Etienne Z. Gnimpieba

47 papers C 1Journal 7Unranked 39

Year	Rank	Type	Title / Venue / Authors
2025	—	`conf`	A Convergence Roadmap for AI-Enabled, Omics-Guided Living-Interface Engineering. A National Science Foundation (NSF) National Research Traineeship (NRT) Initiative. BIBM Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2025	—	`conf`	AI-Driven Sensor-Omics Framework for Detecting Antibiotic Resistance in Environmental Engineering Systems. BIBM Somayeh Falahati Khanaman, Etienne Z. Gnimpieba, Mengistu Geza Nisrani, Venkataramana Gadhamshetty
2025	—	`conf`	Computational Validation of AlphaFold 3 as a Design Engine for Next Generation Aptamer Therapeutics. BIBM Manish Rayamajhi, Shiva Aryal, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2025	—	`conf`	Development and OMICs Evaluation of Antibiofilm Material Using Hexanoic-Anhydride Modified Chitosan Electrospun Fibers Embedded with Silver Nanoparticles for Antibacterial Effects. BIBM Tippabattini Jayaramudu, Etienne Z. Gnimpieba, Venkataramana Gadhamshetty
2025	—	`conf`	Digital Biomonitoring of Microbial Communities: a Phenotype Feature-driven AutoML Framework for Bacteria Classification. BIBM Rupesh Kumar Yadav, Shiva Aryal, Bichar Dip Shrestha Gurung, Dikshya Bhandari, Graham Hartman, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2025	—	`conf`	Digital Twin COVID Tracker Using Wastewater Data: A Middle-School Led Study Within the U.S. NSF National Research Traineeship Program Framework. BIBM Isha Srikari Gadhamshetty, Jeanne Gnimpieba, Neha Sriveda Gadhamshetty, Shiva Aryal, Arun Kalaga, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2025	—	`conf`	Digital Twin Forecasting of Quorum-Sensing Associated Biofilm Microorganisms in Urban Wastewater Over a 30-Week Interval. BIBM Bichar Dip Shrestha Gurung, Tuyen Do, Shiva Aryal, Naina Maharjan, Dikshya Bhandari, Bipul Bhattarai, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2025	—	`conf`	Emerging Biofilm Marker with Thin-Film (CuO) Surface Engineering for Applications in Electrochemical Sensors. BIBM Pawan Kumar Sapkota, Shiva Aryal, Bharat Jasthi, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2025	—	`conf`	Functional Biofilm-Associated Microbial Markers in a Colorectal Cancer Cohort: Evidence for Quorum Sensing, Exopolysaccharide Production, and Biofilm-Driven Pathogenesis. BIBM Grace Goeden, Tuyen Do, Bichar Dip Shrestha Gurung, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2025	—	`conf`	Metagenomic Functional Signatures for Real-Time Predictive Monitoring of Cyanobacterial Bloom Assessment and Biofilm Marker Discovery in Managed Freshwater Systems. BIBM Tuyen Do, Naina Maharjan, Connor Johansen-Sallee, Bichar Dip Shrestha Gurung, Paula Mazzer, Etienne Z. Gnimpieba
2025	—	`conf`	Toward Autonomous Biofilm Engineering: A Vision for a Digital Twin-Based Lab Automation. BIBM Bichar Dip Shrestha Gurung, Timothy W. Hartman, Tuyen Do, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2024	—	`conf`	Applying the DeepSeqDock Harmonization Framework on Pseudomonas Aeruginosa Bacterial Biofilm Data. BIBM Corey Zhao, Bichar Dip Shrestha Gurung, Timothy W. Hartman, Tuyen Do, Mariah M. Hoffman, Etienne Z. Gnimpieba
2024	J	`jnl`	Biofilm marker discovery with cloud-based dockerized metagenomics analysis of microbial communities. Briefings Bioinform. Etienne Z. Gnimpieba, Timothy W. Hartman, Tuyen Do, Jessica Zylla, Shiva Aryal, Samuel J. Haas, Diing D. M. Agany, Bichar Dip Shrestha Gurung, Valena Doe, Zelaikha B. Yosufzai, Daniel Pan, Ross Campbell, Victor C. Huber, Rajesh Kumar Sani, Venkataramana Gadhamshetty, Carol Lushbough
2024	J	`jnl`	Comparative Study of Domain Driven Terms Extraction Using Large Language Models. CoRR Sandeep Chataut, Tuyen Do, Bichar Dip Shrestha Gurung, Shiva Aryal, Anup Khanal, Carol Lushbough, Etienne Z. Gnimpieba
