Computations in Science Seminars
Nov 2018
14
Wed 12:15
Oni Basu, University of Chicago
e-mail:
Host: Arvind Murugan ()
Organizer: Peter Chung ()
Single-cell Transcriptomics and Biology using Microfluidics

The basic units of biological structure and function are cells, which exhibit wide variation in regard to both type and state. We assess such variation by simultaneously profiling the transcriptomes of thousands of single mammalian cells (Drop-seq) or nuclei (DroNc-seq), using high-throughput emulsion microfluidics and DNA barcodes. These are accomplished by (a) encapsulating and lysing one cell/nuclei per emulsion droplet, and (b) barcoding RNA contents from each cell/nuclei using unique DNA-barcoded micro-beads, (c) performing Next-Gen Sequencing.

We are using these droplet-based techniques to profile cell types comprising complex tissues in a variety of tissue-types such as the heart and solid tumors in mouse models and human primary tissue. Besides, we are using Drop-seq and DroNc-seq to profile cell-states, particularly cellular heterogeneity in development and differentiation processes using a combination of cell lines, mouse embryonic tissue, in vitro culture, and human induced pluripotent stem cells.

We also develop custom microfluidic devices to study phenotypic responses of cells to different environmental stimuli including physical, bio-chemical and pathogenic stimuli; I will provide some examples to illustrate some applications.

Nov 2018
28
Wed 12:15
Felice Frankel, MIT
e-mail:
Host: Sid Nagel ()
Organizer: Yuval Yifat ()
More Than Pretty Pictures

Graphics, images and figures — visual representations of scientific data and concepts — are critical components of science and engineering research. They communicate in ways that words cannot. They can clarify or strengthen an argument and spur interest into the research process.

But it is important to remember that a visual representation of a scientific concept or data is a re-presentation and not the thing itself –– some interpretation or translation is always involved. Just as writing a journal article, one must carefully plan what to “say,” and in what order to “say it.” The process of making a visual representation requires you to clarify your thinking and improve your ability to communicate with others.

In this talk, I will show my own approach to creating depictions in science and engineering—the successes and failures. Included will be a discussion about how far can we go when “enhancing” science images.

Dec 2018
5
Wed 12:15
David Lubensky, University of Michigan
e-mail:
Host: Arvind Murugan ()
Organizer: Zhiyue Lu ()
Dec 2018
12
Wed 12:15
Chiara Daraio, Caltech
e-mail:
Host: William Irvine ()
Organizer: Grayson Jackson ()
Jan 2019
9
Wed 12:15
OPEN
Jan 2019
16
Wed 12:15
Margaret Gardel, University of Chicago
e-mail:
Host: Arvind Murugan ()
Organizer: Steven Strong ()
Jan 2019
23
Wed 12:15
Shmuel Rubinstein, Harvard
e-mail:
Host: William Irvine ()
Jan 2019
30
Wed 12:15
OPEN
Feb 2019
6
Wed 12:15
OPEN
Feb 2019
13
Wed 12:15
Jörn Dunkel, MIT
e-mail:
Host: William Irvine ()
Feb 2019
20
Wed 12:15
Greg Voth, Wesleyan University
e-mail:
Host: William Irvine ()
Feb 2019
27
Wed 12:15
OPEN
Mar 2019
13
Wed 12:15
OPEN
Mar 2019
20
Wed 12:15
Hana El-Samad, University of California, San Francisco
e-mail:
Host: Arvind Murugan ()
Mar 2019
27
Wed 12:15
OPEN
Apr 2019
3
Wed 12:15
Greg Bewley, Cornell University
e-mail:
Host: William Irvine ()
Apr 2019
10
Wed 12:15
Oskar Hallatschek, UC Berkeley
e-mail:
Host: Arvind Murugan ()
Apr 2019
17
Wed 12:15
Nikta Fakhri, MIT
e-mail:
Apr 2019
24
Wed 12:15
Detlef Lohse, University of Twente
e-mail:
Host: William Irvine ()
May 2019
1
Wed 12:15
Pankaj Mehta, Boston University
e-mail:
Host: Stefano Allesina
May 2019
8
Wed 12:15
Thierry Emonet, Yale University
e-mail:
Host: Arvind Murugan ()
May 2019
15
Wed 12:15
David Lentik, Stanford
e-mail:
Host: William Irvine ()
May 2019
22
Wed 12:15
Joshua Shaevitz, Princeton University
e-mail:
Host: Arvind Murugan ()
May 2019
29
Wed 12:15
Xiaoming Mao, University of Michigan
e-mail: