Scalable and exhaustive screening of metabolic functions carried out by microbial consortia

Autor: Clémence Frioux, Anne Siegel, Enora Fremy, Camille Trottier

Publikováno v: Bioinformatics
Bioinformatics, 2018, 34 (17), pp.i934-i943. ⟨10.1093/bioinformatics/bty588⟩
ECCB-2018-17th European Conference on Computational Biology
ECCB-2018-17th European Conference on Computational Biology, Sep 2018, Athènes, Greece. pp.i934-i943
Bioinformatics, Oxford University Press (OUP), 2018, 34 (17), pp.i934-i943. ⟨10.1093/bioinformatics/bty588⟩

International audience; Motivation: The selection of species exhibiting metabolic behaviors of interest is a challenging step when switching from the investigation of a large microbiota to the study of functions effectiveness. Approaches based on a c

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5d82cad19bc9f1c0b7daaf15b58effbf
https://doi.org/10.1093/bioinformatics/bty588

Predicting protein–protein interactions through sequence-based deep learning

Autor: Behnam Neyshabur, Aly A. Khan, Jinbo Xu, Somaye Hashemifar

Publikováno v: Bioinformatics. 34:i802-i810

MOTIVATION: High-throughput experimental techniques have produced a large amount of protein–protein interaction (PPI) data, but their coverage is still low and the PPI data is also very noisy. Computational prediction of PPIs can be used to discove

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f8eb1a2599f43279144b623fd9c80f5d
https://doi.org/10.1093/bioinformatics/bty573

DeepDTA: deep drug–target binding affinity prediction

Autor: Arzucan Özgür, Elif Ozkirimli, Hakime Öztürk

Publikováno v: Bioinformatics

The identification of novel drug-target (DT) interactions is a substantial part of the drug discovery process. Most of the computational methods that have been proposed to predict DT interactions have focused on binary classification, where the goal

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::cee1a353f8005da217221c1459960eaa
https://doi.org/10.1093/bioinformatics/bty593

fastp: an ultra-fast all-in-one FASTQ preprocessor

Autor: Jia Gu, Yanqing Zhou, Shifu Chen, Yaru Chen

Publikováno v: Bioinformatics

MotivationQuality control and preprocessing of FASTQ files are essential to providing clean data for downstream analysis. Traditionally, a different tool is used for each operation, such as quality control, adapter trimming, and quality filtering. Th

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6e08ff34825caef82674b78f8d88e4ab
https://doi.org/10.1093/bioinformatics/bty560

Computational enhancement of single-cell sequences for inferring tumor evolution

Autor: Tiffany Buturla, Karen Gomez, Sayaka Miura, Sudhir Kumar, Tracy Vu, Louise A Huuki

Publikováno v: Bioinformatics. 34:i917-i926

Motivation: Tumor sequencing has entered an exciting phase with the advent of single-cell techniques that are revolutionizing the assessment of single nucleotide variation (SNV) at the highest cellular resolution. However, state-of-the-art single-cel

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::32d1cf327163f5c9e8449f76eb95d671
https://doi.org/10.1093/bioinformatics/bty571