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1Applications in Bioinformatics: An Insight into Bioinformatic SoftwareBySahil Amin [email protected]Biology 230W7 December 2014
2IntroductionBioinformatics is a growing field in biology which combines the application of biologicalsciences with emerging technological advancements. Loosely, bioinformatics can be seen as acombination of information technology, computer science, and biology. The new field reliesheavily on mathematical and statistical methods to analyze data. Computer software is oftenresponsible for reading and analyzing data in a fast and efficient method. The scope ofbioinformatics 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 readilyavailable public tools.MaterialsMethodsInformation was accessed on numerous levels using each of the three listed websites. In nearlyall cases, step-by-step instructions were provided in the original lab protocols as a means togather data. Collecting data was often as simple as entering the proper query and simplyselecting the proper result. For example, in locating the BRCA1 gene full description, the stepswere as simple as:1.Accessing 2.Selecting the “Gene” database3.Entering “BRCA1” as the query4.Selecting the proper gene (typically second result)This procedure was repeated as necessary for each section, utilizing proper websites and queries.Bioinformatics Lab AExercise One1. What are the different kinds of databases available to you on this website? Give a briefdescription of each. Assembly – This is a database that provides information on genomes and meta-datasurrounded genomesBioProject – This database was formerly known as the Genome Project. It contains manyindependent submissions and serves to link relevant datasets of different genetic studies.CDD – Stands for Conserved Domain Database. It is a database full of sequencealignments that represent different domains of proteins. Used in research involvingmolecular evolution. dbEST – Database of cDNA.dbGSS – GenBank database composed of single-pass DNA sequences.
3GenBank – National Institute of Health database, contains publically available DNAsequences. Collaborates with DNA DataBank of Japan, European Molecular BiologyLaboratory, 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 Projectand GenBank.Protein Database – Protein sequence database, searches GenPept, RefSeq, Swiss-Prot,PIR, PRF, and PDB.