Irene Papatheodorou

发表

A user’s guide to the online resources for data exploration, visualization, and discovery for the Pan-Cancer Analysis of Whole Genomes project (PCAWG)

Mary Goldman, Junjun Zhang, Nuno A. Fonseca, 2019 .

Expression Atlas: gene and protein expression across multiple studies and organisms

Nuno A. Fonseca, Wojciech Bazant, Elisabet Barrera, 2017, Nucleic Acids Res..

Galaxy-Kubernetes integration: scaling bioinformatics workflows in the cloud

Ola Spjuth, Irene Papatheodorou, Yasset Perez-Riverol, 2018, bioRxiv.

Inference of Gene Relations from Microarray Data by Abduction

Irene Papatheodorou, Marek J. Sergot, Antonis C. Kakas, 2005, LPNMR.

Linking gene expression to phenotypes via pathway information

Irene Papatheodorou, Damian Smedley, Anika Oellrich, 2015, Journal of Biomedical Semantics.

Comparison of the mammalian insulin signalling pathway to invertebrates in the context of FOXO-mediated ageing

Irene Papatheodorou, Janet M. Thornton, Rudolfs Petrovs, 2014, Bioinform..

A single-cell RNA-sequencing training and analysis suite using the Galaxy framework

Irene Papatheodorou, Rolf Backofen, Anton Nekrutenko, 2020, bioRxiv.

Visualization of microarray results to assist interpretation.

Irene Papatheodorou, Marek Sergot, Brian D Robertson, 2004, Tuberculosis.

Gramene 2018: unifying comparative genomics and pathway resources for plant research

Bo Wang, Lincoln Stein, Nuno A. Fonseca, 2017, Nucleic Acids Res..

Inference of Gene Relations from Microarray Experiments by Abductive Reasoning

Irene Papatheodorou, I. Papatheodorou, 2007 .

ArrayExpress update – from bulk to single-cell expression data

Nuno A. Fonseca, Robert Petryszak, Anja Füllgrabe, 2018, Nucleic Acids Res..

Putative cell type discovery from single-cell gene expression data

Irene Papatheodorou, Alvis Brazma, Pablo Moreno, 2020, Nature Methods.

Online resources for PCAWG data exploration, visualization, and discovery

Mary Goldman, Junjun Zhang, Nuno A. Fonseca, 2017 .

Open Targets: a platform for therapeutic target identification and validation

Gautier Koscielny, Robert Petryszak, Maria Keays, 2016, Nucleic Acids Res..

UCSC Cell Browser: visualize your single-cell data

Irene Papatheodorou, Maximilian Haeussler, Pablo Moreno, 2020, bioRxiv.

Inference of gene relations from microarray data by abductive reasoning

Irene Papatheodorou, 2007 .

A single-cell RNA-sequencing training and analysis suite using the Galaxy framework

Irene Papatheodorou, Rolf Backofen, Anton Nekrutenko, 2020, GigaScience.

Using association rule mining to determine promising secondary phenotyping hypotheses

Irene Papatheodorou, Damian Smedley, Julius O. B. Jacobsen, 2014, Bioinform..

UCSC Cell Browser: visualize your single-cell data

Irene Papatheodorou, Brian J. Raney, Matthew L. Speir, 2021, Bioinform..

Gramene 2021: harnessing the power of comparative genomics and pathways for plant research

Irene Papatheodorou, Lincoln D Stein, Weijia Xu, 2020, Nucleic Acids Res..

From ArrayExpress to BioStudies

Irene Papatheodorou, Alvis Brazma, Ugis Sarkans, 2020, Nucleic Acids Res..

Transcriptional feedback in the insulin signalling pathway modulates ageing in both Caenorhabditis elegans and Drosophila melanogaster † †Electronic supplementary information (ESI) available. See DOI: 10.1039/c3mb25485b Click here for additional data file.

Irene Papatheodorou, Janet M. Thornton, Matthias Ziehm, 2013, Molecular bioSystems.

MDL-1, a growth- and tumor-suppressor, slows aging and prevents germline hyperplasia and hypertrophy in C. elegans

Irene Papatheodorou, Janet M. Thornton, Jennifer M. A. Tullet, 2014, Aging.

Expression Atlas update: from tissues to single cells

Nuno A. Fonseca, Robert Petryszak, Irene Papatheodorou, 2019, Nucleic Acids Res..

Genome-wide dFOXO targets and topology of the transcriptomic response to stress and insulin signalling

Irene Papatheodorou, Janet M Thornton, Linda Partridge, 2011, Molecular systems biology.

Using Answer Set Programming to Integrate RNA Expression with Signalling Pathway Information to Infer How Mutations Affect Ageing

Irene Papatheodorou, Janet M. Thornton, Linda Partridge, 2012, PloS one.

Plant Reactome: a knowledgebase and resource for comparative pathway analysis

Evan Bolton, Irene Papatheodorou, Tiejun Cheng, 2019, Nucleic Acids Res..