James A. Thomson
According to our database1,
James A. Thomson
authored at least 23 papers
between 2009 and 2023.
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Bibliography
2023
Serial KinderMiner (SKiM) discovers and annotates biomedical knowledge using co-occurrence and transformer models.
BMC Bioinform., December, 2023
A Nile rat transcriptomic landscape across 22 organs by ultra-deep sequencing and comparative RNA-seq pipeline (CRSP).
Comput. Biol. Chem., February, 2023
2021
Interspecies chimeric conditions affect the developmental rate of human pluripotent stem cells.
PLoS Comput. Biol., 2021
2020
Automated Extraction and Visualization of Protein-Protein Interaction Networks and Beyond: A Text-Mining Protocol.
Proceedings of the Protein-Protein Interaction Networks, Methods and Protocols., 2020
KinderMiner Web: a simple web tool for ranking pairwise associations in biomedical applications.
F1000Research, 2020
2019
Automated minute scale RNA-seq of pluripotent stem cell differentiation reveals early divergence of human and mouse gene expression kinetics.
PLoS Comput. Biol., 2019
Assessment of Drug-Induced Toxicity Biomarkers in the Brain Microphysiological System (MPS) Using Targeted and Untargeted Molecular Profiling.
Frontiers Big Data, 2019
Machine Learning to Predict Developmental Neurotoxicity with High-Throughput Data from 2D Bio-Engineered Tissues.
Proceedings of the 18th IEEE International Conference On Machine Learning And Applications, 2019
2017
A Simple Text Mining Approach for Ranking Pairwise Associations in Biomedical Applications.
Proceedings of the Summit on Clinical Research Informatics, 2017
2016
OEFinder: a user interface to identify and visualize ordering effects in single-cell RNA-seq data.
Bioinform., 2016
Proceedings of the 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, 2016
Baseline Regularization for Computational Drug Repositioning with Longitudinal Observational Data.
Proceedings of the Twenty-Fifth International Joint Conference on Artificial Intelligence, 2016
2015
Nat., 2015
EBSeq-HMM: a Bayesian approach for identifying gene-expression changes in ordered RNA-seq experiments.
Bioinform., 2015
2014
MPBind: a Meta-motif-based statistical framework and pipeline to Predict Binding potential of SELEX-derived aptamers.
Bioinform., 2014
2013
Comparative RNA-seq Analysis in the Unsequenced Axolotl: The Oncogene Burst Highlights Early Gene Expression in the Blastema.
PLoS Comput. Biol., 2013
Integrated Module and Gene-Specific Regulatory Inference Implicates Upstream Signaling Networks.
PLoS Comput. Biol., 2013
Bioinform., 2013
2011
TF-Cluster: A pipeline for identifying functionally coordinated transcription factors via network decomposition of the shared coexpression connectivity matrix (SCCM).
BMC Syst. Biol., 2011
2010
2009
ProbeMatch: rapid alignment of oligonucleotides to genome allowing both gaps and mismatches.
Bioinform., 2009