List of works by Luis Pedro Coelho

A deep siamese neural network improves metagenome-assembled genomes in microbiome datasets across different environments

scientific article published on 28 April 2022

An Adaptive Multiresolution Approach to Fingerprint Recognition

Automated image analysis for high-content screening and analysis

scientific article published on 20 May 2010

Automatic determination of NET (neutrophil extracellular traps) coverage in fluorescent microscopy images.

scientific article published on 19 March 2015

Cell cycle dependence of protein subcellular location inferred from static, asynchronous images

scientific article published on January 2009

Determining the subcellular location of new proteins from microscope images using local features

scientific article

Disentangling the impact of environmental and phylogenetic constraints on prokaryotic within-species diversity

scientific article published on 11 February 2020

Extensive Transmission of Microbes along the Gastrointestinal Tract

article

Extensive transmission of microbes along the gastrointestinal tract

article

Fast genome-wide functional annotation through orthology assignment by eggNOG-mapper

scientific article published on 29 April 2017

Functional implications of microbial and viral gut metagenome changes in early stage L-DOPA-naïve Parkinson's disease patients.

scientific article published on 28 April 2017

Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome

scientific article published on 01 November 2019

Gene expression changes in the salivary glands of Anopheles coluzzii elicited by Plasmodium berghei infection

scientific article

Global Trends in Marine Plankton Diversity across Kingdoms of Life

scientific article published on 01 November 2019

Host-cell sensors for Plasmodium activate innate immunity against liver-stage infection

scientific article

Jug: Software for Parallel Reproducible Computation in Python

scholarly article by Luis Pedro Coelho published 27 October 2017 in Journal of open research software

Landscape of mobile genetic elements and their antibiotic resistance cargo in prokaryotic genomes

scientific article published on 01 April 2022

MOCAT2: a metagenomic assembly, annotation and profiling framework

scientific article

Macrel: antimicrobial peptide screening in genomes and metagenomes

scientific article published on 18 December 2020

Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer

scientific article published on 01 April 2019

Metagenomic insights into the human gut resistome and the forces that shape it.

scientific article published on 29 January 2014

Metagenomic species profiling using universal phylogenetic marker genes

scientific article

Microbial abundance, activity and population genomic profiling with mOTUs2

scientific article published on 4 March 2019

Microbiome and metabolome features of the cardiometabolic disease spectrum

scientific article published on 17 February 2022

NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language

NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language.

scientific article

Nuclear segmentation in microscope cell images: A hand-segmented dataset and comparison of algorithms

scientific article

Ocean plankton. Structure and function of the global ocean microbiome

scientific article published on May 2015

Plankton networks driving carbon export in the oligotrophic ocean

scientific article

Principles of Bioimage Informatics: Focus on Machine Learning of Cell Patterns

scholarly article by Luis Pedro Coelho et al published 2010 in Lecture Notes in Computer Science

Quantifying the distribution of probes between subcellular locations using unsupervised pattern unmixing

scientific article

Recovery of gut microbiota of healthy adults following antibiotic exposure

scientific article published on 22 October 2018

ResFinderFG v2.0: a database of antibiotic resistance genes obtained by functional metagenomics

scientific article published in 2023

Selective maternal seeding and environment shape the human gut microbiome.

scientific article published in March 2018

Similarity of the dog and human gut microbiomes in gene content and response to diet.

scientific article published on 19 April 2018

Statin therapy is associated with lower prevalence of gut microbiota dysbiosis

scientific article published on 06 May 2020

Structure and function of the global topsoil microbiome

scientific article published in Nature

Structured Literature Image Finder: Extracting Information from Text and Images in Biomedical Literature

article published in 2010

Structured Literature Image Finder: Parsing Text and Figures in Biomedical Literature

scientific article published on July 2010

Subspecies in the global human gut microbiome.

scientific article published on 14 December 2017

Towards standards for human fecal sample processing in metagenomic studies.

scientific article

Towards the biogeography of prokaryotic genes

scientific article published in 2021

Trypanosoma brucei histone H1 inhibits RNA polymerase I transcription and is important for parasite fitness in vivo

scientific article published on 14 July 2014

Voices of the new generation: science in a state of benign confusion

scientific article published on 16 June 2020

metaSNV: A tool for metagenomic strain level analysis

scientific article

proGenomes2: an improved database for accurate and consistent habitat, taxonomic and functional annotations of prokaryotic genomes

scientific article published on 01 January 2020

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