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Pepid: a Highly Modifiable, Bioinformatics-Oriented Peptide Search Engine
Current peptide search engines are optimized for wet-lab workflows, i.e. they operate in an “end-to-end” manner to achieve good …
Jérémie Zumer
,
Sébastien Lemieux
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Mining Mass Spectra for Peptide Facts
The current mainstream software for peptide-centric tandem mass spectrometry data analysis can be categorized as either …
Jérémie Zumer
,
Sébastien Lemieux
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Code
Transposable elements regulate thymus development and function
Transposable elements (TE) are repetitive sequences representing ~45% of the human and mouse genomes and are highly expressed by …
Jean-David Larouche
,
Céline Laumont
,
Assya Trofimov
,
Krystel Vincent
,
Leslie Hesnard
,
Sylvie Brochu
,
Caroline Côté
,
Juliette Humeau
,
Éric Bonneil
,
Joël Lanoix
,
Chantal Durette
,
Patrick Gendron
,
Jean-Philippe Laverdure
,
Ellen Richie
,
Sébastien Lemieux
,
Pierre Thibault
,
Claude Perreault
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Towards Computing Attributions for Dimensionality Reduction Techniques
We describe the problem of computing local feature attributions for dimensionality reduction methods. We use one such method that is …
Matthew Scicluna
,
Jean-Christophe Grenier
,
Raphael Poujol
,
Sébastien Lemieux
,
Julie Hussin
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Code
Pepid - a Highly Modifiable Bioinformatics-Oriented Peptide Search Engine
Motivation Current peptide search engines are optimized for wet-lab work ows, i.e. they operate in an endto-end manner to achieve …
Jérémie Zumer
,
Sébastien Lemieux
Cite
DOI
Baseline Acute Myeloid Leukemia Prognosis Models using Transcriptomic and Clinical Profiles by Studying the Impacts of Dimensionality Reductions and Gene Signatures on Cox-Proportional Hazard
Gene marker extraction to evaluate risk in cancer can refine the diagnosis process and lead to adapted therapies and better survival. …
Léonard Sauvé
,
Josée Hébert
,
Guy Sauvageau
,
Sébastien Lemieux
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DOI
The TCGA Meta-Dataset Clinical Benchmark
Machine learning is bringing a paradigm shift to healthcare by changing the process of disease diagnosis and prognosis in clinics and …
Mandana Samiei
,
Tobias Würfl
,
Tristan Deleu
,
Martin Weiss
,
Francis Dutil
,
Thomas Fevens
,
Geneviève Boucher
,
Sébastien Lemieux
,
Paul Joseph Cohen
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Holographic Neural Architectures
Representation learning is at the heart of what makes deep learning effective. In this work, we introduce a new framework for …
Tariq Daouda
,
Jérémie Zumer
,
Claude Perreault
,
Sébastien Lemieux
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Target variant detection in leukemia using unaligned RNA-Seq reads
Mutations identified in each Acute Myeloid Leukemia (AML) patients are useful for prognosis and to select targeted therapies. Detection …
Éric Audemard
,
Patrick Gendron
,
Vincent-Philippe Lavallée
,
Josée Hébert
,
Guy Sauvageau
,
Sébastien Lemieux
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