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The Third q-bio Summer School on Cellular Information Processing
Back to The Third q-bio School.
The Third q-bio Summer School is sponsored by the Institute for Advanced Studies at Los Alamos National Laboratory. Participants will attend daily lectures about theory and modeling of cellular regulatory systems and networks. They will work in small teams on open-ended projects under the guidance of Summer School lecturers. The Summer School is designed for graduate students, postdocs, or anyone with a quantitative background who is new to modeling cellular regulatory systems and networks.
The q-bio Summer School is not affiliated with arXiv.q-bio.
Contents
School Logistics
- School dates: July 20-August 4, 2009
- Hotel check in July 19, check out August 5
- School Participants
- Travel Information
- The school hotel
- Essential information about the Los Alamos area
- What to do in the vicinity of Los Alamos
- Lecture hall information
- Ride Sharing Board
- Safety and Security
- About posters
Main School Themes
After the summer school, students will participate in the Third q-bio Conference in Santa Fe, NM, August 5-9, 2009; this facilitated the choice of the themes for the summer school. They are
- Signal Transduction Systems, organized by William Hlavacek
- Stochastic Signal Processing in Biomolecular Systems, organized by Ilya Nemenman
- Gene Regulation, organized by Michael Wall
- Other Topics in Biological Modeling, organized by Yi Jiang 1
School Schedule
Overview
Unless otherwise noted on specific dates, the school schedule will consist of 4 hours of lectures in the morning, separated by a short break. A typical schedule will look like
- 8:40-10:25 -- Lecture One
- 10:25-10:45 -- Break
- 10:45-12:30 -- Lecture Two
Catered lunch will be provided at 12:30.
Afternoons will be left for other activities, such as ad hoc lectures, student lectures, discussions, and study sessions, work on homework projects, continuation of the participants' regular academic work, and recreation. Classroom with internet access will be reserved for the school participants for all afternoons during the school program. Additionally, we expect the students to spend some of the afternoons with the school faculty, most of them staff members at LANL, familiarizing themselves with the workings of the research institution and potentially starting collaborative research with the faculty.
For the two school weekends, we are planning to organize outdoor activities, such as hiking in the Jemez or Sangre de Cristo mountains, white-water rafting at the Taos Box, etc.
Detailed schedule
- July 19
- Arrive in Los Alamos
- July 20
- Opening remarks - 8:00 AM
- Brian Munsky -- Stochastic Signal Processing in Biomolecular Systems, Lecture 1
- Byron Goldstein -- Signal Transduction Systems, Lecture 1 (slides)
- Lunch discussion with lecturers
- July 21
- James P. Freyer -- Other Topics, Lecture 1 (slides)
- Bridget S. Wilson -- Signal Transduction Systems, Lecture 2 (slides)
- Lunch discussion with lecturers
- Natasa Miskov-Zivanov - Student Talk
- Ganhui Lan - Student Talk
- 14:15-15:15, Anton Zilman -- Dr. Zilman will present a q-bio seminar talk at CNLS (attendance requires LANL visitor badge)
- 18:30-20:00, Garrett T. Kenyon -- Dr. Kenyon will present a q-bio public lecture in Santa Fe at Santa Fe Complex (round-trip transportation to Santa Fe will be arranged by the organizers)
- July 22
- Hans Frauenfelder -- Other Topics, Lecture 2
- William S. Hlavacek -- Signal Transduction Systems, Lecture 3 (slides)
- Lunch discussion with lecturers
- Yang Zhang - Student Talk
- John Sekar - Student Talk
- July 23
- Brian Munsky -- Stochastic Signal Processing in Biomolecular Systems, Lecture 2
- Alan S. Perelson -- Other Topics, Lecture 3
- Lunch discussion with lecturers
- Sydeaka Watson - Student Talk
- Roberto Bertolusso - Student Talk
- July 24
- Yi Jiang -- Other Topics, Lecture 4 (slides)
- Nikolai A. Sinitsyn -- Stochastic Signal Processing in Biomolecular Systems, Lecture 3
- Lunch discussion with lecturers
- Jatin Narula - Student Talk
- Aviv Madar - Student Talk
- Anil Raj - Student Talk
- Free concert at 7 PM at Ashley Pond (Jimmy Stadler Band)
- July 25 and 26
- Ideas for weekend activities -- Santiago Day Corn Dance at 2 PM on July 25 and Santa Ana Day Corn Dance at 2 PM on July 26 at Taos Pueblo. The Letter at 9 PM on Saturday, July 25 at the Santa Fe Opera. ART Santa Fe at El Museo in the Railyard, all weekend.
