news&event

Seminar

all the seminars

Sequence Analysis Toward System Biology (IPAM, UCLA, from 2006-01-09 10:25 to 2006-01-13 17:25)

The 5-day workshop will be devoted to the exploration of how sequence analysis can take advantage of the recently acquired datasets and contribute to a mechanistic understanding of the cell system. As outlined, to tackle the opportunities presented by the contemporary abundance of data, it will be necessary to combine expertise in sequence evolution, gene finding, motif recognition, alignment.

Journal Club

BISC542(journal club)

Xiao-tu Ma Journal Club (MCB101, from 2005-11-03 12:00 to 2005-11-03 13:00)

Discovering statistically significant pathways in expression profiling studies. Tian L, Greenberg SA, Kong SW, Altschuler J, Kohane IS, Park PJ. Proc Natl Acad Sci U S A. 2005 Sep 20;102(38):13544-9

Genome Variation and Repetitive Sequences (IGM, USC, from 2005-11-03 10:00 to 2005-11-03 16:30)

9th Annual Symposium, November 3, 2005 Co-Sponsored by the Center for Excellence in Genomic Sciences (CEGS) "Genome Variation and Repetitive Sequences"

Eric Johnson seminar (MCB101, from 2005-11-04 12:00 to 2005-11-04 13:00)

 

John Storey Seminar (MCB101, from 2005-10-28 12:00 to 2005-10-28 13:00)

Multiple Locus Linkage Analysis of Genome-wide Expression in Yeast

RNA Interference: Basic Biology, Functional Genomics, and Therapeutics (Beckman Research Institute City of Hope Cooper Auditorium 1500 E. Duarte Road Duarte, CA 91010-3000, from 2005-11-04 08:30 to 2005-11-04 17:20)

15th Beckman Symposium "RNA Interference: Basic Biology, Functional Genomics, and Therapeutics" is the fifteenth Beckman Symposium to be held at the Beckman Research Institute. Supported by funds from the Beckman Endowment, the Beckman Symposia are arranged annually by the Research Staff Organization of City of Hope.

Simon Tavaré Seminar (MCB101, from 2005-11-10 14:00 to 2005-11-10 15:00)

Genome-wide associations of gene expression variation in humans

microarray & association study

Mapping determinants of human gene expression by regional and genome-wide association. Vivian G. Cheung et al

Peter Kaiser Seminar (MCB101, from 2005-11-11 12:00 to 2005-11-11 13:00)

Regulation of Cell Proliferation by Proteolysis-Independent Ubiquitination

Plasmodium protein network

The Plasmodium protein network diverges from those of other eukaryotes

Symposium

 

Ying Xu Seminar (MCB101, from 2005-10-27 14:00 to 2005-10-27 15:00)

Computational Prediction of Functional Modules and Their Regulatory Networks in Microbial Organisms slides: research/files/usc-05_yingxu.ppt

Eric Lander Lecture (KAB, HSC, 1975 Zonal Avenue, LA, from 2005-11-07 16:00 to 2005-11-07 17:00)

Beyond the Human Genome: Biomedicine in the 21st Century. ESVP No:1107.

Event

 

Emergence of Young Human Genes after a Burst of Retroposition in Primates

retroposition has generated a significant number of new functional genes (retrogenes) in mammalian and invertebrate animal genomes.

Qing Zhou Seminar (MCB101, from 2005-12-01 14:00 to 2005-12-01 15:00)

Stanford University. Detecting Cis-Regulatory Modules and Motifs by Modeling Correlated Structures in Genomic Sequences

Han Wang 11/09/05 JC (MCB101, from 2005-11-10 12:00 to 2005-11-10 13:00)

Statistical methods for identifying yeast cell cycle transcription factors Huai-Kuang Tsai, Henry Horng-Shing Lu, and Wen-Hsiung Li ; PNAS 2005 102: 13532-13537

