Clustering by Passing Messages Between Data Points

Maximum Likelihood from Incomplete Data Via the EM Algorithm

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Neural networks and physical systems with emergent collective computational abilities.

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Factor graphs and the sum-product algorithm

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Clustering by fast search and find of density peaks

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WebGestalt 2019: gene set analysis toolkit with revamped UIs and APIs

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Text as Data: The Promise and Pitfalls of Automatic Content Analysis Methods for Political Texts

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Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq

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Systematic identification of genomic markers of drug sensitivity in cancer cells

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How fast-folding proteins fold

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A Comprehensive Survey of Clustering Algorithms

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Association studies of up to 1.2 million individuals yield new insights into the genetic etiology of tobacco and alcohol use

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Population genomics of Bronze Age Eurasia

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Multi-trait analysis of genome-wide association summary statistics using MTAG

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Whole-exome sequencing of pancreatic cancer defines genetic diversity and therapeutic targets

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Genetic and functional drivers of diffuse large B cell lymphoma

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Spatial organization and molecular correlation of tumor-infiltrating lymphocytes using deep learning on pathology images

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Genome-wide association analyses of risk tolerance and risky behaviors in over 1 million individuals identify hundreds of loci and shared genetic influences

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Discovery of drug mode of action and drug repositioning from transcriptional responses

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Deep Neural Networks Rival the Representation of Primate IT Cortex for Core Visual Object Recognition

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Biological interpretation of genome-wide association studies using predicted gene functions

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A synaptic organizing principle for cortical neuronal groups

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Smart Devices are Different: Assessing and MitigatingMobile Sensing Heterogeneities for Activity Recognition

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A review on neuroimaging-based classification studies and associated feature extraction methods for Alzheimer's disease and its prodromal stages

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Rare and low-frequency coding variants alter human adult height

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Genome-wide analysis of ETS-family DNA-binding in vitro and in vivo

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A dirichlet multinomial mixture model-based approach for short text clustering

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Single-Cell Transcriptomics Reveals that Differentiation and Spatial Signatures Shape Epidermal and Hair Follicle Heterogeneity

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Identification of context-dependent expression quantitative trait loci in whole blood

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C2H2 zinc finger proteins greatly expand the human regulatory lexicon

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A new clustering of antibody CDR loop conformations

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Understanding egocentric activities

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Machine learning and integrative analysis of biomedical big data

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Towards Automatic Concept-based Explanations

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NBLAST: Rapid, Sensitive Comparison of Neuronal Structure and Construction of Neuron Family Databases

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Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression

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Single‐Cell, Single‐Nucleus, and Spatial RNA Sequencing of the Human Liver Identifies Cholangiocyte and Mesenchymal Heterogeneity

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Passing Messages between Biological Networks to Refine Predicted Interactions

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Sleep-Dependent Improvement in Visuomotor Learning: A Causal Role for Slow Waves

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Identification of piRNA Binding Sites Reveals the Argonaute Regulatory Landscape of the C. elegans Germline

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Non-maximum Suppression for Object Detection by Passing Messages Between Windows

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Integrative analysis of RNA, translation, and protein levels reveals distinct regulatory variation across humans

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XPO1-dependent nuclear export is a druggable vulnerability in KRAS-mutant lung cancer

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Promptify: Text-to-Image Generation through Interactive Prompt Exploration with Large Language Models

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Indoor Tracking and Navigation Using Received Signal Strength and Compressive Sensing on a Mobile Device

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Sharing and Specificity of Co-expression Networks across 35 Human Tissues

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Untitled work

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How do Humans Understand Explanations from Machine Learning Systems? An Evaluation of the Human-Interpretability of Explanation

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Design of efficient computational workflows for in silico drug repurposing

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Chemistry-First Approach for Nomination of Personalized Treatment in Lung Cancer

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An Evaluation of the Human-Interpretability of Explanation

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Cell cycle-resolved chromatin proteomics reveals the extent of mitotic preservation of the genomic regulatory landscape

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A distinct p53 target gene set predicts for response to the selective p53–HDM2 inhibitor NVP-CGM097

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Human Activity Recognition Based on Dynamic Active Learning

