Colloquia/Fall 2024: Difference between revisions

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| [https://faculty.sites.uci.edu/qnie/ Qing Nie] (UC Irvine)
| [https://faculty.sites.uci.edu/qnie/ Qing Nie] (UC Irvine)
|[[# TBATBA  ]]
|[[# Nie Systems Learning of Single Cells  ]]
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Abstract: We consider combinatorial problems on the free parts of the Bernoulli shift actions of countable abelian groups, such as chromatic numbers, edge chromatic numbers, perfect matchings, etc. These problems can all be regarded as special cases of the problem whether there exist continuous equivariant maps from the free part of the Bernoulli shift action to a subshift of finite type. We prove a master theorem which in theory gives complete answers to the subshift problem. Furthermore, we show that the class of (codes for) all subshifts of finite type with a positive answer to the subshift problem is a complete c.e. set. This is joint work with Steve Jackson, Ed Krohne, and Brandon Seward.
Abstract: We consider combinatorial problems on the free parts of the Bernoulli shift actions of countable abelian groups, such as chromatic numbers, edge chromatic numbers, perfect matchings, etc. These problems can all be regarded as special cases of the problem whether there exist continuous equivariant maps from the free part of the Bernoulli shift action to a subshift of finite type. We prove a master theorem which in theory gives complete answers to the subshift problem. Furthermore, we show that the class of (codes for) all subshifts of finite type with a positive answer to the subshift problem is a complete c.e. set. This is joint work with Steve Jackson, Ed Krohne, and Brandon Seward.
<div id="Nie">
Title: Systems Learning of Single Cells
Cells make fate decisions in response to dynamic environments, and multicellular structures emerge from multiscale interplays among cells and genes in space and time. The recent single-cell genomics technology provides an unprecedented opportunity to profile cells for all their genes.  While those measurements provide high-dimensional gene expression profiles for all cells, it requires fixing individual cells that lose many important spatiotemporal information. Is it possible to infer temporal relationships among cells from single or multiple snapshots? How to recover spatial interactions among cells, for example, cell-cell communication? In this talk I will present our newly developed computational tools to study cell fate in the context of single cells as a system. In particular, I will show dynamical models and machine-learning methods, with a focus on inference and analysis of transitional properties of cells and cell-cell communication using both high-dimensional single-cell and spatial transcriptomics, as well as multi-omics data for some cases. Through their applications to various complex systems in development, regeneration, and diseases, we show the discovery power of such methods in addition to identifying areas for further method development for spatiotemporal analysis of single-cell data.

Revision as of 02:23, 21 September 2024

Organizers: Dallas Albritton and Michael Kemeny

UW-Madison Mathematics Colloquium is on Fridays at 4:00 pm in Van Vleck B239 unless otherwise noted.

mathcolloquium@g-groups.wisc.edu is the mailing list. Everyone in the math department is subscribed.

date speaker title host(s)
Sept 6 Dan Romik (UC Davis) Sphere packing in dimension 8, Viazovska's solution, and a new human proof of her modular form inequalities Gurevitch
Sept 13 No Colloquium
Sept 20 Alireza Golsefidy (UCSD) Closure of orbits of the pure mapping class group on the character variety Marshall
Sept 25 (Wednesday) Qing Nie (UC Irvine) Systems Learning of Single Cells Craciun
Oct 4 Su Gao (Nankai University) Continuous combinatorics of countable abelian group actions Lempp
Oct 11 Mikaela Iacobelli (ETH Zurich) TBA Li
Oct 18 Guillaume Bal (U Chicago) TBA Li, Stechmann
Oct 25 Connor Mooney (UC Irvine) TBA Albritton
Nov 1 Dima Arinkin (UW-Madison) TBA
Nov 4-8 Distinguished Lectures by Maksym Radziwill (Northwestern) TBA
Nov 15 Reserved by HC TBA Stechmann
Nov 22 Reserved by HC TBA Stechmann
Nov 29 Thanksgiving holiday break
Dec 6 Reserved by HC TBA Stechmann
Dec 13 Reserved by HC TBA Stechmann

Abstracts

September 6: Dan Romik (UC Davis)

Title: Sphere packing in dimension 8, Viazovska's solution, and a new human proof of her modular form inequalities

