Lab Updates
February 2023:
Pinar Demetci presents our collaboration work, titled Unbalanced CO-Optimal Transport, as a selected poster at AAAI.
January 2023:
Alex Le is awarded the UTRA fellowship for Spring ’23 to work on single-cell modeling research in the lab.
November 2022:
Singh lab at MLCB this year! Pinar Demetci presents our work, Jointly aligning cells and genomic features of single-cell multi-omics data with co-optimal transport, as a selected talk. Michal Golovanevsky (Multimodal Attention-based Deep Learning for Alzheimer’s Disease Diagnosis) and Ghulam Murtaza (GrapHiC: An integrative graph-based approach for imputing missing Hi-C reads.) present their works as selected posters.
Atishay Jain presents our work, titled Scalable and memory efficient segmentation of large microscopy images using graph-based neural networks, as a selected talk, and Pinar Demetci presents our work, titled Simultaneous alignment of cells and genomic features of single-cell multi-omics datasets with co-optimal transport, as a selected poster at the Biological Data Science workshop at Cold Spring Harbor Laboratory.
Dr. Singh is featured in the Cell Systems Voices segment – “What are the keys to succeeding as a computational biologist in today’s research climate?” (Invited Opinion)
October 2022:
Dr. Singh presents the lab research at the Biomedical Informatics Seminar Series at Columbia University (Invited Talk).
Dr. Singh presents our work on single-cell alignment using optimal transport at the Pattern Theory Seminar at the Division of Applied Mathematics, Brown University (Invited Talk).
Dr. Singh presents the lab research at the Department of Computational Medicine & Bioinformatics Seminar at the University of Michigan, Ann Arbor (Invited Talk).
September 2022:
Dr. Singh presents the lab research at the Biomedical Informatics Lecture Series hosted at the University of Pittsburgh (Invited Talk).
Ghulam Murtaza successfully passes his CS Comps Defense and advances to candidacy. Congratulations Murtaza! 🙂
Tassallah (Amina) Abdullahi is awarded the prestigious 2022 ACM SIGHPC Computational and Data Science Fellowship. She is one of the 11 winners announced nationwide for this year (article). Congratulations Amina! 🙂
August 2022:
Pinar Demetci is selected for the prestigious Rising Stars in EECS program. Congratulations Pinar! 🙂
Dr. Singh participates in the NSF MODULUS workshop at George Mason University (Invited).
The lab receives funding through the multi-institutional NSF Biology Integration Institutes (BII) grant, with Dr. Singh as one of the participating investigators. (article)
July 2022:
Michal Golovanevsky is selected for the NIH-funded T32 Predoctoral Training Program in Biological Data Science, administered through CCMB. Congratulations Michal! 🙂
Dr. Singh attends the Scientific Communication Advances Research Excellence (SCOARE) workshop to learn best practices and strategies for helping trainees develop their scientific speaking and writing skills.
June 2022:
Jeremy Bigness successfully defends his Ph.D. thesis, “Using Deep Learning to Elucidate the Spatial Regulation and Temporal Dynamics of Gene Expression”. Congratulations Dr. Jeremy! 🙂
Dr. Singh presents the lab research on deep learning and genomics at the BIRS workshop on Deep Learning for Genetics, Genomics and Metagenomics: Latest developments and New Directions hosted by UBC Okanagan (Invited Talk).
Dr. Singh presents the lab research related to single-cell alignment at the Optimal Transport: Theory, Computation, and Biology workshop hosted by UC Irvine (Invited Talk).
May 2022:
Pinar Demetci presents our paper, titled “Unsupervised integration of single-cell multi-omics datasets with disparities in cell-type representation“, at RECOMB 2022.
Dr. Singh discusses navigating STEM as a woman with undergraduate students as part of the WiSE Speaker Series (Spring 2022) at Brown.
Hossam Zaki, Jordan Idehen, and Muhammad Haider Asif successfully present their CS Honors theses at the 2022 CS Research Symposium.
Justin Sanders wins the Computational Biology outstanding graduating senior award for his honors thesis. Congratulations Justin! 🙂
Lucas Paulo de Lima Camillo and our AltumAge work get featured in a popular Brazillian newspaper (article in Portuguese).
April 2022:
Jiaqi Zhang, Atishay Jain, Michal Golovanevsky, and Amina Abdullahi (names listed in order of presentations) successfully achieve the first milestone of their Ph.D. – passing their CS Research Comp Proposal.
Pinar Demetci receives a travel fellowship for RECOMB 2022.
Dr. Singh successfully completes the Sheridan Center Junior Faculty Teaching Fellows program at Brown.
March 2022:
Dr. Singh presents the lab research at the NE-TRIPODS event at Tufts University (Invited Talk).
February 2022:
Rebecca Santorella successfully defends her Ph.D. thesis “Data-Driven Mathematical Analysis with Applications in Dynamical Systems, Biology, and Social Justice”. Congratulations Dr. Rebecca! 🙂
Dr. Singh presents the lab research at the 3rd IBSE International Symposium hosted by IIT Madras (Invited Talk).
January 2022:
Nitya Thakkar receives an honorable mention for the CRA Outstanding Undergraduate Researcher Award 2022. Congratulations Nitya! 🙂
Madeline Hughes is awarded the UTRA fellowship for Spring ’22 to work on 3D spatial genome-related research in the lab.
November 2021:
Pinar Demetci presents our paper, titled “Unsupervised integration of single-cell multi-omics datasets with disparities in cell-type representation“, at Machine Learning in Computational Biology (MLCB) 2021.