2024	—	`conf`	Efficient Prediction of Protein-Ligand Binding Using ESM-2 and Mol2vec with Random Forest Model. BIBM Bichar Dip Shrestha Gurung, Manish Rayamajhi, Anushuya Baidya, Owen Growney, Helena Naomie Dongmo Mafo, Yun-Seok Choi, Etienne Z. Gnimpieba
2024	—	`conf`	Enhancing Sulphate Reducing Bacteria Clustering by Implementing UMAP on Raman Spectroscopy Data. BIBM Md Hasanur Rahman, Bichar Dip Shrestha Gurung, Manoj Tripathi, Alan Dalton, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2024	J	`jnl`	Leveraging Multi-AI Agents for Cross-Domain Knowledge Discovery. CoRR Shiva Aryal, Tuyen Do, Bisesh Heyojoo, Sandeep Chataut, Bichar Dip Shrestha Gurung, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2024	—	`conf`	NFB-Checker: An AI/ML-Powered Microorganism Nitrogen Fixation Susceptibility Prediction from Gene Collection. BIBM Tuyen Do, Shiva Aryal, Bichar Dip Shrestha Gurung, Diing D. M. Agany, Nick Klein, Ruanbao Zhou, Rajesh Kumar Sani, Etienne Z. Gnimpieba
2024	—	`conf`	Toward Fine-Tuning Large Language Models in Ontology of Microbial Phenotypes Construction. BIBM Anushuya Baidya, Tuyen Do, Etienne Z. Gnimpieba
2023	—	`conf`	Computational methods for biofouling and corrosion-resistant graphene nanocomposites. A transdisciplinary approach. BIBM Ramesh Devadig, Bichar Dip Shrestha Gurung, Etienne Z. Gnimpieba, Bharat Jasthi, Venkataramana Gadhamshetty
2023	J	`jnl`	ESPINA: efficient and secured protocol for emerging IoT network applications. Clust. Comput. Alain Bertrand Bomgni, Garrik Brel Jagho Mdemaya, Hafiz Munsub Ali, David R. Gnimpieba Zanfack, Etienne Z. Gnimpieba
2023	—	`conf`	Fine-tuning a pre-trained Transformers-based model for gene name entity recognition in biomedical text using a customized dataset: case of Desulfovibrio vulgaris Hildenborough. BIBM Alain Bertrand Bomgni, Dialo Abdala, Bichar Dip Shrestha Gurung, Marcellin Julius Antonio Nkenlifack, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2023	—	`conf`	Genome wide computational prediction and analysis of noncoding genome of corrosive biofilm forming Oleidesulfovibrio alaskensis G20. BIBM Ram Nageena Singh, Etienne Z. Gnimpieba, Rajesh Kumar Sani
2023	—	`conf`	NLPADADE: Leveraging Natural Language Processing for Automated Detection of Adverse Drug Effects. BIBM Alain Bertrand Bomgni, Claude Epiphanie Mbotchack Ngale, Shiva Aryal, Marcellin Julius Antonio Nkenlifack, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2023	—	`conf`	SIMPL - An Application for Cell and Microbe Tracking Using Machine Learning. BIBM Sam Haas, Bichar Dip Shrestha Gurung, Timothy W. Hartman, Tuyen Do, Etienne Z. Gnimpieba
2023	—	`conf`	Transformer in Microbial Image Analysis: A Comparative Exploration of TransUNet, UNet, and DoubleUNet for SEM Image Segmentation. BIBM Bichar Dip Shrestha Gurung, Anup Khanal, Timothy W. Hartman, Tuyen Do, Sandeep Chataut, Carol Lushbough, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2023	—	`conf`	Utilizing XGBoost for the Prediction of Material Corrosion Rates from Embedded Tabular Data using Large Language Model. BIBM Tuyen Do, Bichar Dip Shrestha Gurung, Shiva Aryal, Anup Khanal, Sandeep Chataut, Venkataramana Gadhamshetty, Carol Lushbough, Etienne Z. Gnimpieba
2022	—	`conf`	Attention model-based and multi-organism driven gene recognition from text: application to a microbial biofilm organism set. BIBM Alain Bertrand Bomgni, Ernest Basile Fotseu Fotseu, Daril Raoul Kengne Wambo, Rajesh Kumar Sani, Carol Lushbough, Etienne Z. Gnimpieba
2022	—	`conf`	Title: Challenges in single cells sequencing Microbial community and biofilm: A case of Oleidesulfovibrio alaskensis G20 NGS protocol. BIBM Ram Nageena Singh, Etienne Z. Gnimpieba, Rajesh Kumar Sani
