Avi Ma'ayan
Orcid: 0000-0002-6904-1017
According to our database1,
Avi Ma'ayan
authored at least 67 papers
between 2007 and 2024.
Collaborative distances:
Collaborative distances:
Timeline
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Online presence:
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Bibliography
2024
2023
GeneRanger and TargetRanger: processed gene and protein expression levels across cells and tissues for target discovery.
Nucleic Acids Res., July, 2023
Nucleic Acids Res., July, 2023
Database J. Biol. Databases Curation, March, 2023
2022
SigCom LINCS: data and metadata search engine for a million gene expression signatures.
Nucleic Acids Res., 2022
DrugShot: querying biomedical search terms to retrieve prioritized lists of small molecules.
BMC Bioinform., 2022
BMC Bioinform., 2022
blitzGSEA: efficient computation of gene set enrichment analysis through gamma distribution approximation.
Bioinform., 2022
2021
Nucleic Acids Res., 2021
Drugmonizome and Drugmonizome-ML: integration and abstraction of small molecule attributes for drug enrichment analysis and machine learning.
Database J. Biol. Databases Curation, 2021
2020
LINCS Data Portal 2.0: next generation access point for perturbation-response signatures.
Nucleic Acids Res., 2020
piNET: a versatile web platform for downstream analysis and visualization of proteomics data.
Nucleic Acids Res., 2020
2019
Nucleic Acids Res., 2019
Nucleic Acids Res., 2019
Nucleic Acids Res., 2019
Drug Gene Budger (DGB): an application for ranking drugs to modulate a specific gene based on transcriptomic signatures.
Bioinform., 2019
BioData Min., 2019
2018
Integration of pan-cancer transcriptomics with RPPA proteomics reveals mechanisms of epithelial-mesenchymal transition.
PLoS Comput. Biol., 2018
Data Portal for the Library of Integrated Network-based Cellular Signatures (LINCS) program: integrated access to diverse large-scale cellular perturbation response data.
Nucleic Acids Res., 2018
eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks.
Nucleic Acids Res., 2018
Bioinform., 2018
Systematic analyses of drugs and disease indications in RepurposeDB reveal pharmacological, biological and epidemiological factors influencing drug repositioning.
Briefings Bioinform., 2018
Proceedings of the Biocomputing 2018: Proceedings of the Pacific Symposium, 2018
Proceedings of the 2018 ACM International Conference on Bioinformatics, 2018
2017
Nucleic Acids Res., 2017
Predicting age by mining electronic medical records with deep learning characterizes differences between chronological and physiological age.
J. Biomed. Informatics, 2017
Developing a framework for digital objects in the Big Data to Knowledge (BD2K) commons: Report from the Commons Framework Pilots workshop.
J. Biomed. Informatics, 2017
2016
Nucleic Acids Res., 2016
An open RNA-Seq data analysis pipeline tutorial with an example of reprocessing data from a recent Zika virus study.
F1000Research, 2016
Large Collection of Diverse Gene Set Search Queries Recapitulate Known Protein-Protein Interactions and Gene-Gene Functional Associations.
CoRR, 2016
BMC Bioinform., 2016
The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins.
Database J. Biol. Databases Curation, 2016
2015
Reprint of "Abstraction for data integration: Fusing mammalian molecular, cellular and phenotype big datasets for better knowledge extraction".
Comput. Biol. Chem., 2015
Dynamics of the discovery process of protein-protein interactions from low content studies.
BMC Syst. Biol., 2015
GEO2Enrichr: browser extension and server app to extract gene sets from GEO and analyze them for biological functions.
Bioinform., 2015
Principle Angle Enrichment Analysis (PAEA): Dimensionally reduced multivariate gene set enrichment analysis tool.
Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine, 2015
2014
Construction and Validation of a Regulatory Network for Pluripotency and Self-Renewal of Mouse Embryonic Stem Cells.
PLoS Comput. Biol., 2014
LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures.
Nucleic Acids Res., 2014
The characteristic direction: a geometrical approach to identify differentially expressed genes.
BMC Bioinform., 2014
Drug/Cell-line Browser: interactive canvas visualization of cancer drug/cell-line viability assay datasets.
Bioinform., 2014
2013
BMC Bioinform., 2013
Bioinform., 2013
ESCAPE: database for integrating high-content published data collected from human and mouse embryonic stem cells.
Database J. Biol. Databases Curation, 2013
ChEA2: Gene-Set Libraries from ChIP-X Experiments to Decode the Transcription Regulome.
Proceedings of the Availability, Reliability, and Security in Information Systems and HCI, 2013
2012
BMC Syst. Biol., 2012
BMC Bioinform., 2012
Bioinform., 2012
Connecting clusters of patient to drug responses of cell lines to suggest personalized therapeutics for breast cancer.
Proceedings of the 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2012
2011
Source Code Biol. Medicine, 2011
Genes2WordCloud: a quick way to identify biological themes from gene lists and free text.
Source Code Biol. Medicine, 2011
Recovering Protein-Protein and Domain-Domain Interactions from Aggregation of IP-MS Proteomics of Coregulator Complexes.
PLoS Comput. Biol., 2011
Visualization of Patient Samples by Dimensionality Reduction of Genome-Wide Measurements.
Proceedings of the Information Quality in e-Health, 2011
2010
SVM classifier to predict genes important for self-renewal and pluripotency of mouse embryonic stem cells.
BMC Syst. Biol., 2010
GATE: software for the analysis and visualization of high-dimensional time series expression data.
Bioinform., 2010
ChEA: transcription factor regulation inferred from integrating genome-wide ChIP-X experiments.
Bioinform., 2010
Inferring the Sign of Kinase-Substrate Interactions by Combining Quantitative Phosphoproteomics with a Literature-Based Mammalian Kinome Network.
Proceedings of the 10th IEEE International Conference on Bioinformatics and Bioengineering, 2010
2009
SNAVI: Desktop application for analysis and visualization of large-scale signaling networks.
BMC Syst. Biol., 2009
2008
Comput. Biol. Medicine, 2008
2007
Genes2Networks: connecting lists of gene symbols using mammalian protein interactions databases.
BMC Bioinform., 2007