Andreas Wilke

34 papers B 6C 1Journal 22Unranked 5
YearRankTypeTitle / Venue / Authors
2026 J jnl
Benchmarking community drug response prediction models: datasets, models, tools, and metrics for cross-dataset generalization analysis.
Briefings Bioinform.
Alexander Partin, Priyanka Vasanthakumari, Oleksandr Narykov, Andreas Wilke, Natasha Koussa, Sara E. Jones, Yitan Zhu, Jamie C. Overbeek, Rajeev Jain, Gayara Demini Fernando, Cesar Sanchez-Villalobos, Cristina Garcia-Cardona, Jamaludin Mohd-Yusof, Nicholas Chia, Justin M. Wozniak, Souparno Ghosh, Ranadip Pal, Thomas S. Brettin, M. Ryan Weil, Rick L. Stevens
2025 J jnl
Benchmarking community drug response prediction models: datasets, models, tools, and metrics for cross-dataset generalization analysis.
CoRR
Alexander Partin, Priyanka Vasanthakumari, Oleksandr Narykov, Andreas Wilke, Natasha Koussa, Sara E. Jones, Yitan Zhu, Jamie C. Overbeek, Rajeev Jain, Gayara Demini Fernando, Cesar Sanchez-Villalobos, Cristina Garcia-Cardona, Jamaludin Mohd-Yusof, Nicholas Chia, Justin M. Wozniak, Souparno Ghosh, Ranadip Pal, Thomas S. Brettin, M. Ryan Weil, Rick L. Stevens
2025 J jnl
Exascale workflow applications and middleware: An ExaWorks retrospective.
Int. J. High Perform. Comput. Appl.
Aymen Alsaadi, Mihael Hategan-Marandiuc, Ketan Maheshwari, André Merzky, Mikhail Titov, Matteo Turilli, Andreas Wilke, Justin M. Wozniak, Kyle Chard, Rafael Ferreira da Silva, Shantenu Jha, Daniel E. Laney
2024 J jnl
Assessing Reusability of Deep Learning-Based Monotherapy Drug Response Prediction Models Trained with Omics Data.
CoRR
Jamie C. Overbeek, Alexander Partin, Thomas S. Brettin, Nicholas Chia, Oleksandr Narykov, Priyanka Vasanthakumari, Andreas Wilke, Yitan Zhu, Austin Clyde, Sara Jones, Rohan Gnanaolivu, Yuanhang Liu, Jun Jiang, Chen Wang, Carter Knutson, Andrew D. McNaughton, Neeraj Kumar, Gayara Demini Fernando, Souparno Ghosh, Cesar Sanchez-Villalobos, Ruibo Zhang, Ranadip Pal, M. Ryan Weil, Rick L. Stevens
2024 J jnl
ExaWorks Software Development Kit: A Robust and Scalable Collection of Interoperable Workflow Technologies.
CoRR
Matteo Turilli, Mihael Hategan-Marandiuc, Mikhail Titov, Ketan Maheshwari, Aymen Alsaadi, André Merzky, Ramon Arambula, Mikhail Zakharchanka, Matt Cowan, Justin M. Wozniak, Andreas Wilke, Ozgur Ozan Kilic, Kyle Chard, Rafael Ferreira da Silva, Shantenu Jha, Daniel E. Laney
2024 J jnl
Exascale Workflow Applications and Middleware: An ExaWorks Retrospective.