2022	—	`conf`	U-Net Based Image Segmentation Techniques for Development of Non-Biocidal Fouling-Resistant Ultra-Thin Two-dimensional (2D) Coatings. BIBM Bichar Dip Shrestha Gurung, Ramesh Devadig, Tuyen Do, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2022	—	`conf`	Using BASIN-ML for Machine Learning-Based Statistical Analysis and Reporting for Biofilm Datasets. BIBM Sam Haas, Timothy W. Hartman, Bichar Dip Shrestha Gurung, Tuyen Do, Rajesh Kumar Sani, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba
2021	—	`conf`	Automatic Extension of Medical Subject Headings (MeSH) Thesaurus to Emerging Research. BIBM William Gasper, Jiahao Ma, Dario Ghersi, Etienne Z. Gnimpieba, Venkataramana Gadhamshetty, Parvathi Chundi
2021	—	`conf`	Discovery of genes associated with sulfate-reducing bacteria biofilm using text mining and biological network analysis. BIBM Abhilash Kumar Tripathi, Priya Saxena, Payal Thakur, Shailabh Rauniyar, Vinoj Gopalakrishnan, Ram Nageena Singh, Mathew A. Olakunle, Etienne Z. Gnimpieba, Rajesh Kumar Sani
2021	—	`conf`	GenNER - A highly scalable and optimal NER method for text-based gene and protein recognition. BIBM Ernest Basile Fotseu Fotseu, Thierry Kongne Nembot, Rajesh Kumar Sani, Venkataramana Gadhamshetty, Etienne Z. Gnimpieba, Alain Bertrand Bomgni
2021	—	`conf`	Identifying genes involved in biocorrosion from the literature using text-mining. BIBM Payal Thakur, Shailabh Rauniyar, Abhilash Kumar Tripathi, Priya Saxena, Vinoj Gopalakrishnan, Ram Nageena Singh, Mathew A. Olakunle, Etienne Z. Gnimpieba, Rajesh Kumar Sani
2021	—	`conf`	Integration of text mining and biological network analysis to access essential genes in Desulfovibrio alaskensis G20. BIBM Priya Saxena, Abhilash Kumar Tripathi, Payal Thakur, Shailabh Rauniyar, Vinoj Gopalakrishnan, Ram Nageena Singh, Mathew A. Olakunle, Etienne Z. Gnimpieba, Rajesh Kumar Sani
2021	—	`conf`	Prediction of essential genes in G20 using machine learning model. BIBM Thierry Kongne Nembot, Ernest Basile Fotseu Fotseu, Rajesh Kumar Sani, Etienne Z. Gnimpieba, Carol Lushbough, Alain Bertrand Bomgni
2017	J	`jnl`	Bio-TDS: bioscience query tool discovery system. Nucleic Acids Res. Etienne Z. Gnimpieba, Menno S. VanDiermen, Shayla M. Gustafson, Bill Conn, Carol M. Lushbough
2017	—	`conf`	NanoStringBioNet: Integrated R framework for bioscience knowledge discovery from NanoString nCounter data. BIBM Mariah M. Hoffman, Carrie J. Minette, Shanta M. Messerli, Ratan D. Bhardwaj, Etienne Z. Gnimpieba
2015	J	`jnl`	Life science data analysis workflow development using the bioextract server leveraging the iPlant collaborative cyberinfrastructure. Concurr. Comput. Pract. Exp. Carol M. Lushbough, Etienne Z. Gnimpieba, Rion Dooley
2015	—	`conf`	SBMLDock: Docker Driven Systems Biology Tool Development and Usage. CMSB Etienne Z. Gnimpieba, Mathialakan Thavappiragasam, Abalo Chango, Bill Conn, Carol M. Lushbough
2014	—	`conf`	Automatic biosystems comparison using semantic and name similarity. BCB Mathialakan Thavappiragasam, Carol M. Lushbough, Etienne Z. Gnimpieba
2014	—	`conf`	Heuristic parallelizable algorithm for similarity based biosystems comparison. BCB Mathialakan Thavappiragasam, Carol M. Lushbough, Etienne Z. Gnimpieba
2014	—	`conf`	Pheno2GRN: a workflow for phenotype to gene network study and reverse engineering comparison. BCB Nick Weinandt, Laura M. Jackson, Etienne Z. Gnimpieba, Carol Lushbough
2014	—	`conf`	RNA-seq gene and transcript expression analysis using the BioExtract server and iPlant collaborative. BCB Etienne Z. Gnimpieba, Abalo Chango, Carol M. Lushbough
2013	C	`conf`	BioExtract Server, a Web-based workflow enabling system, leveraging iPlant collaborative resources. CLUSTER Carol Lushbough, Etienne Z. Gnimpieba, Rion Dooley
2013	J	`jnl`	Bioinformatics Knowledge Transmission (training, learning, and teaching): overview and flexible comparison of computer based training approaches. CoRR Etienne Z. Gnimpieba, Douglas M. Jennewein, Luke Fuhrman, Carol Lushbough