lab report 2 kill me - 1 Applications in Bioinformatics An...

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1 Applications in Bioinformatics: An Insight into Bioinformatic Software By Sahil Amin [email protected] Biology 230W 7 December 2014
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2 Introduction Bioinformatics is a growing field in biology which combines the application of biological sciences with emerging technological advancements. Loosely, bioinformatics can be seen as a combination of information technology, computer science, and biology. The new field relies heavily on mathematical and statistical methods to analyze data. Computer software is often responsible for reading and analyzing data in a fast and efficient method. The scope of bioinformatics currently transcends many levels, as it is utilized in medical fields, pharmacology, and molecular biology. In this lab, major aspects of bioinformatics were analyzed using readily available public tools. Materials http://bioinformaticssoftwareandtools.co.in http://www.ncbi.nlm.nih.gov http://arabidopsis.org Methods Information was accessed on numerous levels using each of the three listed websites. In nearly all cases, step-by-step instructions were provided in the original lab protocols as a means to gather data. Collecting data was often as simple as entering the proper query and simply selecting the proper result. For example, in locating the BRCA1 gene full description, the steps were as simple as: 1. Accessing http://www.ncbi.nlm.nih.gov 2. Selecting the “Gene” database 3. Entering “BRCA1” as the query 4. Selecting the proper gene (typically second result) This procedure was repeated as necessary for each section, utilizing proper websites and queries. Bioinformatics Lab A Exercise One 1. What are the different kinds of databases available to you on this website? Give a brief description of each. Assembly – This is a database that provides information on genomes and meta-data surrounded genomes BioProject – This database was formerly known as the Genome Project. It contains many independent submissions and serves to link relevant datasets of different genetic studies. CDD – Stands for Conserved Domain Database. It is a database full of sequence alignments that represent different domains of proteins. Used in research involving molecular evolution. dbEST – Database of cDNA. dbGSS – GenBank database composed of single-pass DNA sequences.
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3 GenBank – National Institute of Health database, contains publically available DNA sequences. Collaborates with DNA DataBank of Japan, European Molecular Biology Laboratory, and GenBank at NCBI. Gene – Database organized around genomic sequences that are actively being researched. Influenza Virus – Database with data from NIAID Influenza Genome Sequencing Project and GenBank. Protein Database – Protein sequence database, searches GenPept, RefSeq, Swiss-Prot, PIR, PRF, and PDB.
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