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Page 1 EMBL Institute of Life Long Learning 0 Subject : Bioinformatic Lesson : European Molecular Biology Laboratory (EMBL) Lesson Developer: Sandip Das Department/ College: Department of Botany, University of Delhi Page 2 EMBL Institute of Life Long Learning 0 Subject : Bioinformatic Lesson : European Molecular Biology Laboratory (EMBL) Lesson Developer: Sandip Das Department/ College: Department of Botany, University of Delhi EMBL Institute of Life Long Learning 1 Table of Contents Contents Chapter : European Molecular Biology Laboratory ? Introduction European Bioinformatics Institute ? Databases at EBI ? Nucleotide databases ? Functional Genomics Databases ? Protein databases ? Structure databases ? Sequence Analysis ? Pairwise analysis ? Multiple sequence alignment ? Homology Searching ? Summary ? Exercises ? Glossary ? References Page 3 EMBL Institute of Life Long Learning 0 Subject : Bioinformatic Lesson : European Molecular Biology Laboratory (EMBL) Lesson Developer: Sandip Das Department/ College: Department of Botany, University of Delhi EMBL Institute of Life Long Learning 1 Table of Contents Contents Chapter : European Molecular Biology Laboratory ? Introduction European Bioinformatics Institute ? Databases at EBI ? Nucleotide databases ? Functional Genomics Databases ? Protein databases ? Structure databases ? Sequence Analysis ? Pairwise analysis ? Multiple sequence alignment ? Homology Searching ? Summary ? Exercises ? Glossary ? References EMBL Institute of Life Long Learning 2 Introduction Keeping with the tremendous growth in field of computational biology, a need was felt to establish an independent and parallel research institute that would act not just as a mirror housing the Genbank nucleotide resources of NCBI, but would also develop matching databases and analysis tools. The European Molecular Biology Laboratory (EMBL) was thus established in 1974 and is now supported with funding from 20 members states of the European Union (EU), Israel and Australia. EMBL currently operates five research institutes in different countries with main institute at Heidelberg, Germany. The five institutes of EMBL with their core research activities are (http://www.embl.org/): a. EMBL Heidelberg (Germany; http://www.embl.de/) b. EMBL Grenoble (France; http://www.embl.fr/index.php)- Structural Biology c. EMBL-European Bioinformatics Institute (EBI) Hinxton (UK; http://www.ebi.ac.uk/)- Bioinformatics d. EMBL Hamburg (Germany; http://www.embl-hamburg.de/index.php) Structural Biology e. EMBL Monterotondo (Italy; http://www.embl.it/index.php)- Mouse Biology The broad goals of EMBL are: a. Basic research in Molecular biology b. Training manpower i.e. students, scientist and visitors c. Develop new tools, technologies and methods d. Offer service to the research community e. Transfer technology to industry for commercialization Page 4 EMBL Institute of Life Long Learning 0 Subject : Bioinformatic Lesson : European Molecular Biology Laboratory (EMBL) Lesson Developer: Sandip Das Department/ College: Department of Botany, University of Delhi EMBL Institute of Life Long Learning 1 Table of Contents Contents Chapter : European Molecular Biology Laboratory ? Introduction European Bioinformatics Institute ? Databases at EBI ? Nucleotide databases ? Functional Genomics Databases ? Protein databases ? Structure databases ? Sequence Analysis ? Pairwise analysis ? Multiple sequence alignment ? Homology Searching ? Summary ? Exercises ? Glossary ? References EMBL Institute of Life Long Learning 2 Introduction Keeping with the tremendous growth in field of computational biology, a need was felt to establish an independent and parallel research institute that would act not just as a mirror housing the Genbank nucleotide resources of NCBI, but would also develop matching databases and analysis tools. The European Molecular Biology Laboratory (EMBL) was thus established in 1974 and is now supported with funding from 20 members states of the European Union (EU), Israel and Australia. EMBL currently operates five research institutes in different countries with main institute at Heidelberg, Germany. The five institutes of EMBL with their core research activities are (http://www.embl.org/): a. EMBL Heidelberg (Germany; http://www.embl.de/) b. EMBL Grenoble (France; http://www.embl.fr/index.php)- Structural Biology c. EMBL-European Bioinformatics Institute (EBI) Hinxton (UK; http://www.ebi.ac.uk/)- Bioinformatics d. EMBL Hamburg (Germany; http://www.embl-hamburg.de/index.php) Structural Biology e. EMBL Monterotondo (Italy; http://www.embl.it/index.php)- Mouse Biology The broad goals of EMBL are: a. Basic research in Molecular biology b. Training manpower i.e. students, scientist and visitors c. Develop new tools, technologies and methods d. Offer service to the research community e. Transfer technology to industry for commercialization EMBL Institute of Life Long Learning 3 We would limit ourselves to the bioinformatics research, database and facilities of EMBL that is located at EMBL-EBI in the following sections. European Bioinformatics Institute (EBI) The European Bioinformatics Institute (EBI-EMBL) was established in 1980 as the EMBL Nucleotide Sequence Data Library at Heidelberg and in-fact was the world’s first public nucleotide database preceding NCBI by eight years (NCBI was established in 1988) with an objective