Stephen R. Piccolo

14 papers Misc 1Journal 13
YearRankTypeTitle / Venue / Authors
2026 J jnl
Using semantic search to find publicly available gene-expression datasets.
Bioinform.
Grace S. Brown, James Wengler, Aaron Joyce S. Fabelico, Abigail Muir, Anna Tubbs, Amanda Warren, Alexandra N. Millett, Xinrui Xiang Yu, Paul Pavlidis, Sanja Rogic, Stephen R. Piccolo
2024 J jnl
TidyGEO: preparing analysis-ready datasets from Gene Expression Omnibus.
J. Integr. Bioinform.
Avery Mecham, Ashlie Stephenson, Badi I. Quinteros, Grace S. Brown, Stephen R. Piccolo
2023 J jnl
Automatic Extraction of Medication Mentions from Tweets - Overview of the BioCreative VII Shared Task 3 Competition.
Database J. Biol. Databases Curation
Davy Weissenbacher, Karen O'Connor, Siddharth Rawal, Yu Zhang, Richard Tzong-Han Tsai, Timothy Miller, Dongfang Xu, Carol Anderson, Bo Liu, Qing Han, Jinfeng Zhang, Igor Kulev, Berkay Köprü, Raul Rodriguez-Esteban, Elif Ozkirimli, Ammer Ayach, Roland Roller, Stephen R. Piccolo, Peijin Han, V. G. Vinod Vydiswaran, Ramya Tekumalla, Juan M. Banda, Parsa Bagherzadeh, Sabine Bergler, João Figueira Silva, Tiago Melo Almeida, Paloma Martínez, Renzo M. Rivera Zavala, Chen-Kai Wang, Hong-Jie Dai, Luis Alberto Robles Hernandez, Graciela Gonzalez-Hernandez
2023 J jnl
Evaluating a large language model's ability to solve programming exercises from an introductory bioinformatics course.
PLoS Comput. Biol.
Stephen R. Piccolo, Paul Denny, Andrew Luxton-Reilly, Samuel H. Payne, Perry G. Ridge
2023 J jnl
Many bioinformatics programming tasks can be automated with ChatGPT.
CoRR
Stephen R. Piccolo, Paul Denny, Andrew Luxton-Reilly, Samuel H. Payne, Perry G. Ridge
2022 J jnl
The ability to classify patients based on gene-expression data varies by algorithm and performance metric.
PLoS Comput. Biol.
Stephen R. Piccolo, Avery Mecham, Nathan P. Golightly, Jérémie L. Johnson, Dustin B. Miller
2021 J jnl
trioPhaser: using Mendelian inheritance logic to improve genomic phasing of trios.
BMC Bioinform.
Dustin B. Miller, Stephen R. Piccolo
2020 J jnl
CompoundHetVIP: Compound Heterozygous Variant Identification Pipeline.
F1000Research
Dustin B. Miller, Stephen R. Piccolo
2017 J jnl
DeuteRater: a tool for quantifying peptide isotope precision and kinetic proteomics.
Bioinform.
Bradley C. Naylor, Michael T. Porter, Elise Wilson, Adam Herring, Spencer Lofthouse, Austin Hannemann, Stephen R. Piccolo, Alan L. Rockwood, John C. Price
2015 J jnl
ASSIGN: context-specific genomic profiling of multiple heterogeneous biological pathways.
Bioinform.
Ying Shen, Mumtahena Rahman, Stephen R. Piccolo, Daniel Gusenleitner, Nader N. El-Chaar, Luis Cheng, Stefano Monti, Andrea H. Bild, W. Evan Johnson
2015 J jnl
Alternative preprocessing of RNA-Sequencing data in The Cancer Genome Atlas leads to improved analysis results.
Bioinform.
Mumtahena Rahman, Laurie K. Jackson, W. Evan Johnson, Dean Y. Li, Andrea H. Bild, Stephen R. Piccolo
2013 J jnl
Clinical and molecular models of Glioblastoma multiforme survival.
Int. J. Data Min. Bioinform.
Stephen R. Piccolo, Lewis J. Frey
2012 J jnl
ML-Flex: A Flexible Toolbox for Performing Classification Analyses In Parallel.
J. Mach. Learn. Res.
Stephen R. Piccolo, Lewis J. Frey
2008 Misc conf
Somatic Mutation Signatures of Cancer.
AMIA
Stephen R. Piccolo, Lewis J. Frey