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Metabolomics-Driven Exploration of the Chemical Drug Space to Predict Combination Antimicrobial Therapies

Campos, A. I., & Zampieri, M. (2019) · Molecular Cell · doi:10.1016/j.molcel.2019.04.001 · Cited by 79

Using deep learning to predict anti-PD-1 response in melanoma and lung cancer patients from histopathology images

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A multi-modal, multi-atlas-based approach for Alzheimer detection via machine learning

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Investment Behaviors Can Tell What Inside: Exploring Stock Intrinsic Properties for Stock Trend Prediction

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Parkmaster: an in-vehicle, edge-based video analytics service for detecting open parking spaces in urban environments

Grassi, G., Jamieson, K., Bahl, P., & Pau, G. (2017) · Proceedings of the Second ACM/IEEE Symposium on Edge Computing · doi:10.1145/3132211.3134452 · Cited by 73

Development of Microstructural and Morphological Cortical Profiles in the Neonatal Brain

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Development of cortical anatomical properties from early childhood to early adulthood

Nie, J., Li, G., & Shen, D. (2013) · NeuroImage · doi:10.1016/j.neuroimage.2013.03.021 · Cited by 70

A model-based assessment of reef larvae dispersal in the Western Indian Ocean reveals regional connectivity patterns — Potential implications for conservation policies

Crochelet, E., Roberts, J., Lagabrielle, E., Obura, D., Petit, M., & Chabanet, P. (2016) · Regional Studies in Marine Science · doi:10.1016/j.rsma.2016.06.007 · Cited by 62

Mathematical Language Processing: Automatic Grading and Feedback for Open Response Mathematical Questions

Lan, A. S., Vats, D., Waters, A. E., & Baraniuk, R. G. (2015) · Proceedings of the Second (2015) ACM Conference on Learning @ Scale · doi:10.1145/2724660.2724664 · Cited by 60

Aberrant Calcium Signaling in Astrocytes Inhibits Neuronal Excitability in a Human Down Syndrome Stem Cell Model

Mizuno, G. O., Wang, Y., Shi, G., Wang, Y., Sun, J., Papadopoulos, S., Broussard, G. J., Unger, E. K., Deng, W., Weick, J., et al. (2018) · Cell Reports · doi:10.1016/j.celrep.2018.06.033 · Cited by 58

Global proteomic analyses define an environmentally contingent Hsp90 interactome and reveal chaperone-dependent regulation of stress granule proteins and the R2TP complex in a fungal pathogen

O’Meara, T. R., O’Meara, M. J., Polvi, E. J., Pourhaghighi, M. R., Liston, S. D., Lin, Z.-Y., Veri, A. O., Emili, A., Gingras, A.-C., & Cowen, L. E. (2019) · PLoS Biology · doi:10.1371/journal.pbio.3000358 · Cited by 49

Adaptive performance anomaly detection for online service systems via pattern sketching

Chen, Z., Liu, J., Su, Y., Zhang, H., Ling, X., Yang, Y., & Lyu, M. R. (2022) · Proceedings of the 44th International Conference on Software Engineering · doi:10.1145/3510003.3510085 · Cited by 52

A structural approach reveals how neighbouring C2H2 zinc fingers influence DNA binding specificity

Garton, M., Najafabadi, H. S., Schmitges, F. W., Radovani, E., Hughes, T. R., & Kim, P. M. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv919 · Cited by 48

Capturing One of the Human Gut Microbiome’s Most Wanted: Reconstructing the Genome of a Novel Butyrate-Producing, Clostridial Scavenger from Metagenomic Sequence Data

Jeraldo, P., Hernandez, A., Nielsen, H. B., Chen, X., White, B. A., Goldenfeld, N., Nelson, H., Alhquist, D., Boardman, L., & Chia, N. (2016) · Frontiers in Microbiology · doi:10.3389/fmicb.2016.00783 · Cited by 38

Deep learning prediction of chemical-induced dose-dependent and context-specific multiplex phenotype responses and its application to personalized alzheimer’s disease drug repurposing

Wu, Y., Liu, Q., Qiu, Y., & Xie, L. (2022) · PLOS Computational Biology · doi:10.1371/journal.pcbi.1010367 · Cited by 34

