Poster Session: 11:15-12:30 CDT
The WID Symposium Poster Sessions will be hosted on Congregate (click here for tips on using Congregate). This page will include a gallery of all posters so that you can browse them at your leisure before, during, and after the symposium.
|1||Stefan Pietrzak||Defining Reprogramming Checkpoints From Single-Cell Analysis of Induced Pluripotency
Elucidating the mechanism of reprogramming is confounded by heterogeneity due to the low efficiency and differential kinetics of obtaining induced pluripotent stem cells (iPSCs) from somatic cells. Therefore, we increased the efficiency with a combination of epigenetic and signaling molecules and profiled the transcriptomes of individual reprogramming cells.
|2||Michelle Craft||DiscoverIT, UW-Madison, and WID Provide Your IT Services
DiscoverIT, UW-Madison, and WID provide a variety of IT services including communication, desktop support, data, computing, servers, security, networking, and monitoring.
|3||Yue Xie||Efficient Algorithms for Bound Constrained Optimization
Bounds are the easiest type of inequality constraints. In this work we discuss efficient algorithms to solve problems with bound constraints, which includes the popular Nonnegative Matrix Factorization (NMF) in machine learning. We propose two practical variants of projected Newton methods and show that they are equipped with global worst-case complexity guarantees.
|4||Jiani Chen||Epigenetic regulation through the control of a de novo DNA methyltransferase in plants
DNA methylation plays crucial roles in cellular development and stress responses through gene regulation and genome stability control. Precise regulation of DOMAINS REARRANGED METHYLTRANSFERASE 2 (DRM2), the de novo Arabidopsis DNA methyltransferase, is crucial to maintain DNA methylation homeostasis to ensure genome integrity. Compared to the extensive studies on DRM2 targeting mechanisms, little is known regarding the quality control of DRM2 itself.
|5||Yuyuan Wang||pH-Responsive Polymer-Drug Conjugate: An Effective Strategy to Combat the Antimicrobial Resistance
Advances in nanotechnology promise new developments in multifunctional drug/nucleic acid/CRISPR gene-editing tool delivery systems. In particular, nanoparticles encapsulating therapeutic and diagnostic agents while providing specific molecular targeting capabilities are emerging as the next generation of multi-functional nanomedicines for targeted therapy and diagnosis, which will also pave the road for personalized medicine.
|6||Spencer Haws||Epigenetic Adaptation to Methyl-Metabolite Depletion
S-adenosylmethionine (SAM) is the methyl-donor substrate for DNA and histone methyltransferases that regulate cellular epigenetic states. This metabolism-epigenome link enables the sensitization of chromatin methylation to altered SAM abundance. However, a chromatin-wide understanding of the adaptive/responsive mechanisms that allow cells to actively protect epigenetic information during life-experienced fluctuations in SAM availability are unknown.
|7||Kushin Mukherjee||Finding meaning in simple sketches: How do humans and deep networks compare?
Picasso famously showed that a single unbroken line, curved and angled just so, can depict a dog, penguin, or camel for the human viewer. What accounts for the ability to discern meaning in such abstract stimuli? Deep convolutional image classifiers suggest one possibility: perhaps the visual system, in learning to recognize real objects, acquires features sufficiently flexible to capture meaningful structure from much simpler figures.
|8||Wallace Liu||Small Molecule Targeting of UHRF1 to Reverse Oncogenic Chromatin Binding
Can an oncogenic protein-protein interaction be selectively targeted by small molecules?
When cancer cells replicate, daughter cells inherit the existing program of gene expression states from parental cells, enabling oncogenes to remain highly expressed and tumor suppressor genes (TSGs) to be suppressed.
|9||Rui Pan||AgDH: A Distributed System for Gathering and Disseminating Dairy Data
Dairy farms have been incorporating modern data-tracking services, which generate an enormous amount of data of myriad types (e.g. genetic, nutritional, reproductive). The organic nature by which the different types of automation systems have arisen and developed has resulted in a highly heterogeneous arrangement of different systems from different companies that often have difficulty integrating with one another.
|10||Mingzhou Ye||pH-Responsive Polymer-Drug Conjugate: An Effective Strategy to Combat the Antimicrobial Resistance
Antimicrobial resistant (AMR) infection is a growing threat to public health and force people to pursuit antibacterial drugs with enormous systemic toxicity. Here we report a dextran coated stimuli-responsive nanoparticle (NP) that encapsulates hydrophobic antibiotic, and specifically binds bacteria to overcome severe AMR infections. The NP shows strong affinity with a variety of pathogens in vitro and can effectively accumulate in the bacterial infected tissues.
|11||Bryce Sprecher||Diving in Data
The Virtual Environments Lab, in partnership with the National Park Service - Submerged Resources Center, capture and digitize shipwrecks in hard to reach places. Though a number of 3D scanning methods are available, many are not suitable for underwater operations. Utilizing the photography skills and systems already established at the NPS-SRC the Virtual Environments Lab reconstructs shipwrecks from the dive data using photogrammetry. These challenging shipwreck locations range from tropical waters of the Florida Keys to deep cold waters of Lake Superior.