Tapestry of Life: Lateral Transfers of Heritable Elements (Beckman Center, Irvine, California, from 2005-12-12 07:00 to 2005-12-13 18:00)

What Darwin saw as a tree of life descending in a linear fashion, is now more accurately seen as a tapestry of life, an anastomosing network, with important lateral transfers of heritable elements among parallel lines of descent. These transfers range in complexity from small insertion sequences, to whole genes, gene islands, and portions of whole genomes which may be combined in symbiogenesis. The purpose of the colloquium is to bring together researchers, empirical and theoretical, working at all levels on genomics, comparative genomics, and metagenomics to identify common and differentiating features of lateral gene transfer and to examine their implications for science and for human concerns.

Michael Elowitz Seminar (MCB101, from 2005-11-18 12:00 to 2005-11-18 13:00)

Slow, Noisy and Out of Control: Gene Circuits at the Single Cell Level

linkage map of Bombyx mori

What can we do with this kind of traditional genetic map?

Dynamic Properties of Network Motifs Contribute to Biological Network Organization

simulation to study stability or robustness to small perturbations

Differential Recruitment of Pre-mRNA Splicing Factors to Alternatively Spliced Transcripts In Vivo

distinct combinatorial sets of generic pre-mRNA splicing factors contribute to splicing outcome

George Komatsoulis Seminar (MCB101, from 2005-11-15 16:00 to 2005-11-15 17:00)

Associate Director, Biomedical Informatics, National Institutes of Health. The Cancer Biomedical Informatics Grid (caBIG): Creating the Infrastructure for a Federated Network of Interoperable Data and Analytical Services

Motifs, Control, and Stability

thoughts about transcriptional regulatory network, motif, dynamics, ...

Michael's reception (Parkside Room 1023, from 2005-11-17 17:00 to 2005-11-17 18:30)

I'd like to have my annual reception for Compbio PhD students. It will be in my apartment at Parkside Room 1023 (across from Gerontology, on the ground floor) at 5-6:30 PM this Thursday, November 17.

Cell biology: Relays at the membrane

The Wnt signalling pathway is a major route by which the cell conveys information from its exterior to the nucleus. A gap in the sequence of signalling proteins has now been filled.

Predictive models of molecular machines involved in Caenorhabditis elegans early embryogenesis

interactome + transcriptome

Christina Curtis JC (MCB101, from 2005-11-17 12:15 to 2005-11-17 13:00)

Accurate Multiplex Polony Sequencing of an Evolved Bacterial Genome. Shendure J, Porreca GJ, Reppas NB, Lin X, McCutcheon JP, Rosenbaum AM, Wang MD, Zhang K, Mitra RD, Church GM. Science. 2005 Sep 9;309(5741):1728-32

Genome Evolution course

Chris Lee from UCLA holds such a course. Several interesting papers.

Rodney Rothstein Seminar (MCB101, from 2005-11-29 12:00 to 2005-11-29 13:00)

Columbia University, Department of Genetics and Development. Choreography of the DNA Damage Response in Budding Yeast

J. Russell Lipford Seminar (MCB101, from 2005-12-02 12:00 to 2005-12-02 13:00)

Postdoctoral Fellow. Raymond Deshaies Laboratory. California Institute of Technology. A Putative Stimulatory Role for Activator Proteolysis in Transcription

Steve Mayo seminar (MCB101, from 2006-01-20 12:00 to 2006-01-20 13:00)

HHMI, California Institute of Technology “Modulation and Design of Protein-Protein Interactions”

Peter Kaiser Seminar (MCB101, from 2006-02-10 12:00 to 2006-02-10 13:00)

Department of Biological Chemistry School of Medicine University of California, Irvine “Regulation of Cell Proliferation by Proteolysis-Independent Ubiquitination”

Future of Biobusiness (Davidson Conference Center, from 2005-12-07 13:00 to 2005-12-07 16:00)