CoRR
Aymen Alsaadi, Mihael Hategan-Marandiuc, Ketan Maheshwari, André Merzky, Mikhail Titov, Matteo Turilli, Andreas Wilke, Justin M. Wozniak, Kyle Chard, Rafael Ferreira da Silva, Shantenu Jha, Daniel E. Laney
2023 B conf
An Automation Framework for Comparison of Cancer Response Models Across Configurations.
e-Science
Justin M. Wozniak, Rajeev Jain, Andreas Wilke, Rylie Weaver, Alexander Partin, Thomas S. Brettin, Rick Stevens
2023 B conf
PSI/J: A Portable Interface for Submitting, Monitoring, and Managing Jobs.
e-Science
Mihael Hategan-Marandiuc, André Merzky, Nicholson T. Collier, Ketan Maheshwari, Jonathan Ozik, Matteo Turilli, Andreas Wilke, Justin M. Wozniak, Kyle Chard, Ian T. Foster, Rafael Ferreira da Silva, Shantenu Jha, Daniel E. Laney
2023 J jnl
PSI/J: A Portable Interface for Submitting, Monitoring, and Managing Jobs.
CoRR
Mihael Hategan-Marandiuc, André Merzky, Nicholson T. Collier, Ketan Maheshwari, Jonathan Ozik, Matteo Turilli, Andreas Wilke, Justin M. Wozniak, Kyle Chard, Ian T. Foster, Rafael Ferreira da Silva, Shantenu Jha, Daniel E. Laney
2020 B conf
Fingerprinting Analog IoT Sensors for Secret-Free Authentication.
ICCCN
Felix Lorenz, Lauritz Thamsen, Andreas Wilke, Ilja Behnke, Jens Waldmüller-Littke, Ilya Komarov, Odej Kao, Manfred Paeschke
2020 J jnl
Fingerprinting Analog IoT Sensors for Secret-Free Authentication.
CoRR
Felix Lorenz, Lauritz Thamsen, Andreas Wilke, Ilja Behnke, Jens Waldmüller-Littke, Ilya Komarov, Odej Kao, Manfred Paeschke
2020 B conf
The Relevance of Subjective Benefits in Risky Choice Across ten Domains of Life.
CogSci
Jana Jarecki, Andreas Wilke
2019 J jnl
Ensuring Security & Trust in a Post-Quantum Environment.
Datenschutz und Datensicherheit
Manfred Paeschke, Walter Fumy, Andreas Wilke
2019 J jnl
MG-RAST version 4 - lessons learned from a decade of low-budget ultra-high-throughput metagenome analysis.
Briefings Bioinform.
Folker Meyer, Saurabh Bagchi, Somali Chaterji, Wolfgang Gerlach, Ananth Grama, Travis Harrison, Tobias Paczian, William L. Trimble, Andreas Wilke
2019 J jnl
The MG-RAST API explorer: an on-ramp for RESTful query composition.
BMC Bioinform.
Tobias Paczian, William L. Trimble, Wolfgang Gerlach, Travis Harrison, Andreas Wilke, Folker Meyer
2018 — conf
On the way to research objects for environmental genomics (or metagenomics).
RO
Folker Meyer, Robert D. Finn, Wolfgang Gerlach, Alex L. Mitchell, Travis Harrison, Andreas Wilke
2016 J jnl
The MG-RAST metagenomics database and portal in 2015.
Nucleic Acids Res.
Andreas Wilke, Jared Bischof, Wolfgang Gerlach, Elizabeth M. Glass, Travis Harrison, Kevin P. Keegan, Tobias Paczian, William L. Trimble, Saurabh Bagchi, Ananth Grama, Somali Chaterji, Folker Meyer
2015 J jnl
A RESTful API for Accessing Microbial Community Data for MG-RAST.
PLoS Comput. Biol.
Andreas Wilke, Jared Bischof, Travis Harrison, Tom Brettin, Mark D'Souza, Wolfgang Gerlach, Hunter Matthews, Tobias Paczian, Jared Wilkening, Elizabeth M. Glass, Narayan Desai, Folker Meyer
2015 B conf
Container Orchestration for Scientific Workflows.
IC2E
Wolfgang Gerlach, Wei Tang, Andreas Wilke, Dan Olson, Folker Meyer
2015 — conf
Shock: Active Storage for Multicloud Streaming Data Analysis.
BDC
Andreas Wilke, Wolfgang Gerlach, Travis Harrison, Tobias Paczian, Wei Tang, William L. Trimble, Jared Wilkening, Narayan Desai, Folker Meyer
2014 — conf
Skyport: container-based execution environment management for multi-cloud scientific workflows.
