One Cell At a Time (OCAT)
OCAT: a unified framework to integrate and analyze single-cell RNA-seq data.
Related publications:
Chloe X. Wang, Lin Zhang
Bo Wang.
Genome
Biology,
2022.
Long-term mortality risk stratification of liver transplant recipients.
Real-time application of deep learning algorithms on longitudinal data.
Related publications:
Osvald Nitski, Amirhossein Azhie, Fakhar Ali Qazi-Arisar, Xueqi Wang, Shihao Ma, Leslie Lilly, Kymberly
D Watt, Josh Levitsky, Sumeet K Asrani, Douglas S Lee, Barry B Rubin, Mamatha Bhat,
Bo
Wang.
The Lancet Digital Health, 2021.
simATAC: a single-cell ATAC-seq simulation framework.
simATAC provides a robust and systematic approach to generate in silico scATAC-seq samples with
known cell labels for assessing analytical pipelines.
Related publications:
Zeinab Navidi, Lin Zhang
Bo Wang.
Genome
Biology,
2021.
COVID
Genotyper: Genotyping SARS-CoV-2 through an interactive web application
An online, user-friendly platform where researchers can compare the genome sequence of the
SARS-CoV-2 virus in their hospital against the global picture.
Related publications:
Hassaan Maan, Hamza Mbareche, Amogelang R Raphenya, Arinjay Banerjee, Jalees A Nasir, Robert A Kozak,
Natalie Knox, Samira Mubareka, Andrew G McArthur,
Bo Wang.
The Lancet
Digital Health, 2020.
SAUNet: Shape Attentive
U-Net for Interpretable Medical Image Segmentation
A new medical image segmentation architecture which focuses on model interpretability and
robustness.
Related publications:
Jesse Sun, Fatemeh Darbeha, Mark Zaidi,
Bo Wang.
MICCAI,
2020.
M3SDA:
Moment Matching for Multi-Source Domain Adaptation
Transfer knowledge learned from multiple labeled source domains to an unlabeled target domain by
dynamically aligning moments of their feature distributions.
Related publications:
Xingchao Peng, Qinxun Bai, Xide Xia, Zijun Huang, Kate Saenko,
Bo Wang.
ICCV, 2019.
SNF: Computational
method for data integration
A new computational method for data integration.
Related publications:
Bo Wang, Aziz M Mezlini, Feyyaz Demir, Marc Fiume, Zhuowen Tu, Michael Brudno, Benjamin
Haibe-Kains, Anna Goldenberg. Similarity network fusion for aggregating data types on a genomic scale.
Nature Methods,
2014.
SIMLR: Single-cell interpretation via
multi-kernel learning
A novel similarity-learning framework for dimension reduction, clustering and visualization.
Related publications:
Bo Wang, Junjie Zhu, Emma Pierson, Serafim Batzoglou. Visualization and analysis of
single-cell RNA-seq data by kernel-based similarity learning.
Nature Methods,
2017.
Bo Wang, Daniele Ramazzotti, Luca De Sano, Junjie Zhu, Emma Pierson, Serafim Batzoglou.
SIMLR: A Tool for Large‐Scale Genomic Analyses by Multi‐Kernel Learning.
Proteomics, 2018.
Vicus: Capturing neighborhood structures
of the network
Exploiting local structures to improve network-based analysis of biological data.
Related publications:
Bo Wang, Lin Huang, Yuke Zhu, Anshul Kundaje, Serafim Batzoglou, Anna Goldenberg.
Vicus: Exploiting local structures to improve network-based analysis of biological data.
PLoS Computational Biology,
2017.
Network Enhancement:
Denoising weighted biological networks
A general method to denoise weighted biological networks.
Related publications:
Bo Wang, Armin Pourshafeie, Marinka Zitnik, Junjie Zhu, Carlos D Bustamante, Serafim
Batzoglou, Jure Leskovec. Network Enhancement: a general method to denoise weighted biological networks.
Nature Communications,
2018.