2024
July 2024. We hold two workshops titled “Introduction to Bioinformatics” for high school students through Uconn Pre-College Summer program.
June 2024. Congratulations to Samson! his paper titled “Improved allele-specific single-cell copy number estimation in low-coverage DNA-sequencing” has been accepted for publication in the Bioinformatics journal.
May 2024. Congratulations to Bingjun, Samson, Sahand, Masum, Mostafa and Josue for receiving our department fellowships! Bingjun, Samson, and Josue received Predoctoral Fellowships; Sahand and Masum received Predoctoral Fellowship Rewards; and Mostafa received Professor Reda Ammar Fellowship in Computer Science and Engineering fellowships.
May 2024. Congratulations to Jun for her PhD! We celebrate her graduation!
April 2024. Congratulations to Jun, her paper on unsupervised tumor localization using current and prior mammogram is published in Computerized Medical Imaging and Graphics journal, https://doi.org/10.1016/j.compmedimag.2024.102341.
2023
October 2023. Congratulations to Bingjun! His paper titled “Contrastive Learning in Single-cell Multiomics Clustering,” is accepted fro presentation at the 2024 IEEE BIBM conference (https://doi.org/10.1145/3584371.3613010)
August 2023. Welcome to Mostafa! He joined our group as a PhD student. He works on analyzing single cell sequencing data and images.
August 2023. Congratulations to Masum! his paper titled “A Scaled Denoising Attention-based Transformer for Breast Cancer Detection and Classification,” is accepted for presentation at the MICCAI 2023, 14th workshop on Machine Learning in Medical Imaging (MLMI 2023).
July 2023. Congratulations to Sahand and Jun! Their paper titled “3D Biological/Biomedical Image Registration with enhanced Feature Extraction and Outlier Detection” is accepted for presentation At 2023 ACM-BCB conference.
July 2023. Congratulations to Bingjun! His abstract titled “Contrastive Learning in Single-cell Multiomics Clustering,” is accepted at the 2023 ACM-BCB conference as poster presentation.
June 2023. Masum join our group for his PhD study. He is working on analyzing biomedical images. Welcome Masum!
May 2023. Congratulations to Josue! his paper titled “Addressing Vulnerability in Medical Deep Learning through Robust Training,” is accepted for presentation at the 2023 IEEE Conference on Artificial Intelligence (CAI).
May 2023. Congratulations to Jun, Bingjun and Josue! Jun received the Taylor L. Booth Graduate Fellowship (2023) that is the highest honor for doctoral students and Bingjun and Josue received Predoctoral Fellowship for outstanding scholars and research accomplishment.
April 2023. Congratulation to Jun! she defended her PhD thesis! Well done Jun! We will miss her! She will join University of Cincinnati as an Assistant professor.
January 2023. Welcome to Sahand and Afsana! They joined our research group as PhD student. Sahand works on analyzing multiplex Brian microscopy images and Afsana works on analyzing 2D and 3D images.
2022
December 2022. Congratulations to Jun! Her abstract titled “Unsupervised feature correlation network for localizing breast cancer using history of mammograms,” was accepted for poster presentation for the Medical Imaging meets NeurIPS workshop, at the NeurIP 2022 conference (https://nips.cc/media/PosterPDFs/NeurIPS%202022/63501.png?t=1668797609.0550115).
March 2022. Congratulations to Jun and Tianyu! Their paper titled “Feature fusion Siamese network for breast cancer detection comparing current and prior mammograms” is published in the Medical Physics journal (https://doi.org/10.1002/mp.15598).
March 2022. Our book chapter titled “Identification of Copy Number Alterations from Next-Generation Sequencing Data” as part of the Computational Methods for Precision Oncology book (https://doi.org/10.1007/978-3-030-91836-1_4) is published.
2021
August 2021. Congratulations to Tianyu! She defended her PhD. Currently she is a Research Scientist at Meta!
June 2021. Congratulations to Bingjun and Tianyu! their paper titled “Cancer Molecular Subtype Classification by Graph Convolutional Networks on Multi-omics Data” was accepted for publication in the ACM BCB 2021 conference.
May 2021. Congratulations to Tianyu and Jun! Tianyu received the Taylor L. Booth Graduate Fellowship (2019) that is the highest honor for doctoral students and Jun received Predoctoral Fellowship for outstanding scholars and research. accomplishment.
March 2021. Congratulations to Jun! Her paper titled “Applying deep learning in digital breast tomosynthesis for automatic breast cancer detection: A review” was published in the Medical Image Analysis Journal (https://doi.org/10.1016/j.media.2021.102049).
2020
September 2020. Congratulations to Fatima! She defended her PhD. She will join Harvard School of Public Health as a postdoctoral fellow.
August 2020. Welcome Bingjun Li! He joined our team. He is working on integrating multi comics data employing statistical deep learning models.
July 2020. Congratulations to Fatima! Her paper on employing deep learning for pancancer molecular subtype classification using histopathological images and RNAseq data has been accepted in the ACM-BCB 2020 conference.
May 2020. Congratulations to Fatima and Tianyu! They received Predoctoral Fellowship for outstanding scholars and research accomplishment.
February 2020. Congratulations to Tianyu! She defended her PhD proposal. The title of her PhD thesis is Computational Methods for Single-cell RNA Sequencing Data Analysis.
January 2020. Congratulations to Dina! She defended her PhD. She is my first PhD graduate.
2019
December 2019. Congratulations to Fatima! she defended her PhD proposal. The title of her PhD thesis is “Developing Novel Copy Number Variation Detection Methods using Emerging Sequencing Data.”
November 2019. Tianyu presented her research on imputation methods for single cell RNA sequencing data, titled : Single-cell RNAseq Imputation Based on Matrix Completion with Side Information, at IEEE BIBM conference. I also presented our recent research on developing computational methods for analyzing single cell sequencing data as an invited talk at the IEEE BIBM conference.
September 2019. Welcome June Bai! She joined our team, working on deep learning models for biomedical image analysis and genomic data analysis.
August 2019. Congratulations to Tom! He graduated in May and joined Broad institute as a computational biologist.
June 2019. Congratulations to Dina! She defended her PhD proposal. The title of her thesis is “Deep Learning Systems for Automated Lesion Detection, Segmentation, and Classification in Mammography.”
June 2019. Congratulations to Dina and Fatima! Dina paper on residual deep learning for mass segmentation and classification in mammogram images is accepted for oral presentation at ACM-BCB 2019 conference (doi>10.1145/3307339.3342157). Fatima paper on CNV detection using Taut String is also accepted for oral presentation at the ACM-BCB 2019 conference (doi>10.1145/3307339.3342181).
May 2019. Congratulations to Dina, Fatima and Tianyu! Dina and Tianyu received Predoctoral Fellowship for outstanding scholars and research accomplishment. Fatima received Predoctoral Price for Research Excellent award for outstanding research accomplishment.
January 2019. Congratulations to Tianyu! her paper on comparative analysis of differential gene expression analysis tools for single cell sequencing data is published in BMC Bioinformatics (https://doi.org/10.1186/s12859-019-2599-6).
2018
