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ASAP 2020 update: an open, scalable and interactive web-based portal for (single-cell) omics analyses

Related publications (32)

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Multienzyme deep learning models improve peptide de novo sequencing by mass spectrometry proteomics

Hamed Khakzad

Author summaryIn recent years, the application of deep learning represented a breakthrough in the mass spectrometry (MS) field by improving the assignment of the correct sequence of amino acids from observable MS spectra without prior knowledge, also known ...

PUBLIC LIBRARY SCIENCE2023

The development and progress of high-throughput sequencing technologies have transformed the sequencing of DNA from a scientific research challenge to practice. With the release of the latest generation of sequencing machines, the cost of sequencing a whol ...

IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC2021

Parallel and Scalable Bioinformatics

Stuart Anthony Byma

The field of genomics is likely to become the largest producer of data as a consequence of the large-scale application of next-generation sequencing technology for biological research and personalized medical treatments. The raw sequence data produced by t ...

EPFL2020

DELF: Safeguarding deletion correctness in Online Social Networks

Georgios Damaskinos

Deletion is a core facet of Online Social Networks (OSNs). For users, deletion is a tool to remove what they have shared and control their data. For OSNs, robust deletion is both an obligation to their users and a risk when developer mistakes inevitably oc ...

USENIX ASSOC2020

Scaling Out Bioinformatics in the Data Center

Sam David Whitlock

Whole Genome Sequencing is a process in the field of bioinformatics that transforms biological samples of DNA into an electronic dataset of genetic bases. The process consists of two sequential components. First, the laboratory process of sequencing transf ...

EPFL2019

The impressive technological advances in genomic analysis and the significant drop in the cost of genome sequencing are paving the way to a variety of revolutionary applications in modern healthcare. In particular, the increasing understanding of the human ...

EPFL2018

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Motivation: Single-cell RNA-sequencing (scRNA-seq) allows whole transcriptome profiling of thousands of individual cells, enabling the molecular exploration of tissues at the cellular level. Such analytical capacity is of great interest to many research gr ...

Oxford University Press2017

From Big Data to Big Displays: High-Performance Visualization at Blue Brain

Felix Schürmann, Marwan Muhammad Ahmed Abdellah, Cyrille Pierre Henri Favreau, Grigori Chevtchenko, Pawel Jozef Podhajski, Juan Bautista Hernando Vieites, Stefan Eilemann, Ahmet Bilgili, Nicolas Antille, Raphael Dumusc, Jafet Villafranca Diaz, Daniel Nachbaur

Blue Brain has pushed high-performance visualization (HPV) to complement its HPC strategy since its inception in 2007. In 2011, this strategy has been accelerated to develop innovative visualization solutions through increased funding and strategic partner ...

2017

Comparison of high-throughput sequencing data compression tools

Marco Mattavelli, Claudio Paolo Alberti

High-throughput sequencing (HTS) data are commonly stored as raw sequencing reads in FASTQ format or as reads mapped to a reference, in SAM format, both with large memory footprints. Worldwide growth of HTS data has prompted the development of compression ...

Nature Publishing Group2016

Modern industrial, government, and academic organizations are collecting massive amounts of data at an unprecedented scale and pace. The ability to perform timely, predictable and cost-effective analytical processing of such large data sets in order to ext ...

EPFL2016