Levi Waldron

Publication Activity (10 Years)

Years Active: 2011-2023
Publications (10 Years): 12

Top Topics

Gene Expression

Semantically Rich

Top Venues

PLoS Comput. Biol.

Briefings Bioinform.

Publications

Awan Afiaz, Andrey Ivanov, John Chamberlin, David Hanauer, Candace Savonen, Mary J. Goldman, Martin Morgan, Michael Reich, Alexander Getka, Aaron Holmes, Sarthak Pati, Dan Knight, Paul C. Boutros, Spyridon Bakas, J. Gregory Caporaso, Guilherme Del Fiol, Harry Hochheiser, Brian Haas, Patrick D. Schloss, James A. Eddy, Jake Albrecht, Andrey Fedorov, Levi Waldron, Ava M. Hoffman, Richard L. Bradshaw, Jeffrey T. Leek, Carrie Wright
Evaluation of software impact designed for biomedical research: Are we measuring what's meaningful? CoRR (2023)
Kelly B. Eckenrode, Dario Righelli, Marcel Ramos, Ricard Argelaguet, Christophe Vanderaa, Ludwig Geistlinger, Aedín C. Culhane, Laurent Gatto, Vincent J. Carey, Martin Morgan, Davide Risso, Levi Waldron
Curated single cell multimodal landmark datasets for R/Bioconductor. PLoS Comput. Biol. 19 (8) (2023)
Ludwig Geistlinger, Gergely Csaba, Mara Santarelli, Marcel Ramos, Lucas Schiffer, Nitesh Turaga, Charity W. Law, Sean Davis, Vincent J. Carey, Martin Morgan, Ralf Zimmer, Levi Waldron
Toward a gold standard for benchmarking gene set enrichment analysis. Briefings Bioinform. 22 (1) (2021)
Adriana Tomic, Ivan Tomic, Levi Waldron, Ludwig Geistlinger, Max Kuhn, Rachel L. Spreng, Lindsay C. Dahora, Kelly E. Seaton, Georgia D. Tomaras, Jennifer Hill, Niharika A. Duggal, Ross D. Pollock, Norman R. Lazarus, Stephen D. R. Harridge, Janet M. Lord, Purvesh Khatri, Andrew J. Pollard, Mark M. Davis
SIMON: Open-Source Knowledge Discovery Platform. Patterns 2 (1) (2021)
Himel Mallick, Ali Rahnavard, Lauren J. McIver, Siyuan Ma, Yancong Zhang, Long H. Nguyen, Timothy L. Tickle, George Weingart, Boyu Ren, Emma H. Schwager, Suvo Chatterjee, Kelsey N. Thompson, Jeremy E. Wilkinson, Ayshwarya Subramanian, Yiren Lu, Levi Waldron, Joseph N. Paulson, Eric A. Franzosa, Héctor Corrada Bravo, Curtis Huttenhower
Multivariable association discovery in population-scale meta-omics studies. PLoS Comput. Biol. 17 (11) (2021)
Vinícius da Silva, Marcel Ramos, Martien Groenen, Richard Crooijmans, Anna Johansson, Luciana C. A. Regitano, Luiz Coutinho, Ralf Zimmer, Levi Waldron, Ludwig Geistlinger
CNVRanger: association analysis of CNVs with gene expression and quantitative phenotypes. Bioinform. 36 (3) (2020)
Shweta Gopaulakrishnan, Samuela Pollack, BJ Stubbs, Hervé Pagès, John Readey, Sean R. Davis, Levi Waldron, Martin Morgan, Vincent J. Carey
restfulSE: A semantically rich interface for cloud-scale genomics with Bioconductor. F1000Research 8 (2019)
Sean R. Davis, Marcel Ramos, Lori A. Shepherd, Nitesh Turaga, Ludwig Geistlinger, Martin T. Morgan, Benjamin Haibe-Kains, Levi Waldron
Orchestrating a community-developed computational workshop and accompanying training materials. F1000Research 7 (2018)
Lauren J. McIver, Galeb Abu-Ali, Eric A. Franzosa, Randall Schwager, Xochitl C. Morgan, Levi Waldron, Nicola Segata, Curtis Huttenhower
bioBakery: a meta'omic analysis environment. Bioinform. 34 (7) (2018)
Lavanya Kannan, Marcel Ramos, Angela Re, Nehme Hachem, Zhaleh Safikhani, Deena M. A. Gendoo, Sean R. Davis, David Gomez-Cabrero, Robert Castelo, Kasper D. Hansen, Vincent J. Carey, Martin Morgan, Aedín C. Culhane, Benjamin Haibe-Kains, Levi Waldron
Public data and open source tools for multi-assay genomic investigation of disease. Briefings Bioinform. 17 (4) (2016)
Edoardo Pasolli, Duy Tin Truong, Faizan Malik, Levi Waldron, Nicola Segata
Machine Learning Meta-analysis of Large Metagenomic Datasets: Tools and Biological Insights. PLoS Comput. Biol. 12 (7) (2016)
Angela Re, Levi Waldron, Alessandro Quattrone
Control of Gene Expression by RNA Binding Protein Action on Alternative Translation Initiation Sites. PLoS Comput. Biol. 12 (12) (2016)
Sihai Dave Zhao, Giovanni Parmigiani, Curtis Huttenhower, Levi Waldron
Más-o-menos: a simple sign averaging method for discrimination in genomic data analysis. Bioinform. 30 (21) (2014)
Christoph Bernau, Markus Riester, Anne-Laure Boulesteix, Giovanni Parmigiani, Curtis Huttenhower, Levi Waldron, Lorenzo Trippa
Cross-study validation for the assessment of prediction algorithms. Bioinform. 30 (12) (2014)
Benjamin Frederick Ganzfried, Markus Riester, Benjamin Haibe-Kains, Thomas Risch, Svitlana Tyekucheva, Ina Jazic, Xin Victoria Wang, Mahnaz Ahmadifar, Michael J. Birrer, Giovanni Parmigiani, Curtis Huttenhower, Levi Waldron
curatedOvarianData: clinically annotated data for the ovarian cancer transcriptome. Database J. Biol. Databases Curation 2013 (2013)
Omry Koren, Dan Knights, Antonio Gonzalez, Levi Waldron, Nicola Segata, Rob Knight, Curtis Huttenhower, Ruth E. Ley
A Guide to Enterotypes across the Human Body: Meta-Analysis of Microbial Community Structures in Human Microbiome Datasets. PLoS Comput. Biol. 9 (1) (2013)
Levi Waldron, Melania Pintilie, Ming-Sound Tsao, Frances A. Shepherd, Curtis Huttenhower, Igor Jurisica
Optimized application of penalized regression methods to diverse genomic data. Bioinform. 27 (24) (2011)