|12||Zhen Peng||From chemical ecosystem to the origin of life
How life arose from abiotic world has been an unresolved fundamental question in natural sciences for a long time. Multiple theories were proposed to explain how life might emerge, but the lack of realistic chemical kinetics hinders the application of these theories to directing experimental studies as well as to analyzing specific life-like dynamics. By integrating chemical kinetics, ecology, evolutionary biology, and computer simulation, we developed a theoretical framework called chemical ecosystem ecology which not only depicts a promising route by which simple chemical rules can be organized to generate life-like systems but also can be used to search for candidate signals of life-like systems in experimental studies.
|13||Rohit Kannan||Integrated Learning and Optimization
We consider optimization for data-driven decision-making in which parameters within the optimization model are uncertain, but predictions of these parameters can be made using available covariate information. We investigate a framework for integrating a machine learning prediction model within a sample-based approximation for approximating the solution to such problems. We derive conditions under which solutions to these approximations approach optimality when we use increasing amounts of data in the construction of the prediction model. Computational studies demonstrate the advantages of our data-driven formulations over existing approaches even when the prediction model is misspecified.
|14||Sarah Miller||Tiny Earth: Expanding a Diverse Network to Discover Antibiotics while Pivoting to Online
Tiny Earth is a network of students and instructors focused on crowdsourcing antibiotic discovery from soil bacteria. In 2020-21, our priorities are to expand the global network, increase diversity and antiracism in the curriculum, and pivot the research-based Tiny Earth course to online. In this poster, we provide an overview of the network's diversity and reach as well as tools we are using to pivot to online with equity and accessibility in mind.
|15||Kaivalya Molugu||Tracking and Predicting Reprogramming using Nuclear Characteristics
Reprogramming of human somatic cells to induced pluripotent stem cells (iPSCs) generates valuable resources for disease modeling, cell therapy, and regenerative medicine. However, the reprogramming process can be stochastic and inefficient, creating many partially-reprogrammed intermediates and non-reprogrammed cells in addition to fully-reprogrammed iPSCs. Much of the work to identify, evaluate, and enrich for iPSCs during reprogramming relies on methods that fix, destroy, or singularize cell cultures, thereby disrupting each cell’s microenvironment.
|16||Ardhendu Tripathy||Generalized Chernoff Sampling: A New Perspective on Structured Bandits
Structured stochastic bandit problems are intimately related to the classical problem of sequential experimental design. This paper studies new algorithms for best-arm identification in structured stochastic bandits settings inspired by an experimental design method proposed by Chernoff in 1959.
|17||Alex Plum||Spatial Structure in Autocatalytic Chemical Ecosystems at the Origins of Life
We consider life as a general process, distinguished by an ability to self-propagate and a capacity for open-ended evolution. How exactly self-propagation and adaptive evolvability can emerge in out-of-equilibrium chemical processes remains an open question. Autocatalytic cycles, whose constituent chemicals collectively catalyze their own continuous recreation, seem to have the potential to manifest both such properties and may play a substantial role in abiogenesis.
|18||Michael O’Neill||Performance of Nonconvex Optimization Methods with Worst-Case Guarantees
We investigate the practical efficiency of nonconvex optimization methods with worst-case guarantees when applied to machine learning problems. We compare algorithms with theoretical guarantees against those known to be effective in practice. These algorithms are applied to a nonconvex regression problem as well as low-rank matrix completion.
|19||Clare Michaud||Data Science Hub: Here to Help With Your Data Science Needs
The Data Science Hub creates connections among UW-Madison researchers, students, faculty, and staff, and with professionals in the community, around topics related to data science, to help researchers across domains and industries enhance their research with data science techniques. We do this through consultations, regular trainings, events, and the communications channels of our newsletter and Twitter account.
|20||Alexis Lawton||Revealing dynamic protein acetylation across subcellular compartments
Acetylation of the ε-amino of lysine residues is a widespread, reversible post-translational modification that regulates many cellular functions, including protein-protein interactions, protein-DNA interactions, cellular localization, protein stability, and enzymatic activity. Historically, the first well-characterized example of acetylation was found on histone tails, but more recent proteomics analyses have identified thousands of acetylation sites on non-histone proteins.
|21||Sailendharan Sudakaran||Microbiome Hub
Microbiome hub is a joint venture between the UW Biotechnology Center and the Wisconsin Institute for Discovery, making use of current prowess at UWBC in sequencing and bioinformatics and WID’s strength in data storage and management. Microbiome research is one of the rapidly growing areas of science, encompassing a broad range of systems from human body, animals, soil, plants, lakes, food, wastewater treatment systems, and test tubes.
|22||Sunnie Grace McCalla||Examining cell-cell interactions to define population structure from single cell RNA-seq datasets
The advent of single-cell RNA sequencing (scRNA-seq) has permitted the profiling of mRNA levels from nearly all genes in individual cells in a heterogeneous sample. The availability of these mRNA profiles from individual cells presents new opportunities to characterize cellular heterogeneity on a scale that has been previously impossible, including the ability to define new cell subpopulations and their lineage structure. A key step to cell subpopulation identification entails defining a graph of interactions among cells, which is then used for grouping cells based on the similarity of their interactions.