Research areas:
Nonlinear nonconvex optimization, signal processing, numerical linear algebra, mathematical biology, data science, and machine learning. My research is currently supported by NSF Grants
CMMI 1333326 and
IIS 1741490.
News and Announcements:
2021
2020
- November: Virtual talk at the 2020 Asilomar Conference on "Detecting novel genomic structural variants through negative binomial optimization."
- September: The webinar series
of the Pacific Math Alliance is in full swing! Learn more about graduate school and REUs in mathematics!
For inquiries, send an email.
- July: Graduate student Ashley De Luna successfully defended her M.S. thesis,
"Classification of Mild Cognitive Impairment under Data Limitations using
Deep Learning Techniques." Congratulations, Ashley!
- July: Organized the SIAM Annual Meeting Workshop Celebrating Diversity. Thanks to co-organizers Prof. Talea Mayo and
Prof. Mario Banuelos and to the
mini-symposia organizers
Prof. Rebecca Morrison (MS53: Recent Advances in Scientific Computation),
Prof. Sally Ellingson ( MS61: Machine Learning and in Silico Drug Discovery),
Prof. Marcella Gomez (MS69: Data-Driven Methods and Models), and
Prof. Ariel Cintron-Arias (MS46: Developing Workforce in 21st Century Applied Mathematics, which was written up in
SIAM News). Graduate student Jacky Alvarez presented in the MS69 session.
- June: The paper, "Deep Convolutional Autoencoders for Deblurring and Denoising Low-Resolution Images", has been accepted to the
2020 International Symposium on Information Theory and Its Applications. Co-authored with Dr. Omar DeGuchy
and undergraduate student Michael Mendez Jimenez.
- May: The paper, "A Supervised Learning Approach to Detect Signal Variation in Genome Data", has been accepted to the 2020 European Signal Processing Conference. Co-authored with
Prof. Mario Banuelos,
Dr. Omar DeGuchy,
and
Prof. Suzanne Sindi.
- May: The paper, "Genomic Signal Processing for Variant Detection in Diploid Parent-Child Trios", has been accepted to the 2020 European Signal Processing Conference. Co-authored with
graduate student Melissa Spence,
Prof. Mario Banuelos,
and
Prof. Suzanne Sindi.
- May: Invited seminar talk at the Mathematics of Data and Decisions at UC Davis.
- April: The paper, "Forward and inverse scattering in synthetic aperture radar using machine learning", has been accepted to the Applications of Machine Learning 2020 conference at the SPIE Optical Engineering + Applications symposium. Co-authored with
Dr. Omar DeGuchy,
graduate student Jacky Alvarez,
Prof. Arnold Kim, and
Prof. Chrysoula Tsogka.
- April: Graduate student Melissa Spence successfully defended her M.S. thesis,
"Genomic Signal Processing for Structural Variant Detection in Related Individuals." Congratulations,
Melissa! (Melissa was co-advised with Prof. Suzanne Sindi.)
- April: Graduate student
Omar DeGuchy
successfully defended his Ph.D. dissertation,
"Large-Scale Optimization and Deep Learning Techniques for Data-Driven Signal Processing". Congratulations, Dr. DeGuchy!
(Dr. DeGuchy is now a data scientist at Lawrence Livermore National Laboratory.)
- March: The paper, "Computationally Efficient Decompositions of Oblique Projection Matrices", has been accepted for publication in the
SIAM Journal on Matrix Analysis and Applications. Co-authored with
Dr. Johannes Brust and Dr. Cosmin Petra
- March: The book chapter, "Quasi-Newton Optimization Methods for Deep Learning Applications" in "Deep Learning Applications" is now available. Co-authored with Dr. Jacob Rafati.
- March: The paper, "'Image Classification in Synthetic Aperture Radar using Reconstruction from Learned Inverse Scattering", has been accepted to the
2020 International Geoscience and Remote Sensing Symposium. Co-authored with graduate students
Omar DeGuchy
and
Jacky Alvarez.
2019
- November: "Mentoring at the Doctoral Level" panelist at the
Field of Dreams Conference in St. Louis, MO.
- August: The paper, "Large-Scale Quasi-Newton Trust-Region Methods With Low-Dimensional Linear Equality Constraints",
has been accepted for publication in Computational Optimization and Applications. Co-authored with
Dr. Johannes Brust and Dr. Cosmin Petra.
- July: Presented a talk in the
"Mathematical solutions to real world problems involving real data" mini-symposium at the
2019 International Congress on Industrial and Applied Mathematics in Valencia, Spain. Thanks,
Mili, for the invitation!