to create database of published nucleotide sequences. Subsequently in 1992, the EMBL decided to establish EBI as a dedicated research cum analysis facility at the Wellcome Trust Genome Campus, Hinxton (UK) in close proximity to Sanger Sequencing Center. At present, EBI-EMBL houses databases and provides service and analysis tools for all major research disciplines requiring computational support. In addition, EBI is also a partner and coordinator for International Nucleotide Sequence Database Collaboration (INSDC; http://www.insdc.org) for public domain nucleotide sequence information together with Genbank at NCBI (www.ncbi.nim.nih.gov) and DNA databank of Japan (DDBJ; www.ddbj.nig.ac.jp). The following are the broad categories of databases at EBI-EMBL: a. Biological Ontologies b. Literature c. Functional Genomics or microarray d. Nucleotides e. Pathways and Networks f. Protein g. Proteomics h. Small Molecules i. Structure Page 5 EMBL Institute of Life Long Learning 0 Subject : Bioinformatic Lesson : European Molecular Biology Laboratory (EMBL) Lesson Developer: Sandip Das Department/ College: Department of Botany, University of Delhi EMBL Institute of Life Long Learning 1 Table of Contents Contents Chapter : European Molecular Biology Laboratory ? Introduction European Bioinformatics Institute ? Databases at EBI ? Nucleotide databases ? Functional Genomics Databases ? Protein databases ? Structure databases ? Sequence Analysis ? Pairwise analysis ? Multiple sequence alignment ? Homology Searching ? Summary ? Exercises ? Glossary ? References EMBL Institute of Life Long Learning 2 Introduction Keeping with the tremendous growth in field of computational biology, a need was felt to establish an independent and parallel research institute that would act not just as a mirror housing the Genbank nucleotide resources of NCBI, but would also develop matching databases and analysis tools. The European Molecular Biology Laboratory (EMBL) was thus established in 1974 and is now supported with funding from 20 members states of the European Union (EU), Israel and Australia. EMBL currently operates five research institutes in different countries with main institute at Heidelberg, Germany. The five institutes of EMBL with their core research activities are (http://www.embl.org/): a. EMBL Heidelberg (Germany; http://www.embl.de/) b. EMBL Grenoble (France; http://www.embl.fr/index.php)- Structural Biology c. EMBL-European Bioinformatics Institute (EBI) Hinxton (UK; http://www.ebi.ac.uk/)- Bioinformatics d. EMBL Hamburg (Germany; http://www.embl-hamburg.de/index.php) Structural Biology e. EMBL Monterotondo (Italy; http://www.embl.it/index.php)- Mouse Biology The broad goals of EMBL are: a. Basic research in Molecular biology b. Training manpower i.e. students, scientist and visitors c. Develop new tools, technologies and methods d. Offer service to the research community e. Transfer technology to industry for commercialization EMBL Institute of Life Long Learning 3 We would limit ourselves to the bioinformatics research, database and facilities of EMBL that is located at EMBL-EBI in the following sections. European Bioinformatics Institute (EBI) The European Bioinformatics Institute (EBI-EMBL) was established in 1980 as the EMBL Nucleotide Sequence Data Library at Heidelberg and in-fact was the world’s first public nucleotide database preceding NCBI by eight years (NCBI was established in 1988) with an objective to create database of published nucleotide sequences. Subsequently in 1992, the EMBL decided to establish EBI as a dedicated research cum analysis facility at the Wellcome Trust Genome Campus, Hinxton (UK) in close proximity to Sanger Sequencing Center. At present, EBI-EMBL houses databases and provides service and analysis tools for all major research disciplines requiring computational support. In addition, EBI is also a partner and coordinator for International Nucleotide Sequence Database Collaboration (INSDC; http://www.insdc.org) for public domain nucleotide sequence information together with Genbank at NCBI (www.ncbi.nim.nih.gov) and DNA databank of Japan (DDBJ; www.ddbj.nig.ac.jp). The following are the broad categories of databases at EBI-EMBL: a. Biological Ontologies b. Literature c. Functional Genomics or microarray d. Nucleotides e. Pathways and Networks f. Protein g. Proteomics h. Small Molecules i. Structure EMBL Institute of Life Long Learning 4 Figure: Webportal of EMBL and EBI Source: http://www.embl.org/ , http://www.ebi.ac.uk/ Databases at EBI The following section will deal with selected databases of EBI-EMBL: Nucleotide databases a. European Nucleotide Archive (ENA): ENA receives nucleotide data from a variety of sources, including small scale sequencing studies, sequencing centers and the INSDC (i.e. Genbank and DDBJ). In order to better manage the sequencing resources, ENA has been divided in several sub-databases such as ? ENA-Genome - for genome sequencing dataRead More
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1. What is the European Molecular Biology Laboratory (EMBL) Botany? |
2. What kind of research is conducted at the EMBL Botany? |
3. How does the EMBL Botany contribute to the field of plant biology? |
4. Are there any collaborations between the EMBL Botany and other research institutions? |
5. Can students or researchers apply to work at the EMBL Botany? |
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