October 2021:
Dr. Singh is awarded the 2021 NHGRI Genomic Innovator Award, an early-career grant providing flexible 5-year funding to develop our lab’s research program. (article)
September 2021:
Camillo Saueressig presents our paper, titled “A Joint Graph and Image Convolution Network for Automatic Brain Tumor Segmentation“, at RSNA-MICCAI 2021 (BraTS Challenge) as a poster presentation.
Dr. Singh presents our lab research using graph-based neural networks at NIST (Invited Talk).
Adam Berkley presents our work on the applicability of deep learning models to clinical MRI data at the Conference on Machine Intelligence in Medical Imaging Opportunities (CMIMI 2021).
August 2021:
Pinar Demetci and Rebecca Santorella present our paper, titled “Gromov-Wasserstein optimal transport to align single-cell multi-omics data.”, at the International Conference on Research in Computational Molecular Biology (RECOMB) 2021.
The lab receives 1-year funding through the NIST PREP program to develop computationally efficient deep learning models for the segmentation of neutron tomography images.
The lab receives 3-year funding through the COBRE CBHD Phase 2 Renewal grant with Dr. Singh as one of the Project Leaders.
Dr. Singh presents our paper, titled “Integrating long-range regulatory interactions to predict gene expression using graph convolutional neural networks“, at Virtual North East Regional IDeA Conference (v-NERIC) (Invited Talk).
Hossam Zaki and Thulasi Varatharajan present their summer research projects at the Brown Undergraduate Research Symposium
July 2021:
Thulasi Varatharajan presents her summer research on Hi-C resolution improvement methods at the 2021 Virtual Leadership Alliance National Symposium
May 2021:
Pinar Demetci passes her Ph.D. Qualifying Exam with flying colors and advances to candidacy. Congratulations Pinar! 🙂
Ghulam Murtaza successfully achieves the first milestone of his Ph.D. – passing his CS Research Comp Proposal.
April 2021:
Lucas Paulo de Lima Camillo receives Leallyn B. Clapp Prize for Outstanding Senior Honors Thesis in Biochemistry. Congratulations Lucas! 🙂
Hossam Zaki is awarded the UTRA fellowship for Summer ’21 to work on single-cell related research in the lab.
March 2021:
Dr. Singh presents the lab research at Providence College Math & CS colloquium (Invited Talk).
Dr. Singh is awarded the Richard B. Salomon Faculty Research Award for modeling single-cell datasets using deep learning methods (article).
February 2021:
Pinar Demetci successfully achieves the first milestone of her Ph.D. – an exploratory meeting with the committee for her Ph.D. proposal.
Dr. Singh presents the lab research at Brown DSI’s Faculty for Faculty Talk Series.
January 2021:
Jeremy Bigness presents our paper, titled “Integrating long-range regulatory interactions to predict gene expression using graph convolutional neural networks“, as a lightning talk at the Annual ENCODE Consortium Meeting.
December 2020:
Rebecca Santorella is awarded the student travel fellowship and presents our paper, titled “Gromov-Wasserstein optimal transport to align single-cell multi-omics data.”, at Computational Advances for Single-Cell Omics Data Analysis (CASCODA) Workshop.
Ishaani Khatri is awarded the UTRA fellowship for Spring ’21 to work on developing data-driven methods for predicting intracranial hypertension in neonatal patients from MRI scans.
November 2020:
Pinar Demetci presents our paper, titled “Gromov-Wasserstein optimal transport to align single-cell multi-omics data.”, at Machine Learning in Computational Biology (MLCB) 2020. (15% acceptance for oral presentations)
Jeremy Bigness passes his Ph.D. Qualifying Exam with flying colors and advances to candidacy. Congratulations Jeremy! 🙂
October 2020:
Camillo Saueressig presents our paper, titled “Exploring graph-based neural networks for automatic brain tumor segmentation“, at DataMod 2020.
Dr. Singh participates in the “Multidisciplinary Approaches to Computer Science Research” panel for Brown’s hack@home event.
September 2020:
Dr. Singh presents our paper, titled “Unsupervised manifold alignment for single-cell multi-omics data” at the ACM-BCB 2020.
Dr. Singh gets featured in the Brown University Graduate Women/Womxn in STEM’s campaign #thisiswhatascientistlookslike. (read the full interview here)
July 2020:
Pinar Demetci and Rebecca Santorella present our paper, titled “Gromov-Wasserstein optimal transport to align single-cell multi-omics data.”, as spotlight talks and posters at ISMB MLCSB 2020 and ICML Workshop on Computational Biology (ICML WCB) 2020.
Pinar receives a fellowship award at ICML WCB and Rebecca wins the Best Poster Presentation Award.
June 2020:
Dr. Singh co-organizes the first ever Brown Unconference, a Brown-only virtual conference on machine learning and data science to foster collaboration across different application domains.
The lab has a strong presence at the Brown Unconference with student presentations from Adam Berkley, Camillo Saueressig, Jeremy Bigness, Pinar Demetci, and Shalin Patel.
Lucas Paulo de Lima Camillo receives the SPRINT award for Summer ’20 to investigate the role of methylation in aging using machine learning.
April 2020:
Jeremy Bigness successfully achieves the first milestone of his Ph.D. – an exploratory meeting with the committee for his proposal.
The lab is awarded the Brown COVID-19 Seed Award with Dr. Singh as a Co-PI (article).
Sally Zhi is awarded the UTRA fellowship for Summer ’20 to work on integrating clinical datasets for Glioblastoma.
January 2020:
Dr. Singh is awarded the COBRE CBHD Institutional Pilot Award for investigating long-range genomic regulation using deep learning models.
Dr. Singh joins the ENCODE Consortium as an affiliate member.
September 2019:
Singh Lab @ Brown is established with Jeremy Bigness as the first student member (article).
Dr. Singh is the top 50% highest-scoring reviewer at NeurIPS 2019.
Singh lab @ Brown 