- June: The paper, "Trust-region algorithms for training responses: machine learning methods using indefinite Hessian approximations", has been accepted for publication in Optimization Methods and Software. Co-authored with
Prof. Jennifer Erway,
Dr. Joshua Griffin, and Dr. Riadh Omheni.
- May: Co-PI on new NSF Research Training Group in the Mathematical Sciences grant, "RTG: Data-Intensive Research and Computing at the University of California, Merced" (PI: Arnold Kim, Co-PI: Francois Blanchette).
- May: The paper, "
A dense initialization for limited-memory quasi-Newton methods", has been accepted for publication
in Computational Optimization and Applications. Co-authored with Dr. Johannes Brust,
Prof. Oleg Burdakov, and
Prof. Jennifer Erway.
- April: Two papers were accepted to the 2019 SPIE Optical Engineering + Applications Conference:
"Parameter tuning using asynchronous parallel pattern search in sparse signal reconstruction," co-authored with graduate student
Omar DeGuchy,
and
"Image disambiguation with deep neural networks,"
co-authored with
Omar DeGuchy
and incoming graduate student Alex Ho.
- March: "Computational and Data-Enabled Sciences" Special Session Organizer at the
AMS Spring Central and Western Joint Sectional Meeting
at the University of Hawaii Manoa, March 22-24, 2019.
- March: The paper, "Predicting Novel and Inherited Variants in Parent-Child Trios", co-authored with
graduate student
Melissa Spence,
Prof. Mario Banuelos,
and
Prof. Suzanne Sindi,
has been accepted to the
2019 International Symposium on Medical Measurements and Applications in Istanbul, Turkey. Congratulations, everyone!
- March: Serving as a Scholarship Reviewer for the
2019 ACM Richard Tapia Celebration of Diversity in Computing Conference.
- February: Congratulations to
Omar DeGuchy,
whose paper,
"Deep neural networks for low-resolution photon-limited imaging," has been accepted to the 2019 IEEE International Conference on Acoustics, Speech and Signal Processing
in Brighton, UK. This work was co-authored with
graduate student Fabian Santiago
and Prof. Mario Banuelos.
- February: Serving as a Master Facilitator for selecting
F-GAP students and in placing them with Doctoral Facilitators for the
Math Alliance.
2018
- December: A photo of the Merced Math Teacher Circle on the Mathematical
Association of America Twitter feed.
- December: At the 2018 IEEE International Conference
on Bioinformatics and Biomedicine in Madrid, Spain.
- Elected to the Pacific Math Alliance
Director's Board.
- September: Joined the SIAM Workshop Celebrating Diversity (WCD) Working Group. Will chair the Working Group in organizing the WCD sessions and events at the 2020 SIAM Annual Meeting.
- September: The paper, "Improving L-BFGS Initialization For Trust-Region Methods In Deep Learning," co-authored with EECS graduate student Jacob Rafati, has been accpeted to the 17th IEEE International Conference on Machine Learning and Applications conference (ICMLA 2018) in Orlando, FL for oral presentation.
Congratulations, Jacob!
- July: Oral presentation at the
40th Annual International Conference of the
IEEE Engineering in Medicine and Biology Society
in Honolulu, HI.
- July: Invited talk in the
"Recent
Advances in Optimization Modeling and Algorithms" mini- symposium at the
2018 SIAM Annual Meeting in Portland, OR.
Thanks, Sven!
Also, check out
Omar DeGuchy's invited talk in the
"Nonlinear
Dynamics and Complex Systems" mini-symposium as part of the
SIAM Workshop
Celebrating Diversity.
- June: At the 2018 Joint PI Meeting: NSF BIGDATA and Big Data Hubs & Spokes in Washington, DC.
- June: At the 2018 Math Teacher Circle Summer Workshop in Washington, DC.
- May: The paper, "Trust-Region Minimization Algorithm for Training Responses (TRMinATR): The Rise of Machine Learning Techniques" has been accepted to the
26th European Signal Processing Conference (EUSIPCO 2018).
Co-authored with Jacob Rafati and
Omar DeGuchy.
Congratulations, Jacob and Omar!
- April: Graduate student
Johannes Brust
successfully defended his Ph.D. dissertation,
"Large-Scale Quasi-Newton Trust-Region Methods:
High-Accuracy Solvers, Dense Initializations, and Extensions". Congratulations, Dr. Brust!
- April: Congratulations to Omar DeGuchy
for passing his Qualifying Exams and advancing to Ph.D. candidacy.
