experiments.
Nucleic Acids Research, 29:e117. [Abstract] [PDF]
21. Zehetner, G., Pack, M., Schäfer, K. (2001).
Preparation and Screening of High-Density cDNA Arrays with Genomic Clones.
Methods in Molecular Biology, vol. 175: Genomics Protocols, edited
by: M. P. Starkey and R. Elaswarapu, Humana Press Inc., Totowa, NJ 169-188.
20. Dickmeis, T., Aanstad, P., Clark, M., Fischer, N., Herwig,
R., Mourrain, P., Blader, P., Rosa, F., Lehrach, H., Straehle, U. (2001).
Identification of nodal signalling targets by array analysis of induced
complex probes.
Developmental Dynamics, 222:571-580. [Abstract]
19. Clark, M., Hennig, S., Herwig, R., Clifton, S., Marra, M., Lehrach,
H., Johnson, S., and the WU-GSC EST Group (2001).
An Oligonucleotide Fingerprint Normalized and Expressed Sequence Tag
Zebrafish cDNA Library.
Genome Research, 11:1594-1602. [Abstract]
18. Handschug, K., Sperling, S., Yoon, SJ., Hennig, S., Clark,
AJ., Huebner, A. (2001).
Triple A syndrome is caused by mutations in AAAS, a new WD-repeat protein
gene.
Human Molecular Genetics, 10:283-290. [Abstract]
17. Guerasimova, A., Nyarsik, L., Girnus, M., Steinfath, M.,
Wruck, W., Griffiths, H., Wierling, C., Herwig, R., O'Brien, J., Eickhoff,
H., Lehrach, H., Radelof, U. (2001).
New tools for oligonucleotide fingerprinting.
BioTechniques, 31:490-495. [Abstract]
16. Steinfath, M., Wruck, W., Seidel, H., Lehrach, H., Radelof,
U., O'Brien, J. (2001).
Automated image analysis for array hybridisation experiments.
Bioinformatics, 17:634-641. [Abstract]
15. Seranski, P., Hoff, C., Radelof, U., Hennig, S., Reinhardt,
R., Schwartz, CE., Heiss, NS., Poustka, A. (2001).
RAI1 is a novel polyglutamine encoding gene that is deleted in
Smith-Magenis syndrome patients.
Gene, 270:69-76. [Abstract]
14. Lander, E.S., et al. (2001).
Initial sequencing and analysis of the human genome.
Nature, 409:860-921. [Abstract]
13. Hattori, M., ..., Ramser, J., Beck, A., Klages,
S., Hennig, S., Riesselmann, L., Dagand, E., Haaf, T., Wehrmeyer, S., Borzym,
K., Gardiner, K., Nizetic, D., Francis, F., Lehrach, H., Reinhardt, R.,
Yaspo, ML. (2000).
The DNA sequence of human chromosome 21.
Nature, 405:311-319. [Abstract]
12. Herwig, R., Schmitt, A.O., Steinfath, M., O'Brien, J.,
Seidel, H., Meier-Ewert, S., Lehrach, H., Radelof, U. (2000).
Information theoretical probe selection for hybridisation experiments.
Bioinformatics 16: 890-898. [Abstract]
11. Herwig, R. (2000).
Ein Normalisierungs- und Clusteranalyseprogramm zur Bearbeitung großer
genomischer Datenmengen.
In Forschung und wissenschaftliches Rechnen. Beiträge zum Heinz-Billing
Preis 1999 (eds T. Plesser und H. Hayd), pp 93-107.
Gesellschaft für wissenschaftliche Datenverarbeitung Göttingen (GWDG).
[Heinz-Billing
Preis]
10. Hennig, S., Herwig, R., Clark, M., Aanstad, P., Musa, A.,
O'Brien, J., Bull, C., Radelof, U., Panopoulou, G., Poustka, A., Lehrach, H.
(2000).
A data-analysis pipeline for large-scale gene expression analysis.
In Proceedings of the 4th Annual International Conference on Research in
Computational Molecular Biology RECOMB 2000 (eds R. Shamir et al.), pp
165-173.
ACM Press, New York. [Abstract]
9. Boeddrich, A., Burgtorf, C., Francis, F., Hennig,
S., Panopoulou, G., Steffens, C., Borzym, K., Lehrach, H. (1999).
Sequence analysis of an amphioxus cosmid containing a gene homologous to
members of the aldo-keto reductase gene superfamily.
Gene, 230:207-14. [Abstract]
8. Seranski, P., Heiss, N.S., Dhorne-Pollet, S., Radelof, U.,
Korn, B., Hennig, S., Backes, E., Schmidt, S., Wiemann, S., Schwarz, CE.,
Lehrach, H., Poustka, A. (1999).
Transcription mapping in a medullo-blastoma breakpoint interval and
Smith-Magenis syndrome candidate region: identification of 53 transcriptional
units and new candidate genes.
Genomics, 56:1-11. [Abstract]
7. Herwig, R., Poustka, A., Müller, C., Bull, C., Lehrach, H.,
O'Brien, J. (1999).
Large-scale clustering of cDNA fingerprinting data.
Genome Research 9: 1093-1105. [Abstract]
6. Poustka, A., Herwig, R., Krause, A., Hennig, S.,
Meier-Ewert, S., Lehrach, H. (1999).
Towards the gene catalogue of sea urchin development: the construction and
analysis of an unfertilized egg cDNA library highly normalized by
oligonucleotide fingerprinting.
Genomics 59: 122-133. [Abstract]
5. Boeddrich, A., Burgtorf, C., Roest Crollius, H., Hennig, S.,
Bernot, A., Clark, M., Reinhardt, R., Lehrach, H., Francis, F. (1999).
Analysis of the spermine synthase gene region in Fugu rubripes, Tetraodon
fluviatilis, and Danio rerio.
Genomics, 57:164-168. [Abstract]
4. Schmitt, A.O., Herwig, R., Meier-Ewert, S., Lehrach, H.
(1999).
High-density cDNA grids for hybridization fingerprinting experiments.
PCR Applications. Protocols for functional genomics (eds M.A. Innis,
D.H. Gelfand, and J.J. Sninsky), pp 457-472.
Academic Press, San Diego. [Abstract]
3. Radelof, U., Hennig, S.,
Seranski, P., Steinfath, M., Ramser, J., Reinhard, R.,Poustka, A., Francis,
F., Lehrach, H. (1998).
Preselection of shotgun clones by oligonucleotide fingerprinting: an
efficient and high throughput strategy to reduce redundancy in large-scale
sequencing projects.
Nucleic Acids Research 26: 5358-5364 [Abstract]
2. Meier-Ewert, S., Lange, J., Gerst, H., Herwig, R., Schmitt,
A.O., Freund, J., Elge, T., Mott, R., Herrmann, B., Lehrach, H. (1998).
Comparative gene expression profiling by oligonucleotide fingerprinting.
Nucleic Acids Research 26(9): 2216-2223. [Abstract]
1. Panopoulou, G., Clark, M., Gerst, H., Herwig, R., Holland,
L.Z., Holland, N.D., Lehrach, H. (1998).
Large-scale identification of amphioxus genes from different developmental
stages using oligonucleotide fingerprinting.
Developmental Biology 198(1): 200-201.
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