As one of a series of global BioBusiness Awards, the Marshall School of Business will be presenting Dr. J. Craig Venter with the North American BioBusiness Leadership Award. – Dr. Venter is a leader in biotechnology and is known for his work on sequencing the human genome (venterinstitute.org). – The Award Ceremony and the Roundtable Discussion is Open to All. RSVP is encouraged. – GPSS has also secured seats for graduate students interested in a Private Networking Luncheon with Dr. Venter, administrators, and industry people! – Seating is Limited and will be offered on first come, first served basis. – In the interest of fairness, RSVP's will only be accepted beginning November 29th. RSVPs received before the 29th will Not be counted.

Fei Pan JC (MCB101, from 2005-12-01 12:15 to 2005-12-01 13:00)

Storey JD, Xiao W, Leek JT, Tompkins RG, Davis RW. "Significance analysis of time course microarray experiments". Proc Natl Acad Sci U S A. 2005 Sep 6;102(36):12837-42. Epub 2005 Sep 2.

Antibody Hypermutation: Subverted DNA Repair (MCB101, from 2006-01-13 12:00 to 2006-01-13 13:00)

Patricia Gearhart, Ph.D. Senior Investigator, National Institute on Aging National Institutes of Health

James Briscoe Seminar (MCB101, from 2006-01-27 12:00 to 2006-01-27 13:00)

National Institute for Medical Research “Graded Signals and the Controls of Neural Cell Fate”

Liang Chen Seminar (MCB101, from 2006-03-09 14:00 to 2006-03-09 15:00)

Yale University "Statistical Methods for Genetic Dissection of Transcriptional Regulation: False Discovery Control"

Gill Bejerano Seminar (MCB101, from 2006-01-17 16:00 to 2006-01-17 17:00)

University of California, Santa Cruz David Haussler’s Howard Hughes Lab "Dark Matter: On the Evolution and Function of Conserved Elements in the Human Genome"

The Neural Bases Of Complex Tool Use In Humans

The author, Dr. Scott Frey from University of Oregon gave a lecture here hosted by Michael Arbib. An interesting paper.

Katherine St. John Seminar (MCB101, from 2006-02-02 14:00 to 2006-02-02 15:00)

City University of New York “Computational Methods for Analyzing Phylogenetic Trees”

Heidi Tissenbaum Seminar (MCB101, from 2006-03-10 12:00 to 2006-03-10 13:00)

University of Massachusetts, Medical School “Identifying Direct DAF-16 Targets that Regulate Life Span, Fat Storage and Dauer Diapause by Chromatin Immunoprecipitation”

Eleazar Eskin Seminar (MCB101, from 2006-01-26 14:00 to 2006-01-26 15:00)

University of California, San Diego “Integrated Genomics Approaches to Discovering the Genetic Basis of Complex Traits in Inbred Mouse Strains”

Wen-Hsiung Li Seminar (MCB101, from 2006-03-21 16:00 to 2006-03-21 17:00)

James Watson Professor Department of Ecology and Evolution University of Chicago “Identification of Regulatory Elements and Circuits in Yeast from Genomic Data”

Adrian Dobra Seminar (MCB101, from 2006-02-07 14:00 to 2006-02-07 15:00)

Duke University “High-Dimensional Structural Learning with Mixed Variables”

Gene Regulatory Networks Special Feature (PNAS)

Eric Davidson and Michael Levine

Edward Egelman Seminar (MCB101, from 2006-02-02 12:00 to 2006-02-02 13:00)

University of Virginia, Medical School “Filaments and Rings: The Role of RecA-like Proteins in DNA Recombination and Replication”

Ben Raphael Seminar (MCB101, from 2006-02-10 16:00 to 2006-02-10 17:00)

Ph.D. University of California, San Diego “Rearrangements and Duplications in Tumor Genomes”

Haifeng Li Seminar (DRB337, from 2005-04-29 14:00 to 2005-04-29 15:00)

Bioinformatics with Learning Machines University of California, Riverside

Richard Kramer Seminar (MCB101, from 2006-03-03 12:00 to 2006-03-03 13:00)

University of California, Berkeley New Photochemical Approaches for Measuring and Manipulating Activity in the Nervous System

Aging and Cancer Symposium (School of Gerontology Auditorium, from 2006-04-28 08:30 to 2006-04-28 17:00)

The USC School of Gerontology is pleased to announce an important symposium on aging and cancer to be held April 28, 2006.

