BIOINFORMATICS MINOR INFORMATION SESSION Fall Quarter 2016 - PowerPoint PPT Presentation

UCLA UNDERGRADUATE BIOINFORMATICS MINOR INFORMATION SESSION Fall Quarter 2016

Published GWAS Reports, 2005 – 6/2012 1400 1350 1200 Total Number of Publications 1000 800 600 400 200 0 2005 2006 2007 2008 2009 2010 2011 2012 Calendar Quarter

Published Genome-Wide Associations through 6/2009, 439 published GWA at p < 5 x 10 -8 NHGRI GWA Catalog www.genome.gov/GWAStudies

Published Genome-Wide Associations through 6/2010, 904 published GWA at p<5x10 -8 for 165 traits NHGRI GWA Catalog www.genome.gov/GWAStudies

Published Genome-Wide Associations through 12/2012 Published GWA at p≤5X10 -8 for 17 trait categories NHGRI GWA Catalog www.genome.gov/GWAStudie s www.ebi.ac.uk/fgpt/gwas/

Published Genome-Wide Associations through 12/2013 Published GWA at p≤5X10 -8 for 17 trait categories NHGRI GWA Catalog www.genome.gov/GWAStudie s www.ebi.ac.uk/fgpt/gwas/

Sequencing Costs 8 Source: The Economist July 17 th , 2010

Genetic Study Growth GWAS Studies  2007 WTCC Consortium ~5,000 Individuals  2010 DIAGRAM Consortium ~25,000 individuals  2012 DIAGRAM Consortium 150,000 individuals  2015 NHS Study 500,000 individuals Sequencing Studies:  2015 Iceland Sequencing ~100,000 individuals  2015 PGC Sequencing 40,000 individuals  ???? UCLA Depression Grand Challenge 100,000 individuals  ???? UC Health System 11,000,000 individuals

A genetic study with 11,000,000 individuals?  “Health System Scale Genomic Study”  Participants are patients  Requires:  Efficient consent process  Biobank  Phenotyping through Electronic Health Records  Linking medical records across institutions  Phenotyping using technology (e.g. mobile, web)  Research data infrastructure integrated with medical centers  High performance computing infrastructure  Privacy issues (He,…, Eskin, Genome Research 2014) Data Analysis. Data Analysis. Data Analysis.

Bioinformatics @ UCLA  Bioinformatics is an important interdisciplinary research area with tremendous graduate training and industry opportunities.  Strong and growing group of faculty engaged in active research.  Numerous existing course offerings available at UCLA.  This Minor organizes available courses into a coherent undergraduate academic program.  Graduating students will be positioned to apply to graduate programs in Bioinformatics.  Graduating students will be positioned to enter biotechnology industry.

Undergraduate Bioinformatics Minor  8 Course Minor  2 Bioinformatics core courses  1 Bioinformatics elective course  1 seminar course  1 year of programming  1 upper division algorithms course  1 molecular biology course  1 linear algebra course  Students take the Minor in addition to their Major  Many opportunities for research

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Undergraduate Core Curriculum  Three courses  Co-scheduled with graduate Bioinformatics Ph.D. Core  CM 121 – Introduction to Bioinformatics (taught by Chis Lee)  CM 122 – Algorithms in Bioinformatics (taught by Eskin)  CM 124 – Computational Genetics (taught by Eskin)

Bioinformatics Lower Division Courses  Three required courses are prerequisites for upper division courses Advanced Programming 1.  PIC 10C or CS 32 Linear Algebra and Applications 2.  Math 33A Introduction to Molecular Biology 3.  Life Sciences 7A

Bioinformatics Upper Division Electives  Statistcs 100A, 100B - Introduction to Mathematical Statistics OR Biostatistics 110A,110B - Introduction to Biostatistics  Computer Science 170A - Mathematical Modeling and Methods for Computer Science  Electrical Engineering 102 - Systems and Signals  Electrical Engineering 141 - Principles of Feedback Control  Computer Science 122 - Algorithms in Bioinformatics and Systems Biology  Computational and Systems Biology 186 - Computational Systems Biology: Modeling and Simulation of Biological Systems  Human Genetics 144 - Genomic Technologies  Ecology and Evolution 135 – Population Genetics  Molecular Cellular and Developmental Biology 172 - Genomics and Bioinformatics  Physiological Sciences 125 - Molecular Systems Biology  Molecular Cellular and Developmental Biology 144 - Molecular Biology OR Microbiology Immunology and Molecular Genetics 132 - Cell Biology of Nucleus OR Chemistry or Biochemistry 153B - Biochemistry: DNA, RNA, and Protein Synthesis