- April: At ICASSP 2018 in Calgary, Alberta.
- April: The paper, "Structural variant prediction in extended pedigrees through
sparse negative binomial genome signal recovery", has been accepted to
40th Annual International Conference of the IEEE Engineering in
Medicine and Biology Society. Co-authored with graduate student
Mario Banuelos
and Prof. Suzanne Sindi.
- March: The paper,
"Compact representation
of the full Broyden class of quasi-Newton updates",
has been accepted to Numerical Linear Algebra with Applications.
Co-authored with
Prof. Jennifer Erway at Wake Forest
and Omar DeGuchy.
Congratulations, Jennifer and Omar!
- March: Keynote speaker at the
2018 Northern California Undergraduate Math Conference
at Fresno State.
- March: At the Latinx in the Mathematical Sciences Conference 2018
banquet dinner hosted by IPAM, where
Omar DeGuchy
received an award for "Outstanding Poster Presentation". Congratulations, Omar!
- March: Faculty poster judge at the
2018 University of California Leadership Excellence through Advanced Degrees (UC LEADS)
Research and Leadership Symposium
at UC Santa Barbara (UC Merced group photo
here).
- February: Appointed to the
SIAM Career Opportunities Committee
for a one-year term.
- February: Faculty poster judge at the
2018 UC California Alliance for Minority Participation (UC CAMP)
at UC Irvine.
- January: Congratulations to Johannes Brust
for receiving the Spring 2018 Graduate Dean's Dissertation Year Fellowship in Applied Mathematics.
- January: At the
2018 Joint Mathematics Meeting in San Diego with ARCHIMEDES students
Jessica Linton, Jonathan Sahagun, and Melissa Spence, and graduate student
Omar DeGuchy.
2017
- December: At the
2017 Optimization Methods and Software Conference in Havana, Cuba.
Graduate student Johannes Brust
gave a presentation on "Dense Initializations for Limited-Memory Quasi-Newton Methods".
- December: At
CAMSAP 2017 in Curacao, Dutch Antilles.
- October: At the Beyond Convexity:
Emerging Challenges in Data Science Workshop at the Casa Matemática Oaxaca in Oaxaca, Mexico.
- September: Selected to serve as a consultant for
MAA Project NExT Fellow
Jay Cummings
(Blue '17 and faculty member at CSU Sacramento). Check out the videos on his website!
- September: Congratulations to Omar DeGuchy,
whose paper "Photon-limited fluorescence lifetime imaging microscopy signal recovery with known bounds" has been
accepted to the 2017 IEEE International Workshop on Computational Advances in Multi-Sensor Adaptive Processing
(CAMSAP). This work is in collaboration with
Dr. Lasith Adhikari and
Prof. Arnold Kim.
- September: Congratulations to Omar DeGuchy
for receiving a travel fellowship to the 2017 SACNAS conference.
- September: SampTA paper on
"Mixture regression as subspace clustering" (with
Daniel Pimentel-Alarcon,
Laura Balzano,
Rob Nowak, and
Rebecca Willett)
now available here.
- August: Graduate student Omar DeGuchy presented
two papers
(Paper 10394-16: Limited memory trust-region methods for sparse relaxation and
Paper 10394-18: Non-convex Shannon entropy for photon-limited imaging)
at SPIE Wavelets and Sparsity XVIII in San Diego, CA.
- August: NSF BIGDATA proposal on
"Parsimonious anomaly detection for sequencing data"
funded. In collaboration with
Prof. Jennifer Erway at Wake Forest and
Prof. Suzanne Sindi.
- July: At MathFest in Chicago, IL with 2016 ARCHIMEDES REU alums
Andrew Fujikawa, Jessica Linton, Jonathan Sahagun, and Katie Sanderson, and co-mentor
Suzanne Sindi.
- July: Appointed to the
AMS-Simons Travel Grants Committee for a three-year term, starting in February, 2018.
- July: At the 2017 SIAM
Annual Meeting in Pittsburgh, PA. Co-organized the
Professional Development Evening.
Also check out Becca Willett's plenary talk on "Nonlinear Models for Matrix Completion".
- June: At the Householder Symposium XX at Virginia Tech.
- May: At the 2017 SIOPT Conference in Vancouver, Canada.
Co-organized MS13:
Nonconvex Optimization for Imaging Analysis with
Dr. Lasith Adhikari.
Co-organized MS42:
Recent advances in quasi-Newton methods with Dr. Cosmin Petra.
Presented in MS22:
Recent advances in large-scale nonlinear optimization.