Abstractive Timeline Summarization

Steen, J., & Markert, K. (2019) · Proceedings of the 2nd Workshop on New Frontiers in Summarization · doi:10.18653/v1/d19-5403 · Cited by 34

Accurate prediction of protein thermodynamic stability changes upon residue mutation using free energy perturbation

Scarabelli, G., Oloo, E. O., Maier, J. K. X., & Rodriguez-Granillo, A. (2022) · Journal of Molecular Biology · doi:10.1016/j.jmb.2021.167375 · Cited by 33

Disease Module Identification Based on Representation Learning of Complex Networks Integrated From GWAS, eQTL Summaries, and Human Interactome

Wang, T., Peng, Q., Liu, B., Liu, Y., & Wang, Y. (2020) · Frontiers in Bioengineering and Biotechnology · doi:10.3389/fbioe.2020.00418 · Cited by 27

Improved computational epitope profiling using structural models identifies a broader diversity of antibodies that bind to the same epitope

Spoendlin, F. C., Abanades, B., Raybould, M. I. J., Wong, W. K., Georges, G., & Deane, C. M. (2023) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2023.1237621 · Cited by 26

Spatial Semantic Regularisation for Large Scale Object Detection

Mrowca, D., Rohrbach, M., Hoffman, J., Hu, R., Saenko, K., & Darrell, T. (2015) · 2015 IEEE International Conference on Computer Vision (ICCV) · doi:10.1109/iccv.2015.232 · Cited by 20

Learning Invariant Representations of Social Media Users

Andrews, N., & Bishop, M. (2019) · Proceedings of the 2019 Conference on Empirical Methods in Natural Language Processing and the 9th International Joint Conference on Natural Language Processing (EMNLP-IJCNLP) · doi:10.18653/v1/d19-1178 · Cited by 19

3D object pose detection using foreground/background segmentation

Petit, A., Marchand, E., Sekkal, R., & Kanani, K. (2015) · 2015 IEEE International Conference on Robotics and Automation (ICRA) · doi:10.1109/icra.2015.7139440 · Cited by 13

Context in Photo Albums: Understanding and Modeling User Behavior in Clustering and Selection

Kuzovkin, D., Pouli, T., Meur, O. L., Cozot, R., Kervec, J., & Bouatouch, K. (2019) · ACM Transactions on Applied Perception · doi:10.1145/3333612 · Cited by 10

Population-scale proteome variation in human induced pluripotent stem cells

Mirauta, B. A., Seaton, D. D., Bensaddek, D., Brenes, A., Bonder, M. J., Kilpinen, H., HipSci Consortium, Stegle, O., & Lamond, A. I. (2018) · doi:10.1101/439216 · Cited by 10

Nonparametric discovery of movement patterns from accelerometer signals

Nguyen, T., Gupta, S., Venkatesh, S., & Phung, D. (2016) · Pattern Recognition Letters · doi:10.1016/j.patrec.2015.11.003 · Cited by 8

A scalable transfer learning workflow for extracting biological and behavioural insights from forest elephant vocalizations

Pickering, A., Martinez Balvanera, S., Jones, K. E., & Hedwig, D. (2025) · Remote Sensing in Ecology and Conservation · doi:10.1002/rse2.70008 · Cited by 5

Relationship between genotype and arcuate fasciculus morphology in six young children with global developmental delay: Preliminary DTI stuy: Genotype and Language Tract Morphology

Jeong, J.-W., Sundaram, S., Behen, M. E., & Chugani, H. T. (2016) · Journal of Magnetic Resonance Imaging · doi:10.1002/jmri.25306 · Cited by 5

Neural circuits for valence updating in social memory

Suto, N., Wang, M.-Y., Morikawa, S., Chung, M., Tao, K., Huang, Z., Ikegaya, Y., Takeuchi, H., Kira, S., & Okuyama, T. (2026) · Science · doi:10.1126/science.adx8231 · Cited by 3

Validation and tuning of in situ transcriptomics image processing workflows with crowdsourced annotations

Vo-Phamhi, J. M., Yamauchi, K. A., & Gómez-Sjöberg, R. (2021) · PLOS Computational Biology · doi:10.1371/journal.pcbi.1009274 · Cited by 1