Alisa Yurovsky

12 papers A* 1Journal 6Unranked 5
YearRankTypeTitle / Venue / Authors
2025 J jnl
DeepVRegulome: DNABERT-based deep-learning framework for predicting the functional impact of short genomic variants on the human regulome.
CoRR
Pratik Dutta, Matthew Obusan, Rekha Sathian, Max Chao, Pallavi Surana, Nimisha Papineni, Yanrong Ji, Zhihan Zhou, Han Liu, Alisa Yurovsky, Ramana V. Davuluri
2025 A* conf
MERGE: Multi-faceted Hierarchical Graph-based GNN for Gene Expression Prediction from Whole Slide Histopathology Images.
CVPR
Aniruddha Ganguly, Debolina Chatterjee, Wentao Huang, Jie Zhang, Alisa Yurovsky, Travis Steele Johnson, Chao Chen
2025 J jnl
PEaRL: Pathway-Enhanced Representation Learning for Gene and Pathway Expression Prediction from Histology.
CoRR
Sejuti Majumder, Saarthak Kapse, Moinak Bhattacharya, Xuan Xu, Alisa Yurovsky, Prateek Prasanna
2024 J jnl
FaStaNMF: A Fast and Stable Non-Negative Matrix Factorization for Gene Expression.
IEEE ACM Trans. Comput. Biol. Bioinform.
Michael D. Sweeney, Luke Torre-Healy, Virginia L. Ma, Margaret Hall, Lucie Chrastecka, Alisa Yurovsky, Richard A. Moffitt
2024 J jnl
MERGE: Multi-faceted Hierarchical Graph-based GNN for Gene Expression Prediction from Whole Slide Histopathology Images.
CoRR
Aniruddha Ganguly, Debolina Chatterjee, Wentao Huang, Jie Zhang, Alisa Yurovsky, Travis Steele Johnson, Chao Chen
2024 — conf
New Spatial Phenotypes from Imaging Uncover Survival Differences for Breast Cancer Patients.
BCB
Mahmudul Hasan, Ariadna Kim Silva, Shahira Abousamra, Shao-Jun Tang, Prateek Prasanna, Joel H. Saltz, Kevin Gardner, Chao Chen, Alisa Yurovsky
2024 J jnl
RankByGene: Gene-Guided Histopathology Representation Learning Through Cross-Modal Ranking Consistency.
CoRR
Wentao Huang, Meilong Xu, Xiaoling Hu, Shahira Abousamra, Aniruddha Ganguly, Saarthak Kapse, Alisa Yurovsky, Prateek Prasanna, Tahsin M. Kurç, Joel H. Saltz, Michael L. Miller, Chao Chen
2022 — conf
Statistical methodology for ribosomal frameshift detection.
BCB
Alisa Yurovsky, Justin Gardin, Bruce Futcher, Steven Skiena
2019 — conf
Pre-Phaser: Precise Cell-Cycle Phase Detector for scRNA-seq.
BCB
Alisa Yurovsky, Bruce Futcher, Steven Skiena
2018 — conf
DeepAnnotator: Genome Annotation with Deep Learning.
BCB
Mohammad Ruhul Amin, Alisa Yurovsky, Yingtao Tian, Steven Skiena
2014 J jnl
Identification and removal of low-complexity sites in allele-specific analysis of ChIP-seq data.
Bioinform.
Sebastian M. Waszak, Helena Kilpinen, Andreas R. Gschwind, Andrea Orioli, Sunil K. Raghav, Robert M. Witwicki, Eugenia Migliavacca, Alisa Yurovsky, Tuuli Lappalainen, Nouria Hernandez, Alexandre Reymond, Emmanouil T. Dermitzakis, Bart Deplancke
2010 — conf
FluRF, an automated flu virus reassortment finder based on phylogenetic trees.
BIBM
Alisa Yurovsky, Bernard M. E. Moret