Graduate student Johannes Brust presented
here and
here.
Graduate student Omar DeGuchy presented
here and
here.
- May: At the 2017 International Symposium on
Medical Measurements and Applications (MeMeA) in Rochester, MN with
Suzanne Sindi
and her Ph.D. student Mario Banuelos.
- March: Graduate student
Lasith Adhikari
successfully defended his Ph.D. dissertation,
"Nonconvex sparse recovery methods". Congratulations, Dr. Adhikari!
(Dr. Adhikari is now a postdoctoral associate in the Department of Medicine
at the University of Florida. Check out his new
website!)
- March: Congratulations to the 2016 ARCHIMEDES REU GenOpt Team
(Andrew Fujikawa, Jonathan Sahagun, Katie Sanderson, and Melissa Spence),
whose papers
"Sparse diploid signal recovery for genomic variant detection" and
"Nonconvex regularization for sparse genomic variant detection" have been accepted
to the 2017 IEEE International Symposium on Medical Measurements and Applications.
This work is in collaboration with graduate students
Mario Banuelos
and
Lasith Adhikari,
Rubi Almanza, and
Suzanne Sindi.
- March: Congratulations to
Mario Banuelos
and
Lasith Adhikari,
whose paper, "Biomedical signal recovery: Genomic variant detection in family lineages"
was accepted to the IEEE 5th Portuguese Meeting on Bioengineering (ENBENG).
This work is in collaboration with Rubi Almanza and Suzanne Sindi.
- January: Congratulations to
Lasith Adhikari
and
Johannes Brust
for being selected to receive SIAM Student Travel Awards to attend the
SIAM Conference on Optimization (OP17)
in Vancouver, Canada.
2016
- November: Congratulations to
Lasith Adhikari,
whose Ph.D./M.Sc. Forum proposal, "Non-convex sparse optimization for photon-limited imaging",
has been accepted to the 2017 IEEE International Conference on Acoustics, Speech and Signal
Processing (ICASSP).
- November: Recently posted in Linear Algebra and its Applications: "On solving limited-memory quasi-Newton equations",
co-authored with Jennifer Erway.
- November: Congratulations to
Lasith Adhikari
for receiving the Spring 2017 School of Natural Sciences Dean's Distinguished Scholars Fellowship.
- October: At the 2016 International
Symposium on Information Theory and Its Applications in Monterey, CA.
- August: Congratulations to graduate student Johannes Brust, whose manuscript, "On solving L-SR1 trust-region subproblems" (co-authored with Jennifer Erway)
has been accepted to Computational Optimization and Applications.
- August: Congratulations to
Lasith Adhikari,
whose paper, "Sparse reconstruction for fluorescence lifetime imaging microscopy with Poisson noise"
(co-authored with Arnold Kim), has been accepted to the 2016 IEEE Global Conference on Signal and Information Processing in Washington, DC.
- August: Organized a mini-symposium on large-scale nonlinear optimization at the
2016 International Conference on Continuous Optimization
in Tokyo, Japan.
- August: Congratulations to Johannes Brust for passing his Qualifying Exams and advancing to Ph.D. candidacy.
- July: Seminar talk at the Pacific Math Alliance Preparing Undergraduates through Mentoring toward PhD's (PUMP) program at Cal State Los Angeles.
- July: Professional Development Evening co-organizer at the 2016 SIAM Annual Meeting. Also co-authored talks by Jennifer Erway and Mario Banuelos.
- June: Congratulations to
Lasith Adhikari,
whose papers, "Nonconvex sparse Poisson intensity reconstruction for time-dependent
bioluminescence tomography" (co-authored with
Arnold Kim) and
"Trust-region methods for nonconvex sparse recovery optimization"
(co-authored with Jennifer Erway and
Bob Plemmons) were accepted to the
2016 International Symposium on
Information Theory and Its Applications in Monterey, CA.
- June: At the 2016 IEEE Workshop on Statistical Signal Processing in Spain.
- June: At the NSF/NIH-sponsored 2016 Innovation Lab on Interdisciplinary
Approaches to Biomedical Data Science
Challenges of Wearable and/or Ambient Sensors at Lake Arrowhead, CA. (See article
here.)
- April: At the NSF-sponsored Theoretical Foundations of Data Science: Algorithmic, Mathematical, and Statistical Workshop in Arlington, VA.
- February: Congratulations to undergraduate student, Victoria Arias, for receiving a Special Merit Award at the annual CAMP Statewide Research Symposium at UC Irvine.