- July 27
- Nikolai S. Sinitsyn -- Stochastic Signal Processing in Biomolecular Systems, Lecture 4
- Michael A. Savageau -- Gene Regulation, Lecture 1 (slides)
- Lunch discussion with lecturers
- Amit Lakhanpal - Student Talk
- Steffen Werner - Student Talk
- Albertas Janulevicius - Student Talk
- Jeff Hawkins - 7:30 PM at Duane W. Smith Auditorium with reception immediately after the talk "Why Can't a Computer be More Like a Brain?" at Fuller Lodge (flyer)
- July 28
- Anton Zilman and Bette Korber -- Stochastic Signal Processing in Biomolecular Systems, Lecture 5
- Michael E. Wall -- Gene Regulation, Lecture 2
- Lunch - student talks overlap with lunch today
- Alex Greenfield - Student Talk
- Fiona Chandra - Student Talk (after the q-bio seminar at CNLS)
- Pau Formosa - Student Talk
- 2:15-3:15 - Ruy M. Ribeiro -- Dr. Ribeiro will present a talk in the q-bio seminar series at CNLS (attendance requires LANL visitor badge) - leave no later than 2 PM to arrive at CNLS on time
- July 29
- Ilya Nemenman -- Stochastic Signal Processing in Biomolecular Systems, Lecture 6
- Michael A. Savageau and Michael E. Wall -- Gene Regulation, Lecture 3 (slides)
- Lunch talk by Ryan Gutenkunst on sloppy modeling
- Flor A. Espinoza -- Student Talk
- Bernie Daigle - Student Talk
- Thomas Sokolowski - Student Talk
- July 30
- William S. Ryu -- Stochastic Signal Processing in Biomolecular Systems, Lecture 7, Slides
- James A. Glazier -- Other Topics, Lecture 5 (slides)
- Lunch discussion with lecturers
- Justin Hogg - Student Talk
- Yuki Kimura - Student Talk
- Tin Yau Pang - Student Talk
- 14:00-15:00 Golan Bel and Brian Munsky -- CNLS Postdoc Talk -- Simplicity of Completion Time Distributions for Common Biochemical Processes (attendance requires LANL visitor badge)
- 15:00-?? -- CNLS Weekly Fika -- Enjoy Coffee, Snacks, and Conversations with the CNLS Staff and Postdocs (attendance requires LANL visitor badge)
- July 31
- Vito Quaranta -- Other Topics, Lecture 6 (slides)
- Alissa M. Weaver -- Other Topics, Lecture 7 (slides)
- Lunch discussion with lecturers
- Ophelia Venturelli - Student Talk
- Free concert at 7 PM at Ashley Pond (Ray Wylie Hubbard)
- August 1 and 2
- Ideas for weekend activities -- Alceste at 9 PM on Saturday, August 1 at the Santa Fe Opera. Hiking: volcanic hot springs (e.g., San Antonio Hot Springs) in the Jemez mountains and Bandelier National Monument
- August 3
- Richard G. Posner -- Signal Transduction Systems, Lecture 5
- James R. Faeder -- Signal Transduction Systems, Lecture 6 (slides)
- Lunch discussion with lecturers
- Michael I. Monine - Special Lecture (45 minute talk)
- August 4
- William S. Ryu -- Stochastic Signal Processing in Biomolecular Systems, Lecture 8, Slides
- James M. Hyman -- Other Topics, Lecture 8
- Lunch discussion with lecturers
- 14:15-15:15, Andrew H. Clayton -- Dr. Clayton will present a q-bio seminar talk at CNLS (attendance requires LANL visitor badge)
- August 5
- Depart to Santa Fe for the q-bio Conference -- Students will take a NM Park & Ride bus to Santa Fe in the morning ($3 exact change is required); organizers will arrange for separate transport of luggage to the conference site. A van will be waiting with an organizer at Hilltop House at 8:15 am for transport of luggage to the site of the conference. A blue route Park & Ride bus departs for Santa Fe at 8:51 am from the bus stop at 20th and Central (the closest stop to the hotel).
