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Attended the conference and course on Semialgebraic statistics, latent tree models, and phylogenetics.
Took online specialization on Coursera.
Attended ASA chapter annually meetings since 2016. Gave a talk in 2018.
Gave a talk at Evolution 2019.
Presented a poster at JSM 2019.
Attended the conference and the Introduction to Spark with R course.
Attended the Image Analysis and Biomedical applications tracks.
Presented at the Biological Applied Mathematics track.
Attended the Genetics, Comparative Genomics, and Computational Cancer Biology satellite workshops.
Presented at the Regulatory & Systems Genomics and Evolution & Comparative Genomics applications tracks.
Attended Federated Learning tutorial session.
Organized the inaugural LANL AI for Biology workshop.
PRANC is a computational framework to work with the ranked gene trees. PRANC performs a heuristic search from the initial trees to find a ML species tree.
In this paper, we study how the parameters of a species tree simulated under a constant rate birth-death process can affect the probability that the species tree lies in the anomaly zone. We derive the lower bound of the probability of the species tree being in an unranked anomaly zone with n leaves for large speciation rate $\lambda$, and we show that this lower bound approaches 1 as n $\rightarrow \infty$ and $\lambda \rightarrow \infty$.
In this article, we introduce several heuristic approaches to infer whether species trees are in anomaly zones when it is difficult or impossible to compute the entire distribution of gene tree topologies.
2021 Fall Series Symposium: Where AI meets Food Security
In this paper, we identified corn soil microbiome communities associated with different experimental conditions, such as watering treatment and soil source type, at each taxonomic level using Latent Dirichlet Allocation (LDA). Unlike traditional methods used for microbial analysis which target individual taxa, LDA provides an effective way to quickly find significant correlations of groups of multiple taxa with plant traits responsible for its performance under water stress. LDA identified microbiome compositions that may act synergistically toward some ecological function in plant-microbiome interaction.
This work addresses the critical issue of orphaned wells—inactive oil and gas wells that are often unreported and contribute significantly to climate change, groundwater contamination, and toxic emissions. With potentially millions of these wells in the U.S. alone, locating them is essential for effective environmental remediation. Our paper presents a comprehensive dataset of high-resolution 120,948 aerial images of documented orphan wells, accompanied by segmentation masks and metadata.
In this study, we use ML to explore over 3,000 epigenomes and provide a comprehensive characterization of the relationships among epigenetic modifications, their modifiers, and specific immune cell types across all chromosomes. We find that in addition to the traditional perspective that epigenetic modifiers help regulate the expression of genes involved with cellular processes, they also function in a feedforward manner to regulate their own expression. We elaborate on the rationale behind analyzing baseline healthy data as a preparatory step for future infectious disease studies.
Published:
Published:
Stat 145/Math 1350, UNM, Department of Mathematics and Statistics, 2016
Class Times (Spring 2016): TR 2 - 3.15
Book: The Basic Practice of Statistics (7th Edition), by Moore, Notz and Fligner
Syllabus and Schedule
Stat 345, UNM, Department of Mathematics and Statistics, 2020
Class Time (DSH 225): MWF 9 - 9.50 am (Zoom meeting id on learn)
Office Hours (SMLC 319): F 3.30 pm Anastasiia (Zoom id on learn)
Discussion/Tutoring (DSH 326): W 2.30 pm Hasan, F 2 pm Jared (Zoom ids on learn)
Syllabus
Piazza link: piazza.com/unm/spring2020/stat345
Recorded Kaltura class videos, Zoom meetings ids, HWs submission : UNM Learn