Tomáš Vinar Seminar (MCB101, from 2006-02-16 14:00 to 2006-02-16 15:00)

University of Waterloo, Canada “Building Better Gene Finders”

Xiaoxia (Nina) Lin Seminar (SGM 101, from 2006-03-01 12:00 to 2006-03-01 13:00)

Integrating Models and Experiments: Synthetic Ecosystems and Molecular Switches Dr. Xiaoxia (Nina) Lin Harvard Medical School

Frontiers in Live Cell Imaging (Natcher Conference Center, NIH, Bethesda, Maryland, U.S.A., from 2006-04-19 08:00 to 2006-04-21 18:00)

NIGMS would like to bring to your attention a comprehensive meeting on optical methods in cell biology. In addition to acquainting practicing microscopists with the newest developments, this meeting is also designed to introduce investigators in chemistry, biochemistry, biophysics, and the physical sciences to opportunities for research and development in this expanding interdisciplinary field.

Cenk Sahinalp Seminar (MCB101, from 2006-03-02 14:00 to 2006-03-02 15:00)

Novel Thermodynamic Approaches to Predicting the Secondary Structure of RNAs and the Joint Structure of Interacting RNA Pairs. Host: Ting Chen

TODD VISION Seminar (MCB101, from 2006-04-03 14:00 to 2006-04-03 15:00)

University of North Carolina, Chapel Hill “Sense and Antisensibility: Are there Interacting Antisense Protein Pairs in Nature?” Host: Peter Calabrese

Xuelin Wu Seminar (MCB101, from 2006-04-20 14:00 to 2006-04-20 14:00)

The Salk Institute "Homeobox Transcription Factor STIMPY and the Integration of Developmental, Hormonal and the Metobolical Signals in Arabidopsis" Host: Susan Forsburg

CEGS Research Symposium (MCB building, from 2006-04-08 08:00 to 2006-04-08 17:00)

You are invited to the 2006 CEGS Research Symposium. This year's retreat will take place on April 8th at the MCB building on the UPC Campus. The speakers include Richard Myers from Stanford and Terry Speed from Berkeley. There will also be a poster session comprised of students and post-docs from USC. Lunch and a light breakfast will be provided. If you are interested in attending, please RSVP to John McCrow at mccrow@usc.edu. Since we are providing food, we need an accurate head count, so RSVPs are necessary. Please respond by March 17th. If you are interested in presenting a poster, please e-mail Matt Lebo at lebo@usc.edu. We still need more people who are willing to present.

Zhen Huang Seminar (MCB101, from 2006-04-25 12:00 to 2006-04-25 13:00)

“Neuronal Dendrite Development: Regulation by the Origin Recognition Core Complex” Host: Don Arnold

Wing Wong Seminar (MCB101, from 2005-09-08 14:00 to 2005-09-08 15:00)

“Studies of gene regulation in mammals” Professor Department of Statistics Stanford University

Mark Shapiro Seminar (MCB101, from 2006-03-31 12:00 to 2006-03-31 13:00)

Modulation of Neuronal Ion Channels by 2nd – Messengers: A Tale of Two Pathways University of Texas, San Antonio

B.V. Venkataram Prasad Seminar (MCB101, from 2006-03-24 12:00 to 2006-03-24 13:00)

Professor Department of Biochemistry and Molecular Biology Baylor College of Medicine “Structural Basis of Rotavirus Replication”

