Our Team
Check out open positions in our research group!
Principal Investigator
Qiyun Zhu
This is Qiyun (pronounced as “chee-yeun”), an Assistant Professor at the School of Life Sciences, Arizona State University, since August 2020. Prior to this appointment, I completed postdoctoral training at UC San Diego with Dr. Rob Knight. My academic background is multidisciplinary, with research experience and interest in bioinformatics, phylogenetics, microbiology, comparative genomics and molecular biology. I study both computational and biological questions, and strive to expand understanding of the microbial world through its multiple levels: genes, genomes, lineages, communities, hosts, and environments.
Staff
Zijun Wu
I joined Qiyun Lab as a research assistant and will continue as a postdoc from Summer 2025. Previously, I completed BS and MS from UC San Diego. I am currently pursuing a PhD at the Georgia Institute of Technology, focusing on deep learning algorithms and statistical methods on gene regulatory network construction. I aim to survive under the existential pressure of being replaced by AI, and therefore, commit to improve the applicability and interpretability of computational models in biological data.
Matt Aton
I am currently a software engineer in the lab, where I am maintaining and developing the open source Python package scikit-bio. Previously, I worked as an undergraduate researcher in the lab while earning a bachelor’s degree in molecular biology with a minor in data science. In my free time I enjoy playing drums and making music, and being out in nature.
Graduate Students
Naif Ganadily
I am starting my first year as a PhD Student in Biomedical Informatics. With an M.S. degree from the University of Washington and industrial experience as an AI Consultant, I specialize in generative AI, NLP, and computer vision. I’m passionate about using health-related data to solve important problems in areas such as healthcare, health policy, and health security. My primary ambition is to ensure that emerging health technologies have a positive and beneficial impact.
Andy Marinelarena
I joined Qiyun Lab summer 2024. I graduated from California State university San Marcos with a degree in Biological Sciences (Molecular and Cell). I am currently pursuing a Masters of Science in Computational life Sciences. I am interested in implementing and developing multi-omic methods to further characterize human health, disease and microbial ecology.
Henry Secaira Morocho
I joined Qiyun lab in the 2021 Fall for my Ph.D. research. I am a biologist with a multidisciplinary background, which has shaped my interests at the interface of evolution, bioinformatics, microbiology, and systems biology. Currently, I am Bioinformatics and Computational Biology master’s student in Spain, and I am working on a research project that focuses on the network analysis of deep sequencing data to understand the adaptive responses of viral populations to varying environments under the supervision of Dr. Susanna Manrubia.
Undergraduate students
Renee Cardoza Leon
I am an undergraduate studying Computer Science, with a focus on Software Engineering, and a Barrett College Fellow working on scikit-bio. I am passionate about creating tools for anyone to use, free of charge, and making information accessible to all. I am excited to work on scikit-bio to explore more about bioinformatics and to contribute to a project that helps researchers! During my free time, you can find me working on one of my art projects, writing drafts, video games, or my D&D campaign.
AJ Pinto
I am an undergraduate student majoring in Biomedical Engineering with a minor in Data Science. I love computer science, and I’m passionate about the ways it can be used to model and better understand physical phenomena. I’m particularly interested in applications of machine learning for promoting advancements in medicine. In my free time, I like to write and record music!
Anton Sazonov
I am an undergraduate student pursuing a degree in Computer Science with a minor in Mathematics. I have a passion for machine learning & deep learning, and in particular I’m interested in tackling optimization problems. Within the Qiyun Lab, I’m researching ways to improve efficiency of the protein language models used in scikit-bio.
Rudresh Bhandari
I am an undergraduate Computer Science student at ASU with a strong passion for machine learning and software development. My experiences include developing cross-platform mobile applications, refining machine learning models, and creating innovative projects at hackathons. I am driven by a desire to create software that helps communities and makes a meaningful impact. In my free time, I enjoy reading, playing basketball, and am a proud 49ers fan.
Aryan Vinod Keluskar
I am a rising junior majoring in Computer Science, with a minor in Statistics. I love to meet wonderful people; develop impactful software; and to innovate & inspire! What started out as exploring my interest, coding has allowed me to meet the most soulful people of my life, as well as contribute to the social good of the communities that raise dreamers such as myself. Writing code for scikit-bio is certainly a stepping stone for me to understand the nuances of professional software development and developing libraries for the community.
