Mark D. Robinson

23 papers B 1Journal 21Unranked 1
YearRankTypeTitle / Venue / Authors
2026 J jnl
BiCLUM: Bilateral contrastive learning for unpaired single-cell multi-omics integration.
PLoS Comput. Biol.
Yin Guo, Izaskun Mallona, Mark D. Robinson, Limin Li
2025 J jnl
Building a continuous benchmarking ecosystem in bioinformatics.
PLoS Comput. Biol.
Izaskun Mallona, Charlotte Soneson, Ben Carrillo, Almut Lütge, Daniel Incicau, Reto Gerber, Anthony Sonrel, Mark D. Robinson
2024 J jnl
On the identification of differentially-active transcription factors from ATAC-seq data.
PLoS Comput. Biol.
Felix Ezequiel Gerbaldo, Emanuel Sonder, Vincent Fischer, Selina Frei, Jiayi Wang, Katharina Gapp, Mark D. Robinson, Pierre-Luc Germain
2024 J jnl
Perceptual and technical barriers in sharing and formatting metadata accompanying omics studies.
CoRR
Yu-Ning Huang, Michael I. Love, Cynthia Flaire Ronkowski, Dhrithi Deshpande, Lynn M. Schriml, Annie Wong-Beringer, Barend Mons, Russell Corbett-Detig, Christopher I. Hunter, Jason H. Moore, Lana X. Garmire, T. B. K. Reddy, Winston A. Hide, Atul J. Butte, Mark D. Robinson, Serghei Mangul
2024 J jnl
Ten simple rules for computational biologists collaborating with wet lab researchers.
PLoS Comput. Biol.
Mark D. Robinson, Peiying Cai, Martin Emons, Reto Gerber, Pierre-Luc Germain, Samuel Gunz, Siyuan Luo, Giulia Moro, Emanuel Sonder, Anthony Sonrel, Jiayi Wang, David Wissel, Izaskun Mallona
2021 J jnl
Censcyt: censored covariates in differential abundance analysis in cytometry.
BMC Bioinform.
Reto Gerber, Mark D. Robinson
2020 J jnl
An R-based reproducible and user-friendly preprocessing pipeline for CyTOF data.
F1000Research
Helena L. Crowell, Stéphane Chevrier, Andrea Jacobs, Sujana Sivapatham, Tumor Profiler Consortium, Bernd Bodenmiller, Mark D. Robinson
2020 J jnl
TreeSummarizedExperiment: a S4 class for data with hierarchical structure.
F1000Research
Ruizhu Huang, Charlotte Soneson, Felix G. M. Ernst, Kevin C. Rue-Albrecht, Guangchuang Yu, Stephanie C. Hicks, Mark D. Robinson
2019 J jnl
12 Grand Challenges in Single-Cell Data Science.
PeerJ Prepr.
David Laehnemann, Johannes Köster, Ewa Szczurek, Davis J. McCarthy, Stephanie C. Hicks, Mark D. Robinson, Catalina A. Vallejos, Niko Beerenwinkel, Kieran R. Campbell, Ahmed Mahfouz, Luca Pinello, Pavel Skums, Alexandros Stamatakis, Camille Stephan-Otto Attolini, Samuel Aparicio, Jasmijn A. Baaijens, Marleen Balvert, Buys de Barbanson, Antonio Cappuccio, Giacomo Corleone, Bas E. Dutilh, Maria Florescu, Victor Guryev, Rens Holmer, Katharina Jahn, Thamar Jessurun Lobo, Emma M. Keizer, Indu Khatri, Szymon M. Kielbasa, Jan O. Korbel, Alexey M. Kozlov, Tzu-Hao Kuo, Boudewijn P. F. Lelieveldt, Ion I. Mandoiu, John C. Marioni, Tobias Marschall, Felix Mölder, Amir Niknejad, Lukasz Raczkowski, Marcel J. T. Reinders, Jeroen de Ridder, Antoine-Emmanuel Saliba, Antonios Somarakis, Oliver Stegle, Fabian J. Theis, Huan Yang, Alex Zelikovsky, Alice C. McHardy, Benjamin J. Raphael, Sohrab P. Shah, Alexander Schönhuth
2019 J jnl
Financializing epistemic norms in contemporary biomedical innovation.
Synth.
Mark D. Robinson
2019 J jnl
Mammalian Annotation Database for improved annotation and functional classification of Omics datasets from less well-annotated organisms.
Database J. Biol. Databases Curation
Jochen T. Bick, Shuqin Zeng, Mark D. Robinson, Susanne E. Ulbrich, Stefan Bauersachs
2018 J jnl
A systematic performance evaluation of clustering methods for single-cell RNA-seq data.
F1000Research
Angelo Duò, Mark D. Robinson, Charlotte Soneson
2018 J jnl
Towards unified quality verification of synthetic count data with countsimQC.
Bioinform.
Charlotte Soneson, Mark D. Robinson
2013 — conf
Chromothripsis-like patterns are recurring, but heterogeneously distributed features in cancer: A survey of 22, 347 genomic copy number profiles.
IWBBIO
Haoyang Cai, Nitin Kumar, Homayoun C. Bagheri, Christian von Mering, Mark D. Robinson, Michael Baudis
2012 J jnl
Savant Genome Browser 2: visualization and analysis for population-scale genomics.
Nucleic Acids Res.
Marc Fiume, Eric J. M. Smith, Andrew Brook, Dario Strbenac, Brian Turner, Aziz M. Mezlini, Mark D. Robinson, Shoshana J. Wodak, Michael Brudno
2009 J jnl
Differential splicing using whole-transcript microarrays.
BMC Bioinform.
Mark D. Robinson, Terence P. Speed
2008 J jnl
FIRMA: a method for detection of alternative splicing from exon array data.
Bioinform.
E. Purdom, Ken M. Simpson, Mark D. Robinson, J. G. Conboy, A. V. Lapuk, Terence P. Speed
2007 J jnl
A comparison of Affymetrix gene expression arrays.
BMC Bioinform.
Mark D. Robinson, Terence P. Speed
2007 J jnl
A dynamic programming approach for the alignment of signal peaks in multiple gas chromatography-mass spectrometry experiments.
BMC Bioinform.
Mark D. Robinson, David P. De Souza, Woon Wai Keen, Eleanor C. Saunders, Malcolm J. McConville, Terence P. Speed, Vladimir A. Likic
2007 J jnl
Moderated statistical tests for assessing differences in tag abundance.
Bioinform.
Mark D. Robinson, Gordon K. Smyth
2005 B conf
Finding Novel Transcripts in High-Resolution Genome-Wide Microarray Data Using the GenRate Model.
RECOMB
Brendan J. Frey, Quaid Morris, Mark D. Robinson, Timothy R. Hughes
2004 J jnl
MyMed: A database system for biomedical research on MEDLINE data.
IBM Syst. J.
Kimberly N. Lewis, Mark D. Robinson, Timothy R. Hughes, Christopher W. V. Hogue
2002 J jnl
FunSpec: a web-based cluster interpreter for yeast.
BMC Bioinform.
Mark D. Robinson, Jörg Grigull, Naveed Mohammad, Timothy R. Hughes