Research Opportunities  Minor courses can be part of Major program giving additional electives to complete Minor.  Research can help complete minor:  8 units of research is available as part of Minor  with 2 additional units from CM 184 leaves only 10 units required to complete Minor  Undergraduate Research Program hosts:  bioinformatics.ucla.edu/undergraduate-research/  Many available projects with Bioinformatics Faculty  Leads to a few Bioinformatics Ph.D. students each year

Bruins-In-Genomics (B.I.G.) Summer  next generation sequencing analysis workshops, weekly science talks, journal clubs, professional development seminars, social activities, poster sessions, GRE prep  BIG Summer 2017 deadline: February 1, 2016 http://qcb.ucla.edu/big-summer/big-summer-application/

Undergraduate Minor Alumni  20 total since 2013  Applied Mathematics (2)  Biochemistry (3)  Bioengineering (2)  Cognitive Science (1)  Computer Science (3)  Mathematics of Computation (1)  Microbiology, Immunology, and Molecular Genetics (2)  Molecular, Cell, and Developmental Biology (3)  Neuroscience (3)

Current Minor Enrollments  25 total enrollment (underestimate)  Biochemistry (2)  Biology (1)  Biophysics (1)  Geology/Paleobiology (1)  Mathematics of Computation (1)  Mathematics/Economics (1)  Microbiology, Immunology, and Molecular Genetics (3)  Molecular, Cell, and Developmental Biology (6)  Neuroscience (3)  Pre-Applied Mathematics (1)  Pre-Microbiology, Immunology, and Molecular Genetics (3)  Statistics (2)

Graduate School Placement Examples  Shayna Stein – Harvard University  Harry Yang - UCLA  Xingyi Shi – Boston University  Ariel Wu - UCLA  Greg Darnell – Princeton University

Course Plan: Computer Science Major  Courses part of Major required courses:  CS 32, Math 33A, CS 180.  Students will take Sci-Tech Bio option (part of Major):  Life Sciences 7A or Life Science 3.  Students will take CS 184 as an introduction to the area.  Students can take 2 of CS 121, CS 122, and CS 124 as electives for their CS major.  Students will take additional bioinformatics elective courses to fulfill the minor requirements.  Students who take the optional Technical Breadth Area in Computational Genomics can take prerequisites and electives in the program:  Life Sciences 4, + 2 Bioinformatics electives

Course Plan: Chemistry Major  Courses part of Major required courses:  Math 31A, 31B, Life Sciences 3,23L (for Biochemistry Majors)  Students will take the following courses as prereqs for the Minor:  PIC 10A, PIC 10B  Students will take the following lower division Minor requirements:  PIC 10C, Math 33A, Life Science 3,23L (if not taken for Biochemistry Major).  Students will take Stat 100A, Biostatistics 100A or 110A.  Students will take Chem 160A and Chem 160B to count for both their Major and Minor.  Students will take CS 184 as an introduction to the area.  Students will take the following upper division Minor requirements:  Math 182, and CS 124.

Course Plan: Life Sciences (MCDB) Major  Courses part of Major required courses:  Math 31A, 31B, Life Sciences 3,23L, Life Sciences 4  Students can take MCDB 172 as elective for their MCDB major.  Students will take the following courses as prereqs for the Minor:  PIC 10A, PIC 10B and Math 32A or Math 61.  Students will take the following lower division Minor requirements:  PIC 10C, Math 33A.  Students will take CS 184 as an introduction to the area.  Students will take the following upper division Minor requirements:  CS 180 or Math 182, CS 121, CS 124, and one bioinformatics elective.

Course Plan: Life Sciences (MIMG) Major  Courses part of Major required courses:  Math 31A, 31B, Life Sciences 3,23L, Life Sciences 4  Students can take MCDB 172 as elective for their MIMG major.  Students will take the following courses as prereqs for the Minor:  PIC 10A, PIC 10B and Math 32A or Math 61.  Students will take the following lower division Minor requirements:  PIC 10C, Math 33A.  Students will take CS 184 as an introduction to the area.  Students will take the following upper division Minor requirements:  CS 180 or Math 182, CS 121, CS 124, and one bioinformatics elective.