Vivian Cheung SEminar (MCB101, from 2006-04-19 14:00 to 2006-04-19 15:00)

MD Associate Professor Departments of Pediatrics and Genetics, University of Pennsylvania "Genetics of Human Gene Expression" Host: Norman Arnheim

David Deitcher Seminar (MCB101, from 2006-04-07 12:00 to 2006-04-07 13:00)

Associate Professor Cornell University “The SNARE Proteins: Unzipped” Host: Steven Goodman

Ori Sargsyan Defense (MCB101, from 2006-04-19 12:00 to 2006-04-19 13:00)

Ph.D. Dissertation Defense "Analytical and Simulation Results for the General Coalescent" Advisor: Simon Tavaré

Tom Clandinin Seminar (MCB101, from 2006-05-05 12:00 to 2006-05-05 13:00)

Stanford University "Toward a Genetic Dissection of Visual Behavior in the Fly", Host: Samantha Butler

Carol Vandenberg Seminar (MCB101, from 2006-04-28 12:00 to 2006-04-28 13:00)

UC, Santa Barbara “Trafficking and Targeting of Potassium Channels by PDZ – Based Signaling Complexes” Host: Don Arnold

Vincent Plagnol Defense (MCB101, from 2006-04-21 11:00 to 2006-04-21 12:00)

“Evidence for Ancestral Structure in Human Populations” Advisor: Simon Tavaré

Jian-Qiu Wu Seminar (MCB101, from 2006-05-02 12:00 to 2006-05-02 13:00)

Yale University, “The Great Divide: Molecular Mechanisms of Cytokinesis” , Host: Susan Forsburg

Rob Phillips Seminar (MCB101, from 2006-09-07 14:00 to 2006-09-07 15:00)

“The Physics of Genome Management”

Petr Kalab Seminar (MCB101, from 2006-05-04 12:00 to 2006-05-04 13:00)

UC, Berkeley “Quantitative and Functional Analysis of Mitotic Ran-Regulated Gradient in Somatic Cells” Host: Don Arnold

Emily Rocke Seminar (MCB101, from 2006-09-14 14:00 to 2006-09-14 15:00)

Using Distribution Patterns to Infer Function of a Regulatory Motif, Host: Michael Waterman - Comp Bio

Dan Herschlag Seminar (SGM101, from 2006-09-08 12:00 to 2006-09-08 13:00)

Dissecting Ribozyme Mechanisms: Lessons Learned about RNA and Catalysis, Stanford University Host: Myron Goodman

Diane Papazian, UCLA (MCB101, from 2006-09-15 12:20 to 2006-09-15 13:20)

Voltage-Gated Potassium Channels and Neuronal Survival During Development and Aging in Spinocerebellar Ataxia Type 13, Host: Don Arnold - Mol Bio

Hongyu Zhang Seminar (MCB101, from 2006-09-21 14:00 to 2006-09-21 15:00)

Computational Biologist, Ceres “Guided Discovery; Computational Biology’s Roles in the Biotech Industry” Biotech researches are traditionally performed in wet labs and are heavily dependent on the knowledge and skills of bench work scientists. With computational algorithms becoming more sophisticated and biological information more abundant in references as time moves on, computational scientists now have more chances to play leading roles in the researches in the biotech industry. Computational tools and analyses are useful at the early stages of researches to effectively guide the following experimental steps to save both time and money. Computational analyses performed during or after the experiment are also critical to manage and make sense of the experimental data. As examples, I would like to describe some of my projects in biotech companies, including works in gene discovery, comparative genomics and patent protection etc. Host: Fengzhu Sun

Joel Bader Seminar (MCB101, from 2006-10-19 14:00 to 2006-10-19 15:00)

Decoding Networks from Genome Sequence

Joel Bader Seminar Note

stat mech background

Gad Kimmel Seminar (MCB101, from 2006-10-26 14:00 to 2006-10-26 15:00)

UC, Berkeley “A Fast Method for Computing High Significance Disease Association in Large Population-Based Studies”

Gad Kimmel Seminar Note

 

Graduate Professionalism Workshop (University Club, Banquet Room, from 2007-02-15 12:30 to 2007-02-15 14:00)

Spring 2007 USC College Office of Graduate Programs

Zemin Zhang Seminar (RRI 101, from 2007-09-27 14:00 to 2007-09-27 15:00)

Genetech, “Computational Approaches to Distinguishing Deviants from Variants in the Cancer Genome”

Andrew Smith Seminar (RRI 101, from 2008-02-12 14:00 to 2008-02-12 15:00)

Meeting Computational Challenges in ChIP-chip and ChIP-seq Data Analysis

Florian Markowetz Seminar (RRI 101, from 2008-02-07 14:00 to 2008-02-07 15:00)

Computational Methods to Analyze Large-Scale & High-Dimensional Gene Pertubation Screens

Katherine Pollard Seminar (RRI 101, from 2008-01-29 14:00 to 2008-01-29 15:00)

What Made Us Human?

Mark Stoneking Seminar (RRI321, from 2008-02-06 12:00 to 2008-02-06 13:15)

Detecting Local Selection in Human Populations

access MySQL in Nordborg Lab

Yu will give an introduction of how to access the resources in mySQL database. like phenotype data, raw array data, genotype calls, SNP p-value etc.

Marco Pellecchia Seminar (RRI 101, from 2008-03-05 12:00 to 2008-03-05 13:00)

Catholic University of Piacenza “Tracing the Routes of Ancient Human Migrations in Domestic Animal Genomes”

Frederick 'Fritz' Roth Seminar (RRI 101, from 2008-04-10 14:00 to 2008-04-10 15:00)

Harvard Medical School/BCMP Dept. “Systematic Analysis of Genetic Interactions in Yeast and Humans”

Chris Wiggins Seminar (, from 2008-05-07 14:00 to 2008-05-07 15:00)

Columbia University

Roger Pique-Regi (NRT LG503 (Harlyne Norris Research Tower, Lower Ground), from 2008-05-07 10:00 to 2008-05-07 11:00)

PhD student, Electrical Engineering Research Assistant, Children's Hospital LA

Jun Liu Seminar 02/11/2009

 

Samuel Kou Seminar (RRI 101, from 2009-03-25 14:00 to 2009-03-25 15:00)

Department of Statistics, Harvard University, Exploring global energy landscape of lattice protein models via Monte Carlo methods

Hongzhe Li Seminar (, from 2009-04-09 14:06 to 2009-04-09 15:10)

University of Pennsylvania Department of Biostatistics and Epidemiology

Michael Zhang Seminar (RRI101, from 2009-04-21 14:07 to 2009-04-21 15:10)

Cold Spring Harbor Laboratory “Defining the Regulatory Network of the Tissue-Specific Splicing Factors Fox-1 and Fox-2”

Jinchi Lv Seminar (RRI 101, from 2009-04-23 14:11 to 2009-04-23 15:15)

IOM Department Marshall School of Business USC

Patrick Phillips Seminar (RRI101, from 2009-04-24 12:06 to 2009-04-24 13:10)

University of Oregon Center for Ecology and Evolutionary Biology

Shamil Sunyaev Seminar Thurs. 11/29/09 (RRI 101, from 2008-11-29 14:00 to 2008-11-29 15:00)

Harvard University

Doug Cook Seminar (RRI 101, from 2009-10-09 12:00 to 2009-10-09 13:00)

UC Davis, Dept. of Plant Pathology, “Studies of Genome Evolution in Plants and Applications in the Developing World”

Nancy Zhang Seminar (RRI 101, from 2009-10-22 14:00 to 2009-10-22 15:15)

Stanford University, "Simultaneous Change-point Models with Applications to Cross-sample and Cross-platform Analysis of DNA Copy Number"