TOOLS AND DATA BASES OF NCBI
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The document is a presentation report on the National Center for Biotechnology Information (NCBI) by Ipsita Sahoo, detailing its role in biotechnology and biomedicine, including significant databases like GenBank and PubMed. It discusses tools developed by NCBI, notably the Basic Local Alignment Search Tool (BLAST), which aids in comparing sequences and inferring evolutionary relationships. Additionally, it covers various databases maintained by NCBI, highlighting their importance for biomedical research.
TOOLS AND DATA BASES OF NCBI
- 1. 1 | P a g e TOOLS AND DATA BASES OF NCBI Presentation report by IPSITA SAHOO Registration No – 200705180160 DEPARTMENT OF ZOOLOGY Under the supervision of Dr. Bibhudutta Mishra Assistant Professor, School of Applied Sciences Centurion University of Technology and Management, Bhubaneswar, Odisha SCHOOL OF APPLIED SCIENCES (SOAS) Centurion University of Technology and Management, Bhubaneswar, Odisha
- 2. 2 | P a g e CONTENTS NCBI; Introduction, Homepage and about Tools and database of NCBI BLAST; Introduction, Homepage and types of BLAST Some databases of NCBI References Acknowledgements
- 3. 3 | P a g e NCBI; Introduction NCBI stands for “National Center for Biotechnology Information” It is part of the United States National Library of Medicine (NLM), a branch of the National Institutes of Health (NIH). It is approved and funded by the government of the United States. The NCBI is located in Bethesda, Maryland and was founded in 1988 through legislation sponsored by US Congressman Claude Pepper. The NCBI houses a series of databases relevant to biotechnology and biomedicine and is an important resource for bioinformatics tools and services. Major databases include GenBank for DNA sequences and PubMed, a bibliographic database for biomedical literature. Other databases include the NCBI Epigenomics database. All these databases are available online through the Entrez search engine. Tools and Databases of NCBI
- 4. 4 | P a g e Home page of NCBI
- 5. 5 | P a g e About NCBI
- 6. 6 | P a g e BIAST BIAST stands for Basic local Alignment Search Tool. BLAST was developed by Stephen Atschu, Warren Gish, Webb Miller, Eugene Myers, and David J. Lipman at NCBI in 1990. It is a local alignment tool. It helps to find regions of local similarity between sequences. It is a program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families. Types of BLAST
- 7. 7 | P a g e Homepage of BLAST
- 8. 8 | P a g e Some databases of NCBI Nucleotide database The Nucleotide sequence database is a collection of sequences from GenBank, RefSeq, and Third Party Annotation (TPA). Genome, gene and transcript sequence data provide the foundation for biomedical research and discovery. Protein sequence database The Protein sequence database is a collection of data from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB. Structural databases Structural databases are essential tools for all crystallographic work and often need to be consulted at several stages of the process of producing, solving, refining and publishing the structure of a new material. OMIM - Online Mendelian Inheritance in Man OMIM is a comprehensive, authoritative compendium of human genes and genetic phenotypes that is freely available and updated daily. OMIM is authored and edited at the McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, under the direction of Dr. Ada Hamosh. Its official home is omim.org.
- 9. 9 | P a g e References National Center for Biotechnology Information (US). (2013). The NCBI handbook. National Center for Biotechnology Information (US). https://blast.ncbi.nlm.nih.gov/Blast.cgi https://www.ncbi.nlm.nih.gov/ https://en.wikipedia.org/wiki/National_Center_for_Biotechnology_Information Acknowledgements • My subject teacher: Dr. Bibhudutta Mishra • Dr. Yashaswi Nayak, HOD and Dean SOAS • All the Faculty members of Department of Zoology, School of Applied sciences, CUTM • Family and friends