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Genome Research|April 15, 2026
Epigenetic characterization of pseudogenes across human tissuesYunzhe Jiang, Beatrice Borsari, Mark Gerstein
Nature Communications|August 19, 2025
The chronODE framework for modelling multi-omic time series with ordinary differential equations and machine learningBeatrice Borsari, Mor Frank, Eve S Wattenberg, et al.
Genome Biology|February 14, 2026
Predicting disease-specific histone modifications and functional effects of non-coding variants by leveraging DNA language modelsXiaoyu Wang, Tong Pan, Sihan Chen, et al.
Bioinformatics (Oxford, England)|January 6, 2026
ASTRO: Automated Spatial-Transcriptome whole RNA OutputDingyao Zhang, Zhiyuan Chu, Yiran Huo, et al.
Langmuir : the ACS Journal of Surfaces and Colloids|December 21, 2020
Photoswitchable Metal-Organic Framework Thin Films: From Spectroscopy to Remote-Controllable Membrane Separation and Switchable ConductionYunzhe Jiang, Lars Heinke
Bioinformatics (Oxford, England)|January 15, 2011
AGE: defining breakpoints of genomic structural variants at single-nucleotide resolution, through optimal alignments with gap excisionAlexej Abyzov, Mark Gerstein
BMC Bioinformatics|January 13, 2004
Using 3D Hidden Markov Models that explicitly represent spatial coordinates to model and compare protein structuresVadim Alexandrov, Mark Gerstein
Proteins|March 30, 2004
A method using active-site sequence conservation to find functional shifts in protein families: application to the enzymes of central metabolism, leading to the identification of an anomalous isocitrate dehydrogenase in pathogensRajdeep Das, Mark Gerstein
Current Opinion in Microbiology|September 29, 2004
Analyzing protein function on a genomic scale: the importance of gold-standard positives and negatives for network predictionRonald Jansen, Mark Gerstein
Bioinformatics (Oxford, England)|July 25, 2024
Representing core gene expression activity relationships using the latent structure implicit in Bayesian networksJiahao Gao, Mark Gerstein
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