What's New at the BCL

Student research opportunities available. For more information about the wide range of projects we're working on that undergraduates and graduate students can contribute to, please see our student projects page.

2018

Successful Conference Bid

We have successfully bid on hosting the 2020 Neural Coding meeting! This will bring around 100 computational, mathematical, and experimental neuroscientists from around the world to the UW Bothell campus during that summer.

Conference Paper

Lee, J.Y.H. and M. Stiber, "Spatiotemporal characteristics of bursting and avalanches in cultures of cortical neurons", Neural Coding 2018, Turin, Italy, September 9–14, 2018.

Meeting room podium, with University of Turin seal. Cup of espresso.

Podium in the meeting room, with University of Turin seal. Unfortunately, Prof. Stiber doesn't have a photo of himself presenting.

A long trip means jet lag, and jet lag means coffee, in the home of espresso.

Meetings for Fall 2018

Our fall quarter meetings will be Fridays at noon in room UW1-260M, starting September 28. See you then and there!

At the IEEE Engineering in Medicine and Biology Conference

Jewel Lee and our EMBC poster

Jewel YunHsuan Lee with her poster at the 2018 IEEE Engineering in Medicine and Biology Conference.

Journal Paper

Kostal, L., P. Lansky, and M. Stiber, "Statistics of inverse interspike intervals: the instantaneous firing rate revisited", Chaos, 2018, in press.

Meetings for Summer 2018

We will be meeting on Wednesdays at 3:30PM in room UW1-260M. Some lab members will be Skyping in — if you are doing so, make sure you communicate with Prof. Stiber ahead of time to work out the logistics.

Student Project

  1. Peter Stanton: Improving performance of multithreaded neural simulation by core scheduling

Jewel Lee Successfully Defends MS Thesis

Another very successful MS defense, this time by Jewel Lee for her thesis, "Machine Learning of Spatiotemporal Bursting Behavior in Developing Neural Networks". In her work, she developed an entire suite of data analysis tools for identifying features of interest in spatiotemporal point processes — in particular, for large numbers of simultaneous neural spike trains. She applied this to BrainGrid simulation results (consisting of 30GB HDF5 files), leading to the discovery of a number of novel features that will be reported on in upcoming conference presentations and journal papers. Stay tuned!

Conference Paper

Lee, J.Y.H., M. Stiber, D. Si, "Machine Learning of Spatiotemporal Bursting Behaviors in Developing Neural Networks", International Engineering in Medicine and Biology Conference, Honolulu, Hawaii, July 17–21, 2018.

Meetings for Spring 2018

We will once again be meeting on Fridays, 10AM-noon, in room UW1-260M. Prospective lab members are welcome to attend!

Tom Wong Successfully Defends MS Project

Tom Wong defended his MS project on March 8. His project, "Workbench Dashboard — Managing Experiments using Data and Software Provenance", developed a new user interface for our Workbench project that visualizes the interrelationships among simulation artifacts, including software, git commits, parameter files, and results files.

Updates from Fulbright

As promised, Prof. Stiber is posting updates from his time as a Fulbright Scholar in Europe:

Czech Academy of Sciences colleagues Czech Academy of Sciences colleagues Mainz colleagues

Prof. Stiber with his hosts in the Computational Neuroscience department of the Institute of Physiology of the Czech Academy of Sciences: Lubomir Košťál, Ph.D. (l) and Petr Lánský, Ph.D. (r).

Prof. Stiber with Giuseppe D'Onofrio, Ph.D. (c) and Petr Lánský, Ph.D. (r).

Meeting with colleagues at the University of Applied Sciences in Mainz, Germany. School cafeterias are the actual, true universal constant.

Fulbright mid-year meeting Prof. Maurizio Atzori in Cagliari

Presenting zombie-peanut-related (not to be confused with peanut-zombie-related) neuroscience research at the Fulbright mid-year meeting in Třešť, Czech Republic.

Lunch with Prof. Maurizio Atzori, from the Univ. of Cagliari in Italy. Prof. Stiber was invited to talk, with funding from the university and the Italian Fulbright Commission. Sorry, no gripping photos of the presentation itself.

2017

Meetings for Fall 2017

We will be meeting on Fridays, starting September 29, 10AM-noon, in room UW1-260M. Prospective lab members are welcome to attend!

Conference Paper

Stiber, M., F. Kawasaki, D. Davis, H.U. Asuncion, J.Y.H. Chu, and D. Boyer, "BrainGrid+Workbench: High-Performance/High-Quality Neural Simulation," Proc. International Joint Conference on Neural Networks, Anchorage, Alaska, May 14–19, 2017.

Coffee becomes science Presenting paper

Coffee being turned into science!

Prof. Stiber presenting the obligatory GPU figure.

Grant

Prof. Stiber received a Fulbright Scholar Award to visit the Czech Academy of Sciences in Prague, to collaborate on neural coding research with colleagues in their Institute of Physiology's department of computational neuroscience. He will be there during winter quarter 2018 and promises to post regular updates.

Student Projects

  1. Destiny Boyer: language-interoperable serialization for simulation configuration
  2. Jewel Yun-Hsuan Chu: BrainGrid+Workbench code maturity
  3. Amy Rapin: spatio-temporal neural data collection
  4. Tom Hon-Choi Wong: dynamic GUI for Workbench