Subject: SYBB
Term: Spring 2017
SYBB 312R: Basic Statistics for Engineering and Science Using R Programming (101/11321)
TR 02:30-03:45 PM Jan 17-May 01
Brynjarsdottir, J
For advanced undergraduate students in engineering, physical sciences, life sciences. Comprehensive introduction to probability models and statistical methods of analyzing data with the object of formulating statistical models and choosing appropriate methods for inference from experimental and observational data and for testing the model's validity. Balanced approach with equal emphasis on probability, fundamental concepts of statistics, point and interval estimation, hypothesis testing, analysis of variance, design of experiments, and regression modeling. Note: Credit given for only one (1) of STAT 312, STAT 312R, STAT 313, STAT 333, STAT 433 or SYBB 312R.
Offered as STAT 312R and SYBB 312R.
SYBB 388: Undergraduate Research (300/7166)
Chance, M
Permit must be issued by the Biology Office.
SYBB 388: Undergraduate Research (301/7167)
Lodowski, D
Permit must be issued by the Biology Office.
SYBB 388: Undergraduate Research (303/7168)
Yang, S
Permit must be issued by the Biology Office.
SYBB 388S: Undergraduate Research - SAGES Capstone (300/7169)
Chance, M
Permit must be issued by the Biology Office.
SYBB 388S: Undergraduate Research - SAGES Capstone (301/7170)
Lodowski, D
Permit must be issued by the Biology Office.
SYBB 388S: Undergraduate Research - SAGES Capstone (303/7171)
Yang, S
Permit must be issued by the Biology Office.
SYBB 412: Survey of Bioinformatics: Programming for Bioinformatics (100/12102)
MW 12:45-02:00 PM Jan 17-May 01
Bebek, G
SYBB 412 is a 3 credit-course that will introduce students to bioinformatics analysis and programming in the R language. This course is designed for those with little or no prior programming experience. However, advanced programmers can still learn bioinformatics pipelines and software packages to conduct research. Students will gain hands-on experience working with bioinformatics software, R packages and functions designed for bioinformatics applications.
Programming for Bioinformatics course mainly focuses on R (rproject.org), and introduces students to basic programming in R, what packages are available, and teaches an introductory hands-on experience working with R by walking through the students in analyzing large -omics datasets. At the end of the class, the students are assessed with a small-scale project, where they analyze a publicly available dataset and produce a short report.
SYBB 459: Bioinformatics for Systems Biology (100/7028)
MW 12:45-02:00 PM Jan 17-May 01
Koyuturk, M
Description of omic data (biological sequences, gene expression, protein-protein interactions, protein-DNA interactions, protein expression, metabolomics, biological ontologies), regulatory network inference, topology of regulatory networks, computational inference of protein-protein interactions, protein interaction databases, topology of protein interaction networks, module and protein complex discovery, network alignment and mining, computational models for network evolution, network-based functional inference, metabolic pathway databases, topology of metabolic pathways, flux models for analysis of metabolic networks, network integration, inference of domain-domain interactions, signaling pathway inference from protein interaction networks, network models and algorithms for disease gene identification, identification of dysregulated subnetworks network-based disease classification.
Offered as EECS 459 and SYBB 459.
SYBB 472: BioDesign (100/7554)
M 06:00-09:00 PM Jan 17-May 01
Drummond, C
Need a permit, contact Ramona David in Nord Hall, room 305
Cross-listed with IIME 472 and EBME 472
SYBB 501: Biomedical Informatics and Systems Biology Journal Club (100/7038)
R 12:00-01:00 PM Jan 17-May 01
Lodowski, D
The purpose of this journal club is to provide an opportunity for students to critically discuss a wide variety of informatics and systems biology topics and to present their works in progress. A wide range of informatics and systems theory approaches to conducting biomedical research will be accomplished through the guided selection of articles to be discussed during the club. Potential articles will be chosen from scientific journals including: Nature, Science, BMC Bioinformatics, BMC Systems Biology, the Journal of Bioinformatics and Computational Biology, and the Journal for Biomedical Informatics. During journal presentations, trainees will be expected to lead a discussion of the article that leads to the critical evaluation of the merit of the article and its implication for biomedical informatics and systems biology. The Journal Club will also provide a forum for trainees to present proposed, on-going, and completed research. Trainees will attend and participate in the Journal Club throughout their tenure in the program. The Journal Club will meet twice a month and each trainee will be required to present one journal article and one research in progress presentation yearly. The Journal Club will also include sessions where issues related to the responsible conduct of research are reviewed and extended.
SYBB 502: Clinical Informatics Journal Club (100/7540)
Staff
The Clinical Informatics Journal Club serves as a forum for students to present current research in the field of clinical informatics. Students are required to coregister for SYBB 421 or SYBB 422; weekly lectures in SYBB 421/422 will introduce topics for discussion in the journal club
SYBB 555: Current Proteomics (100/7039)
R 01:00-04:00 PM Jan 17-May 01
Dazard, J; Miyagi, M
This course is designed for graduate students across the university who wish to acquire a better understanding of fundamental concepts of proteomics and hands-on experience with techniques used in current proteomics. Lectures will cover protein/peptide separation techniques, protein mass spectrometry, bioinformatics tools, and biological applications which include quantitative proteomics, protein modification proteomics, interaction proteomics, structural genomics and structural proteomics. Laboratory portion will involve practice on the separation of proteins by two-dimensional gel electrophoresis, molecular weight measurement of proteins by mass spectrometry, peptide structural characterization by tandem mass spectrometry and protein identification using computational tools. The instructors' research topics will also be discussed. Recommended preparation: CBIO 453 and CBIO 455.
Offered as PHRM 555 and SYBB 555.
SYBB 601: Systems Biology and Bioinformatics Research (100/7084)
Miyagi, M
(Credit as arranged.)
SYBB 651: Thesis MS (100/7085)
Miyagi, M
(Credit as arranged.)
SYBB 651: Thesis MS (101/7235)
Bebek, G
(Credit as arranged.)
SYBB 701: Dissertation PhD (101/7218)
Barnholtz-Sloan, J
(Credit as arranged.)
SYBB 701: Dissertation PhD (102/7219)
Lodowski, D
(Credit as arranged.)
SYBB 701: Dissertation PhD (103/7220)
Chance, M
(Credit as arranged.)
SYBB 701: Dissertation PhD (104/11923)
Barnholtz-Sloan, J
(Credit as arranged.)