Nirmitha Hamsanipally
I am an undergraduate student majoring in Data Science, with a focus in Mathematics. As a past pre-health student, I am particularly fascinated by how machine learning algorithms can be applied to analyze complex biological data, uncovering patterns that can lead to new insights. I also enjoy creating intuitive visualizations that make data more accessible and understandable. Currently I am working on improving scikit-bio as a Barrett College Fellow.
Paarth Batra
I’m currently an undergraduate pursuing a BS in Computer Science. Strong passion for deep learning and neural networks, and mature programming experience through personal projects and internships at DoS. New researcher for Qiyun Lab (S24) developing and maintaining scikit-bio, focused on integration of LLM technologies with existing library features.
Visiting scholars
Muhammad Atif Nisar
Alumni
Raeed Azom
Chris Tapo
Chris was an undergraduate student majoring in Mathematics. He had a strong passion for combinatorics and algebra, and their applications in bioinformatics. He contributed to the tree module of scikit-bio, focusing on the minimum evolution algorithms for phylogenetic inference. After graduating, Chris continued his academic journey in the Mathematics M.S. program at the University of Akron.
Sai Jahnavi Vemula
Janvi was a master’s student majoring in Biomedical Informatics, where she combined her expertise with applied microbiology to tackle diseases through the microbiome lens. She was interested in uncovering how microbial factors influence health conditions, aiming to pave the way for new therapeutic insights.
Seth Rice Nulty
Seth was an undergraduate student pursuing Neuroscience and Computer Science degrees. He was interested in the complex role of the microbiome-gut-brain axis in brain functions and neurodegenerative diseases. He contributed to a machine learning framework for feature engineering to enhance metagenomic data analysis.
Hibah Usmani
Zhu Xing
Zhu obtained B.S. in Biological Sciences and Global Health, and then M.S. in Microbiology at ASU. She conducted multiple research projects including studies of microbiomes in breast cancer and Alzheimer’s disease, evaluation of phylogenetic alpha diversity metrics, and prompt engineering for metagenomics. After completing her study at ASU in 2024, she became a Ph.D. student at the University of North Carolina at Chapel Hill.
Daniel Roush
Daniel was a postdoctoral researcher. He did his Ph.D. work with Dr. Ferran Garcia-Pichel at ASU. He made significant contributions to the development and adaptation of bioinformatics approaches for microbiome analysis (most notably the Woltka project), the study of host-associated and environmental microbiomes, and the management of lab activities and facilities. He also continued to study Cyanobacteria diversity and phylogeny. After completing postdoc training, he joined Native Microbials as a Microbiome Field Scientist.
Abhinav Chede
Abhinav was a student of the BASIS Chandler high school. With his interest and skills in machine learning, data mining and software development, he made valuable contributions to the projects of cell size evolution and metagenome binning in the Qiyun lab. After graduation, he was admitted to Brown University.
Wanxiang Liu
Wanxiang obtained an M.S. in Bioinformatics and Computational Biology at Saint Louis University. He performed sequence data processing, microbiome community analysis and host trait prediction using a phylogenetic tree. He continued to explore opportunities in the Evolutionary Biology Ph.D. program at ASU.
Hasti Asrari
Hasti was an undergraduate student majoring in Biology. She had a short experience in the Qiyun Lab, contributing to literature review and education regarding host-associated microbiomes. Meanwhile she studied black widow spider microbiomes under Dr. Chad Johnson’s mentorship. She received the honor of New College’s Outstanding Undergraduate (spotlight video). After graduation, she started her Ph.D. study in Marine and Environmental Biology in the University of Southern California.
Noah Pacheco
Noah was an undergraduate student majoring in Biochemistry. He studied the methodology of molecular phylogenetics. He was exploring a career in biomedical sciences.
Ping-Han Huang
Ping-Han did a summer intern in the Qiyun Lab. She was a Ph.D. student in Statistics at ASU, was a research focus in functional data analysis and experimental design. In addition to her work in statistics, She had research experience in analyzing gene expression data and investigating the relationship between metastatic cancer and human endogenous retrovirus.
Julian Yu
Julian was a postdoctoral researcher. She did her Ph.D. work with Dr. C Ryan Penton at ASU. Her work in the Qiyun Lab included the development of a bioinformatics approach for community analysis of metagenomic data, the analysis of honey bee metagenomes, and the setup of a molecular biology lab. She became a Bioinformatician and Microbiome Scientist at Heliae Development.