One Cell At a Time (OCAT)
OCAT: a unified framework to integrate and analyze single-cell RNA-seq data.
Chloe X. Wang, Lin Zhang Bo Wang
Long-term mortality risk stratification of liver transplant recipients.
Real-time application of deep learning algorithms on longitudinal data.
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
. The Lancet Digital Health
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.
Zeinab Navidi, Lin Zhang Bo Wang
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.
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
SAUNet: Shape Attentive
U-Net for Interpretable Medical Image Segmentation
A new medical image segmentation architecture which focuses on model interpretability and
Jesse Sun, Fatemeh Darbeha, Mark Zaidi, Bo Wang
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.
Xingchao Peng, Qinxun Bai, Xide Xia, Zijun Huang, Kate Saenko, Bo Wang
method for data integration
A new computational method for data integration.
, 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.
SIMLR: Single-cell interpretation via
A novel similarity-learning framework for dimension reduction, clustering and visualization.
, Junjie Zhu, Emma Pierson, Serafim Batzoglou. Visualization and analysis of
single-cell RNA-seq data by kernel-based similarity learning. Nature Methods
, Daniele Ramazzotti, Luca De Sano, Junjie Zhu, Emma Pierson, Serafim Batzoglou.
SIMLR: A Tool for Large‐Scale Genomic Analyses by Multi‐Kernel Learning.
Vicus: Capturing neighborhood structures
of the network
Exploiting local structures to improve network-based analysis of biological data.
, 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
Denoising weighted biological networks
A general method to denoise weighted biological networks.
, Armin Pourshafeie, Marinka Zitnik, Junjie Zhu, Carlos D Bustamante, Serafim
Batzoglou, Jure Leskovec. Network Enhancement: a general method to denoise weighted biological networks.