- January: Applications to the 2016 UC Merced Applied Math summer REU program are now available (click here).
- January: SIAM Minisymposium on Optimization Co-organizer at the 2016 Joint Mathematics Meetings in Seattle, WA.
- January: Appointed to the Professional Development Working Group of SIAM's Education Committee.
2015
- December: Congratulations to undergraduate students, Aramayis Orkusyan (Fresno State) and Joanna Valenzuela (UC Merced URM),
and Lasith Adhikari,
whose paper, ''Analysis of p-norm regularized subproblem minimization for sparse photon-limited image recovery" was accepted to the
2016 IEEE International Conference on Acoustics, Speech and Signal Processing in Shanghai, China.
- December: Congratulations to Lasith Adhikari for co-authoring the paper, "Sparse signal recovery methods for variant detection in next-generation sequencing data" (with
Mario Banuelos, Rubi Almanza, and
Suzanne Sindi), which was accepted to the
2016 IEEE International Conference on Acoustics, Speech and Signal Processing in Shanghai, China.
- November: Talks at the Systems Information Learning Optimization and Applied and Computational Mathematics seminars at the University of Wisconsin-Madison. Presentation at the "Mini-Workshop on Optimization" (part of the Mechanical Engineering Faculty Research Workshop Series at UC Merced).
- October: 2015 SIAM Conference on Applied Linear Algebra
"Numerical linear algebra in large-scale optimization"
mini-symposium organizer.
- Fall: Sabbatical at the University of Wisconsin, Madison (Host: Rebecca Willett at ECE).
- September: Recently posted in SIMAX: "On Efficiently Computing the Eigenvalues of Limited-Memory Quasi-Newton Matrices",
co-authored with Jennifer Erway.
- July: 2015 ISMP "Large-Scale Nonlinear Optimization" mini-symposium organizer.
Also, speaker at "Algorithms for Large-Scale Nonlinear Optimization".
- May 22: Congratulations to Lasith Adhikari, whose paper,
"p-th power total variation regularization in photon-limited imaging via iterative reweighting," was accepted to EUSIPCO 2015.
- April 29: Congratulations to Lasith Adhikari, whose paper entitled,
"Nonconvex Reconstruction for Low-Dimensional Fluorescence Molecular Tomographic Poisson Observations," (co-authored with Dr. Dianwen Zhu and Prof. Changqing Li) was accepted to the 2015 IEEE International Conference on Image Processing.
- April 22: Poster presentation at the IEEE International Conference on Acoustics, Speech and Signal Processing in Brisbane, Australia.
- April 15: Congratulations to graduate student Johannes Brust for being accepted to the San Diego Supercomputer Center UC Graduate Student Summer Fellowship program.
- April 8: Congratulations to Lasith Adhikari for receiving the
UC Merced Graduate Student Opportunity Program Fellowship.
- April 4: Invited panelist at the Opportunities in Mathematical Sciences: A Workshop for Emerging Scholars at UC Irvine.
- March 24: Congratulations to Lasith Adhikari for passing his Qualifying Exams and advancing to Ph.D. candidacy.
- February 6: Invited seminar at the CSU Channel Islands LSAMP Program.
- January 14: Congratulations to Lasith Adhikari, whose paper entitled,
"Nonconvex relaxation for Poisson intensity reconstruction," was accepted to the 2015 IEEE International Conference on Acoustics, Speech and Signal Processing.
2014
- November 8: Invited panelist on "How to Prepare for Your First Academic Position" at the Field of Dreams Conference in Phoenix, AZ.
- October 1: EXTREEMS-QED: Data-Enabled Science and Computational Analysis Research, Training and Education for Students (DESCARTES) Program applications open (see here).
- August 15: Invited talk at the Workshop on Multiscale Modeling and Computation of Nano-Optics, Michigan State University
- August 8: Campus-wide Undergraduate Research Symposium and end of the ARCHIMEDES Summer REU Program.
- July 24: Invited lecture at the Pacific Math Alliance PUMP: Preparing Undergraduates through Mentoring at Cal Poly Pomona University.
- July 8: SIAM Annual Meeting Mini-symposium MS74: Expeditions in Training, Research, and Education for Mathematics and Statistics through Quantitative Explorations of Data. Organizer: Roummel F. Marcia
- June 9: Start of the ARCHIMEDES Summer REU Program.
- May 9: Congratulations to Math 24 Teaching Assistant, Jane Hyo Jin Lee, for receiving the 2013-14 School of Natural Sciences Outstanding Teaching Assistant Award.
2013
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