166:
207:
produced by Incyte, Wilmington, Delaware, USA, which were operated at the time by Incyte's subsidiary, Proteome Inc in
Beverly, MA. The early flagship of Proteome was the Yeast Proteome Database (YPD), which was complemented by a number of similar databases. Their latest achievement before the acquisition was the Human Proteome Survey Database (HumanPSD).
206:
By end of 1999, BIOBASE acquired venture capital from the IMH funds, now managed by
Triginta Capital, by the MBG (Hannover; until 2007) and the tbg. In 2002, Intec W&G, Tokyo, Japan, invested in the company and remained a shareholder until 2005. In early 2005, the company acquired the databases
198:
The company was founded in 1997 as a spin-off from the German
Research Centre for Biotechnology (GBF), Braunschweig, Germany, known today as the Helmholtz Research Centre for Infection Research. *The founders were scientists of the GBF Research Group Bioinformatics, headed at that time by Edgar
202:
The company's original product was the TRANSFAC database, a platform for the description and analysis of gene regulatory events and networks. This was subsequently complemented by a number of smaller databases relevant to aspects of gene regulation, and by an early signaling pathway database
218:
BIOBASE GmbH has three fully owned daughter companies: BIOBASE Corporation in
Beverly/Massachusetts, USA (since 2005), BIOBASE Databases India Pvt Ltd. in Bangalore, India (since 2006), and BIOBASE Japan K.K. in Yokohama, Japan (since 2007).
203:(TRANSPATH). TRANSPATH constituted the earliest signaling pathway database, alongside the Cell Signaling Network Database (CSNDB) curated by T. Takai at the National Institute of Health Sciences (NIHS) in Tokyo.
902:
265:
In addition, BIOBASE has developed the ExPlain system for the biological interpretation of gene expression and proteomics data by integrated functional, promoter and pathway analysis.
677:"Annotating the human proteome: the Human Proteome Survey Database (HumanPSD) and an in-depth target database for G protein-coupled receptors (GPCR-PD) from Incyte Genomics"
304:(KPO) services. These may comprise the development and population of customized databases with specific contents, or systematic analyses of gene expression data.
1057:
337:
LipidomicNet: Identification of targets for and biomarkers of energy overload diseases through lipid protein interactions (21 partners; funded under EU7);
190:. The company focuses on the generation, maintenance, and licensing of databases in the field of molecular biology, and their related software platforms.
899:
441:
1047:
1052:
340:
GlobCell: Global scale analysis and prediction of human cellular behaviour in a complex environment (4 partners; funded by
Eurotrans-Bio, ETB).
331:
Eurodia: Potential targets for prevention and treatment of dysfunctional insulin secretion in type 2 diabetes (20 partners; funded under EU6)
312:
BIOBASE is a member of the following publicly funded research consortia, the first two of them being coordinated by BIOBASE (Alexander Kel):
268:
The "Gene
Regulation Portal" offers a number of earlier revisions of company products free of charge to users from non-profit organizations.
322:
Sysco: Combined experimental, bioinformatics and simulation approaches to analyze intracellular parasitism (8 partners; funded under EU6)
425:
227:
The company's databases provide manually curated content, collected and structured from peer-reviewed scientific primary publications.
279:
884:
628:"YPD, PombePD and WormPD: model organism volumes of the BioKnowledge library, an integrated resource for protein information"
316:
Net2Drug: Integrated
Labwork, Bio- and Cheminformatics technology for fighting breast cancer (9 partners; funded under EU6)
626:
Costanzo, MC; Crawford, ME; Hirschman, JE; Kranz, JE; Olsen, P; Robertson, LS; Skrzypek, MS; Braun, BR; et al. (2001).
521:
Matys, V; Kel-Margoulis, OV; Fricke, E; Liebich, I; Land, S; Barre-Dirrie, A; Reuter, I; Chekmenev, D; et al. (2006).
855:
317:
301:
132:
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574:"TRANSPATH: an information resource for storing and visualizing signaling pathways and their pathological aberrations"
325:
TRANSISTOR: Bioinformatics modeling of plant regulatory circuits (7 partners; Marie-Curie
Project funded under EU6)
364:
352:
675:
Hodges, PE; Carrico, PM; Hogan, JD; O'Neill, KE; Owen, JJ; Mangan, M; Davis, BP; Brooks, JE; Garrels, JI (2002).
451:
393:
108:
920:"Genome wide prediction of HNF4alpha functional binding sites by the use of local and global sequence context"
572:
Krull, M; Pistor, S; Voss, N; Kel, A; Reuter, I; Kronenberg, D; Michael, H; Schwarzer, K; et al. (2006).
841:
100:
96:
527:
478:
411:
234:
TRANSFAC: Eukaryotic transcription factors, their genomic DNA-binding sites and DNA-binding profiles
358:
249:
YPD: The complete yeast proteome (protein reports for all known
Saccharomyces cerevisiae proteins)
165:
830:
870:
503:
286:
871:
Home – Systematic functional analysis of intracellular parasitism as a model of genomes conflict
230:
The BIOBASE Knowledge
Library (BKL) is an integrated database comprising the following modules:
343:
TCellTalk: (3 partners; funded by German Ministry of Research in the Forsys partnering program)
1002:
951:
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706:
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Wingender. The company is now managed by Michael Tysiak (CEO/CFO) and Frank Schacherer (COO).
