CisMols Analyzer: identification of compositionally similar cis-element clusters in ortholog conserved regions of coordinately expressed genes. - Anil G. Jegga; Ashima Gupta; Sivakumar Gowrisankar; Mrunal A. Deshmukh; Steven Connolly; Kevin Finley; Bruce J. Aronow (Nucleic Acids Res., 2005)

Improved human disease candidate gene prioritization using mouse phenotype. - Jing Chen 021; Huan Xu; Bruce J. Aronow; Anil G. Jegga (BMC Bioinform., 2007)

Bayesian hierarchical model for transcriptional module discovery by jointly modeling gene expression and ChIP-chip data. - Xiangdong Liu; Walter J. Jessen; Siva Sivaganesan; Bruce J. Aronow; Mario Medvedovic (BMC Bioinform., 2007)

GenomeTrafac: a whole genome resource for the detection of transcription factor binding site clusters associated with conventional and microRNA encoding genes conserved between mouse and human gene orthologs. - Anil G. Jegga; Jing Chen 021; Sivakumar Gowrisankar; Mrunal A. Deshmukh; Ranga Chandra Gudivada; Sue Kong; Vivek Kaimal; Bruce J. Aronow (Nucleic Acids Res., 2007)

PolyDoms: a whole genome database for the identification of non-synonymous coding SNPs with the potential to impact disease. - Anil G. Jegga; Sivakumar Gowrisankar; Jing Chen 021; Bruce J. Aronow (Nucleic Acids Res., 2007)

Identifying disease-causal genes using Semantic Web-based representation of integrated genomic and phenomic knowledge. - Ranga Chandra Gudivada; Xiaoyan A. Qu; Jing Chen 021; Anil G. Jegga; Eric K. Neumann; Bruce J. Aronow (J. Biomed. Informatics, 2008)

Disease candidate gene identification and prioritization using protein interaction networks. - Jing Chen 021; Bruce J. Aronow; Anil G. Jegga (BMC Bioinform., 2009)

Correction: Disease candidate gene identification and prioritization using protein interaction networks. - Jing Chen 021; Bruce J. Aronow; Anil G. Jegga (BMC Bioinform., 2009)

Inferring novel disease indications for known drugs by semantically linking drug action and disease mechanism relationships. - Xiaoyan A. Qu; Ranga Chandra Gudivada; Anil G. Jegga; Eric K. Neumann; Bruce J. Aronow (BMC Bioinform., 2009)

ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. - Jing Chen 021; Eric E. Bardes; Bruce J. Aronow; Anil G. Jegga (Nucleic Acids Res., 2009)

Integrating neighbor clustering, coexpression clustering and subsystems analysis to define dynamic changes in regulatory networks associated with group A streptococcal sociomicrobiology and niche adaptation. - Ramy K. Aziz; Bruce J. Aronow; William L. Taylor; Sarah Rowe; Rita Kansal; Mark J. Walker; Malak Kotb (BMC Bioinform., 2010)

ToppCluster: a multiple gene list feature analyzer for comparative enrichment clustering and network-based dissection of biological systems. - Vivek Kaimal; Eric E. Bardes; Scott C. Tabar; Anil G. Jegga; Bruce J. Aronow (Nucleic Acids Res., 2010)

PhenoHM: human-mouse comparative phenome-genome server. - Divya Sardana; Suresh Vasa; Nishanth Vepachedu; Jing Chen 021; Ranga Chandra Gudivada; Bruce J. Aronow; Anil G. Jegga (Nucleic Acids Res., 2010)

A Biclustering Algorithm to Discover Functional Modules from ENCODE ChIP-Seq Data. - Chao Wu; Arjun Bakshi; Bruce J. Aronow; Anil G. Jegga; Raj Bhatnagar (ICDM Workshops, 2013)

Computational drug repositioning through heterogeneous network clustering. - Chao Wu; Ranga Chandra Gudivada; Bruce J. Aronow; Anil G. Jegga (BMC Syst. Biol., 2013)

Comparative study on feature descriptors for brain image analysis. - Kazuhiko Tamaki; Kiichi Fukuma; Hiroharu Kawanaka; Haruhiko Takase; Shinji Tsuruoka; Bruce J. Aronow; Shikha Chaganti (SCIS&ISIS, 2014)

The International Society of Computational Biology presents: the Great Lakes Bioinformatics Conference, May 16-18, 2014, Cincinnati, Ohio. - Jim Cavalcoli; Lonnie R. Welch; Bruce J. Aronow; Sorin Draghici; Daisuke Kihara (Bioinform., 2014)

ToppMiR: ranking microRNAs and their mRNA targets based on biological functions and context. - Chao Wu; Eric E. Bardes; Anil G. Jegga; Bruce J. Aronow (Nucleic Acids Res., 2014)

Cell nuclei segmentation in glioma histopathology images with color decomposition based active contours. - V. B. Surya Prasath; Kiichi Fukuma; Bruce J. Aronow; Hiroharu Kawanaka (BIBM, 2015)

Feature extraction and disease stage classification for Glioma histopathology images. - Kiichi Fukuma; Hiroharu Kawanaka; V. B. Surya Prasath; Bruce J. Aronow; Haruhiko Takase (HealthCom, 2015)