DataCloud@SC
Wolfgang Gerlach, Wei Tang, Kevin P. Keegan, Travis Harrison, Andreas Wilke, Jared Bischof, Mark D'Souza, Scott Devoid, Daniel E. Murphy-Olson, Narayan Desai, Folker Meyer
2014 — conf
Workload characterization for MG-RAST metagenomic data analytics service in the cloud.
IEEE BigData
Wei Tang, Jared Bischof, Narayan Desai, Kanak Mahadik, Wolfgang Gerlach, Travis Harrison, Andreas Wilke, Folker Meyer
2013 — conf
A scalable data analysis platform for metagenomics.
IEEE BigData
Wei Tang, Jared Wilkening, Narayan Desai, Wolfgang Gerlach, Andreas Wilke, Folker Meyer
2012 J jnl
A Platform-Independent Method for Detecting Errors in Metagenomic Sequencing Data: DRISEE.
PLoS Comput. Biol.
Kevin P. Keegan, William L. Trimble, Jared Wilkening, Andreas Wilke, Travis Harrison, Mark D'Souza, Folker Meyer
2012 J jnl
Short-read reading-frame predictors are not created equal: sequence error causes loss of signal.
BMC Bioinform.
William L. Trimble, Kevin P. Keegan, Mark D'Souza, Andreas Wilke, Jared Wilkening, Jack A. Gilbert, Folker Meyer
2012 J jnl
The M5nr: a novel non-redundant database containing protein sequences and annotations from multiple sources and associated tools.
BMC Bioinform.
Andreas Wilke, Travis Harrison, Jared Wilkening, Dawn Field, Elizabeth M. Glass, Nikos Kyrpides, Konstantinos Mavrommatis, Folker Meyer
2011 J jnl
An experience report: porting the MG-RAST rapid metagenomics analysis pipeline to the cloud.
Concurr. Comput. Pract. Exp.
Andreas Wilke, Jared Wilkening, Elizabeth M. Glass, Narayan Desai, Folker Meyer
2011 B conf
Exploration and Exploitation in Memory Search Across the Lifespan.
CogSci
Thomas T. Hills, Rui Mata, Andreas Wilke, Gregory R. Samanez-Larkin
2011 J jnl
Functional analysis of metagenomes and metatranscriptomes using SEED and KEGG.
BMC Bioinform.
Suparna Mitra, Paul Rupek, Daniel C. Richter, Tim Urich, Jack A. Gilbert, Folker Meyer, Andreas Wilke, Daniel H. Huson
2009 J jnl
Fishing for the Right Words: Decision Rules for Human Foraging Behavior in Internal Search Tasks.
Cogn. Sci.
Andreas Wilke, John M. C. Hutchinson, Peter M. Todd, Uwe Czienskowski
2009 C conf
Using clouds for metagenomics: A case study.
CLUSTER
Jared Wilkening, Andreas Wilke, Narayan Desai, Folker Meyer
2008 J jnl
The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes.
BMC Bioinform.
Folker Meyer, Daniel Paarmann, Mark D'Souza, Robert Olson, Elizabeth M. Glass, Michael Kubal, Tobias Paczian, Alexis A. Rodriguez, Rick Stevens, Andreas Wilke, Jared Wilkening, Robert A. Edwards
2007 J jnl
SAMPI: Protein Identification with Mass Spectra Alignments.
BMC Bioinform.
Hans-Michael Kaltenbach, Andreas Wilke, Sebastian Böcker
2005 J jnl
BRIGEP - the BRIDGE-based genome-transcriptome-proteome browser.
Nucleic Acids Res.
Alexander Goesmann, Burkhard Linke, Daniela Bartels, Michael Dondrup, Lutz Krause, Heiko Neuweger, Sebastian Oehm, Tobias Paczian, Andreas Wilke, Folker Meyer