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Department of Bioinformatics and Biochemistry – Technical University of Braunschweig Germany
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PathoDB: Pathologically relevant mutations in transcription factors and their binding sites
906:
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35:
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Valapodyn: Dynamic modeling of data on brain pathologies (7 partners; funded under EU6)
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https://web.archive.org/web/20110111035825/http://www.biobase.de/pages/index.php?id=437
179:
45:
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PombePD, MycopathPD: Proteomes of Schizosaccharomyces pombe and of pathological fungi
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676:
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627:
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971:"Short sequence motifs, overrepresented in mammalian conserved non-coding sequences"
523:"TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes"
507:
472:
Wingender, E; Crass, T; Hogan, JD; Kel, AE; Kel-Margoulis, OV; Potapov, AP (2007).
772:
370:
Fraunhofer Institute of Toxicology and Experimental Medicine, Hannover, Germany;
852:
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334:
Gen2Phen: Unified genotype-phenotype database (19 partners; funded under EU7)
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BIOBASE with all subsidiaries was acquired by QIAGEN GmbH on April 2, 2014.
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TRANSPATH: Signal transduction and metabolic pathways in mammalian species
643:
474:"Integrative content-driven concepts for bioinformatics "beyond the cell""
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TRANSPro: Promoter sequences from a number of selected eukaryotic species
121:
48:
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Minovitsky, S; Stegmaier, P; Kel, A; Kondrashov, AS; Dubchak, I (2007).
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Lawrence Berkeley National Laboratory, Berkeley/CA, USA (I. Dubchak)
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A number of third-party products are also distributed by BIOBASE:
1033:
Helmholtz Research Centre for Infection Research Official website
1027:
275:
S/MARt DB: Scaffold/matrix attached regions (HZI Braunschweig)
367:& Strategic Medicine, Inc, Windber/PA, USA (M. Liebman);
347:
In addition, BIOBASE has entered research partnerships with
918:
Kel, AE; Niehof, M; Matys, V; Zemlin, R; Borlak, J (2008).
726:"S/MARt DB: a database on scaffold/matrix attached regions"
783:
853:
BIOBASE Biological Databases: SysCo - Functional Analysis
237:
TRANSCompel: Transcription regulating composite elements
806:
Cell System Markup Language (CSML) - Cell Illustrator
724:
Liebich, I; Bode, J; Frisch, M; Wingender, E (2002).
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258:HumanPSD: The proteomes of human, mouse and rat
255:WormPD: The proteome of Caenorhabditis elegans
300:In addition to these products, BIOBASE offers
292:CI: Cell Illustrator for pathway simulations (
8:
261:GPCR-PD: G-protein coupled receptor reports
26:
278:BRENDA: The BRaunschweig ENzyme DAtabase (
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882:BIOBASE Biological Databases: TRANSISTOR
285:HGMD: The Human Gene Mutation Database (
404:
412:BIOBASE acquires Proteome from Incyte
7:
355:, Göttingen, Germany (E. Wingender);
351:University Medicine of Georg August
16:International bioinformatics company
135:, custom curation, ExPlain analysis
1058:Biotechnology companies of Germany
14:
280:Technical University Braunschweig
818:"Cell Illustartor - new_version"
1048:Companies based in Lower Saxony
442:"BIOBASE opens Yokohama office"
423:BIOBASE opens Bangalore office
124:, Proteome databases, ExPlain,
1:
1053:Companies established in 1997
302:Knowledge process outsourcing
133:Knowledge process outsourcing
308:Scientific projects/research
584:(Database issue): D546–51.
535:(Database issue): D108–10.
361:, Tokyo, Japan (S. Miyano);
120:BIOBASE Knowledge Library,
1079:
365:Windber Research Institute
18:
887:January 11, 2011, at the
858:January 11, 2011, at the
492:10.1007/s12038-007-0015-2
182:company headquartered in
394:Bioinformatics companies
19:Not to be confused with
988:10.1186/1471-2164-8-378
937:10.1186/gb-2008-9-2-r36
353:University of Göttingen
105:, Dr. Frank Schacherer
1028:Gene Regulation Portal
831:EU Projects at BIOBASE
730:Nucleic Acids Research
681:Nucleic Acids Research
632:Nucleic Acids Research
578:Nucleic Acids Research
528:Nucleic Acids Research
479:Journal of Biosciences
157:.biobase-international
905:May 24, 2008, at the
428:May 25, 2010, at the
223:Products and services
742:10.1093/nar/30.1.372
693:10.1093/nar/30.1.137
178:is an international
644:10.1093/nar/29.1.75
359:University of Tokyo
141:Number of employees
28:
1063:Database providers
590:10.1093/nar/gkj107
541:10.1093/nar/gkj143
287:Cardiff University
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70:Headquarters
32:Company type
27:BIOBASE GmbH
638:(1): 75–9.
145:~150 (2008)
1042:Categories
930:(2): R36.
458:2017-06-30
400:References
282:Enzymeta)
89:Key people
49:databases
1007:17945028
956:18291023
903:Archived
900:Gen2Phen
885:Archived
856:Archived
842:Net2Drug
784:enzymeta
760:11752340
711:11752275
662:11125054
608:16381929
559:16381825
508:16360290
500:17426389
426:Archived
378:See also
129:Services
122:TRANSFAC
117:Products
42:Industry
998:2176071
981:: 378.
947:2374721
599:1347469
550:1347505
447:Reuters
194:History
188:Germany
176:BIOBASE
150:Website
81:Germany
63:Germany
55:Founded
36:Private
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159:.com
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