Abstract: Maryna Viazovska in 2016 found a remarkable application of complex analysis and the theory of modular forms to a fundamental problem in geometry, obtaining a solution to the sphere packing problem in dimension 8 through an explicit construction of a so-called "magic function" that she defined in terms of classical special functions. The same method also led shortly afterwards to the solution of the sphere packing problem in dimension 24 by her and several collaborators. One component of Viazovska's proof consisted of proving a pair of inequalities satisfied by the modular forms she constructed. Viazovska gave a proof of these inequalities that relied in an essential way on computer calculations. In this talk I will describe the background leading up to Viazovska's groundbreaking proof, and present a new proof of her inequalities that uses only elementary arguments that can be easily checked by a human.


September 20: Alireza Golsefidy (UCSD)

Closure of orbits of the pure mapping class group on the character variety

For every surface S, the pure mapping class group G_S acts on the (SL_2)-character variety Ch_S of a fundamental group P of S. The character variety Ch_S is a scheme over the ring of integers. Classically this action on the real points Ch_S(R) of the character variety has been studied in the context of the Teichmuller theory and SL(2,R)-representations of P. In a seminal work, Goldman studied this action on a subset of Ch_S(R) which comes from SU(2)-representations of P. In this case, Goldman showed that if S is of genus g>1 and zero punctures, then the action of G_S is ergodic. Previte and Xia studied this question from topological point of view, and when g>0, proved that the orbit closure is as large as algebraically possible. Bourgain, Gamburd, and Sarnak studied this action on the F_p-points Ch_S(F_p) of the character variety where S is a puncture torus. They conjectured that in this case, this action has only two orbits, where one of the orbits has only one point. Recently, this conjecture was proved for large enough primes by Chen. When S is an n-punture sphere, the finite orbits of this action on Ch_S(C) are connected to the algebraic solutions of Painleve differential equations. In this talk, I will report on our recent contributions to this theory. Here are some sample results:

  • An almost complete description of the Zariski-closure of infinite G_S-orbits in Ch_S(F) where F is a characteristic zero field.
  • Answering a question of Goldman-Previte-Xia by understanding the orbit closure of G_S on SU(2)-representation part of Ch_S(R) where S is an n-puncture sphere.
  • Show that the original result of Previte and Xia is not accurate and give a description of the cases where it fails.
  • Proving that in most cases the closure of G_S-orbits in the p-adic integer points Ch_S(Z_p) are open within given polynomial constrains. We give precise description of exceptional cases.

(This is a joint work with Natallie Tamam.)

October 4: Su Gao (Nankai University)

Title: Continuous combinatorics of countable abelian group actions

Abstract: We consider combinatorial problems on the free parts of the Bernoulli shift actions of countable abelian groups, such as chromatic numbers, edge chromatic numbers, perfect matchings, etc. These problems can all be regarded as special cases of the problem whether there exist continuous equivariant maps from the free part of the Bernoulli shift action to a subshift of finite type. We prove a master theorem which in theory gives complete answers to the subshift problem. Furthermore, we show that the class of (codes for) all subshifts of finite type with a positive answer to the subshift problem is a complete c.e. set. This is joint work with Steve Jackson, Ed Krohne, and Brandon Seward.

Title: Systems Learning of Single Cells

Cells make fate decisions in response to dynamic environments, and multicellular structures emerge from multiscale interplays among cells and genes in space and time. The recent single-cell genomics technology provides an unprecedented opportunity to profile cells for all their genes. While those measurements provide high-dimensional gene expression profiles for all cells, it requires fixing individual cells that lose many important spatiotemporal information. Is it possible to infer temporal relationships among cells from single or multiple snapshots? How to recover spatial interactions among cells, for example, cell-cell communication? In this talk I will present our newly developed computational tools to study cell fate in the context of single cells as a system. In particular, I will show dynamical models and machine-learning methods, with a focus on inference and analysis of transitional properties of cells and cell-cell communication using both high-dimensional single-cell and spatial transcriptomics, as well as multi-omics data for some cases. Through their applications to various complex systems in development, regeneration, and diseases, we show the discovery power of such methods in addition to identifying areas for further method development for spatiotemporal analysis of single-cell data.