A study on feature extraction and disease stage classification for Glioma pathology images. - Kiichi Fukuma; V. B. Surya Prasath; Hiroharu Kawanaka; Bruce J. Aronow; Haruhiko Takase (FUZZ-IEEE, 2016)

A Study on Nuclei Segmentation, Feature Extraction and Disease Stage Classification for Human Brain Histopathological Images. - Kiichi Fukuma; V. B. Surya Prasath; Hiroharu Kawanaka; Bruce J. Aronow; Haruhiko Takase (KES, 2016)

Session Introduction. - Alexander A. Morgan; Sean D. Mooney; Bruce J. Aronow; Steven E. Brenner (PSB, 2016)

Single-cell analysis of mixed-lineage states leading to a binary cell fate choice. - Andre Olsson; Meenakshi Venkatasubramanian; Viren K. Chaudhri; Bruce J. Aronow; Nathan Salomonis; Harinder Singh; H. Leighton Grimes (Nat., 2016)

Improving the generalization of disease stage classification with deep CNN for Glioma histopathological images. - Asami Yonekura; Hiroharu Kawanaka; V. B. Surya Prasath; Bruce J. Aronow; Haruhiko Takase (BIBM, 2017)

Session Introduction. - Alexander A. Morgan; Dana C. Crawford; Joshua C. Denny; Sean D. Mooney; Bruce J. Aronow; Steven E. Brenner (PSB, 2017)

Session Introduction. - Dana C. Crawford; Alexander A. Morgan; Joshua C. Denny; Bruce J. Aronow; Steven E. Brenner (PSB, 2018)

Multi-Class Segmentation of Lung Immunofluorescence Confocal Images Using Deep Learning. - Shu Isaka; Hiroharu Kawanaka; Bruce J. Aronow; V. B. Surya Prasath (BIBM, 2019)

Ontology-guided segmentation and object identification for developmental mouse lung immunofluorescent images. - Anna Maria Masci; Scott White; Ben Neely; Maryanne Ardini-Polaske; Carol B. Hill; Ravi S. Misra; Bruce J. Aronow; Nathan Gaddis; Lina Yang; Susan E. Wert; Scott M. Palmer; Cliburn Chan (BMC Bioinform., 2021)

CellDrift: inferring perturbation responses in temporally sampled single-cell data. - Kang Jin; Daniel J. Schnell; Guangyuan Li; Nathan Salomonis; V. B. Surya Prasath; Rhonda Szczesniak; Bruce J. Aronow (Briefings Bioinform., 2022)

Data Augmentation Using Generative Adversarial Networks for Multi-Class Segmentation of Lung Confocal IF Images. - Daiki Katsuma; Hiroharu Kawanaka; V. B. Surya Prasath; Bruce J. Aronow (J. Adv. Comput. Intell. Intell. Informatics, 2022)

International electronic health record-derived post-acute sequelae profiles of COVID-19 patients. - Harrison G. Zhang; Arianna Dagliati; Zahra Shakeri Hossein Abad; Xin Xiong; Clara-Lea Bonzel; Zongqi Xia; Bryce W. Q. Tan; Paul Avillach; Gabriel A. Brat; Chuan Hong; Michele Morris; Shyam Visweswaran; et al. (npj Digit. Medicine, 2022)

Informative missingness: What can we learn from patterns in missing laboratory data in the electronic health record? - Amelia L. M. Tan; Emily J. Getzen; Meghan R. Hutch; Zachary H. Strasser; Alba Gutiérrez-Sacristán; Trang T. Le; Arianna Dagliati; Michele Morris; David A. Hanauer; Bertrand Moal; Clara-Lea Bonzel; William Yuan; et al. (J. Biomed. Informatics, 2023)

Vision Transformers and CNN-Based Knowledge-Distillation for Histopathological Image Classification. - Seddik Boudissa; Shyam Sundar Debsarkar; Hiroharu Kawanaka; Bruce J. Aronow; V. B. Surya Prasath (FSDM, 2024)

Deep learning-based IDH1 gene mutation prediction using histopathological imaging and clinical data. - Riku Nakagaki; Shyam Sundar Debsarkar; Hiroharu Kawanaka; Bruce J. Aronow; V. B. Surya Prasath (Comput. Biol. Medicine, 2024)

Multimodal Ensemble Fusion Deep Learning Using Histopathological Images and Clinical Data for Glioma Subtype Classification. - Satoshi Shirae; Shyam Sundar Debsarkar; Hiroharu Kawanaka; Bruce J. Aronow; V. B. Surya Prasath (IEEE Access, 2025)

Advancements in automated nuclei segmentation for histopathology using you only look once-driven approaches: A systematic review. - Shyam Sundar Debsarkar; Bruce J. Aronow; V. B. Surya Prasath (Comput. Biol. Medicine, 2025)

Benchmarking HEp-2 cell segmentation methods in indirect immunofluorescence images - standard models to deep learning. - Balaji Iyer; S. Deoghare; Krish Ranjan; Bruce J. Aronow; V. B. Surya Prasath (Comput. Biol. Medicine, 2025)