Zaida Luthey-Schulten: Modeling the minimal cell: Integration of experiments, theory, and simulations

Mon, Sep 23, 2019, 12:00 pm
Location: 
Joseph Henry Room Jadwin Hall
Speaker(s): 
Sponsor(s): 
CPBF an NSF PFC

JCVI-syn3A, a robust minimal cell with a 543 kbp genome and 493 genes, provides a versatile platform to study the principles of life (Breuer et al. eLife 2019). Using the vast amount of experimental information available on its precursor, Mycoplasma mycoides capri, we assembled a near-complete essential metabolic network with 98% of enzymatic reactions supported by annotation or experiment. This coherent model of the minimal metabolism along with the maps of all its protein-coding genes and proteomics data point toward specific open questions regarding the minimal genome, which still contains many genes of generic or completely unclear function. The identification of 30 essential genes with unclear function will motivate the search for new biological mechanisms beyond metabolism. Finally, stochastic dynamics of the combined genetic information processes of DNA replication, transcription, translation and ribosome biogenesis clarifies quantitatively demands on the metabolic network over the twohour cell cycle.

Zaida Luthey-Schulten: Modeling the minimal cell: Integration of experiments, theory, and simulations

Mon, Sep 23, 2019, 12:00 pm

JCVI-syn3A, a robust minimal cell with a 543 kbp genome and 493 genes, provides a versatile platform to study the principles of life (Breuer et al...

Location: Joseph Henry Room Jadwin Hall

Andrew Mugler: Physics of collective cell sensing

Mon, Sep 30, 2019, 12:00 pm

The physical limits to chemical sensing have been established and tested for single cells. However, recent experiments have demonstrated that...

Location: Joseph Henry Room Jadwin Hall

Toward the physics of complex behaviors

Fri, Oct 11, 2019, 9:30 am

Animal navigation in uncertain environments
Agnese Seminara, Université Côte d’Azur

Quantitative...

Location: The Graduate Center, Room 4102. 365 Fifth Avenue, between 34th and 35th Streets, in Manhattan

John Marko: TBD

Mon, Oct 14, 2019, 12:00 pm

 I will discuss studies of the mechanics and structure of metaphase chromosomes and nuclei extracted from mammalian cells using glass...

Location: Joseph Henry Room Jadwin Hall

Aleksandra Walczak: Response in immune repertories

Mon, Oct 21, 2019, 12:00 pm

The immune repertoire responds to a wide variety of pathogenic threats. Immune repertoire sequencing experiments give us insight into the...

Location: Joseph Henry Room Jadwin Hall

Ashley Carter: DNA Folding in Sperm

Mon, Nov 4, 2019, 12:00 pm

In sperm, DNA is tightly compacted to create a small, hydrodynamic sperm head.

Paul Francois: TBD

Mon, Nov 11, 2019, 12:00 pm

Searching for simpler models

Fri, Nov 15, 2019, 9:30 am

Neural network pruning and the lottery ticket hypothesis
Jonathan Frankle, Massachusetts Institute of Technology

Location: The Graduate Center, Skylight Room, 9100. 365 Fifth Avenue, between 34th and 35th Streets, in Manhattan

Marija Zanic: TBD

Mon, Nov 18, 2019, 12:00 pm

Melike Lakadamyali: Super-resolution imaging of cellular organization

Mon, Nov 25, 2019, 12:00 pm
Location: Joseph Henry Room Jadwin Hall

Damon Clark: TBD

Mon, Dec 2, 2019, 12:00 pm
Location: Joseph Henry Room Jadwin Hall

Adaptation

Fri, Dec 6, 2019, 9:30 am

Adaptation and Bayesian forecasting in biological systems
Thierry Mora, École Normale Supérieure and Princeton University...

Location: The Graduate Center, Segal Theater. 365 Fifth Avenue, between 34th and 35th Streets, in Manhattan