PPT-An Overview of Gene Structure & Function Prediction

Marcus Chibucos PhD University of Maryland School of Medicine June 2014 Overview amp goals Understand 1 How we predict presence amp structure of coding amp noncoding genes in the genome. Why do we want to know protein structure?. Classification. Functional Prediction. What is protein structure?. Primary - chains of amino acids. Secondary - interaction between groups of amino acids. Tertiary - the organization in three dimensions of all the atoms in a polypeptide. Ab-initio based methods. Angela Pena Gonzalez. Lavanya Rishishwar. Introduction. What Gene Prediction means and a brief background. Introduction: Gene Prediction. Gene Prediction is the process of detection of the location of . Cell/Developmental Biology I. Group Members. Kelly Hogan, Facilitator . Rita Graze. Matthew . Kearley. . Zheng-Hua. Ye. Xiaoyu. Zhang. Christine Sestero. Heather Tinsley. Learning Goal: . Understand . Avdesh Mishra, . Md. . Tamjidul. . Hoque. {amishra2, . thoque. }@uno.edu. Presented By: Avdesh Mishra. Department of Computer Science. Protein structure in its native state gains lowest free energy. Miguel . Andrade. Faculty of Biology, . Johannes Gutenberg University . Institute of Molecular Biology. Mainz, Germany. a. ndrade@uni-mainz.de. X-ray crystallography . (103,988 . in PDB). need crystals. Data. Lijing Wang. 1. , . Yangzhong. . Tang. 2. , . Stevan. . Djakovic. 2. , . Julie . Rice. 2. , . Tony . Wu. 2. , . Daniel J. . Anderson. 2. , . Yuan . Yao. 3. DahShu. Data Science Symposium: Computational Precision Health . . . j.pinney@imperial.ac.uk. . Gene annotation. . . G. oal: . . transfer . knowledge . about the function of gene products from model . organisms . to other genomes. . . Gene annotation. Section 1: Introduction and biological databases.. Section 2: Sequence alignment.. Section 3: Gene and promoter prediction.. Section 4: Molecular phylogenetics.. Section 5: Structural Bioinformatics. VBC-603. P.G.. 30.12.2020. Protein . Strucuture. Sequence, Structure and Function. What determines fold?. Anfinsen’s experiments in 1957 demonstrated that proteins can fold spontaneously into their native conformations under physiological conditions. This implies that primary structure does indeed determine folding or 3-D . Daniel Standage. Biology Department. Indiana University. An-no-ta-. tion. . \ˌa. -. nə. -ˈ. tā-. shən. \. A critical or explanatory note or body of notes added to a text. The act of annotating. . Miguel . Andrade. Faculty of Biology, . Johannes Gutenberg University . Institute of Molecular Biology. Mainz, Germany. a. ndrade@uni-mainz.de. Secondary structure prediction. Amino acid sequence -> Secondary structure. 1. Introduction to Data-driven Prognostics. physics-based prognostics approaches are a powerful tool for predicting the future behavior of damage degradation with a relatively small number of observed data. Some of the slides are adapted from Dr. Dong Xu’s lecture notes. Why secondary structure prediction?. Accurate secondary structure prediction can be an important information for the tertiary structure prediction. Knock-down or knock-out of gene function. 1. http://moodle2.rockyview.ab.ca/mod/book/tool/print/. index.php?id. =51991&chapterid=25407. Rationale of knock-out, knock-down. Used for eliminating or reducing the expression of a gene in an organism, resulting in a .