Antoine Buetti-Dinh
SEEK ID: https://fairdomhub.org/people/505
Location:
Switzerland
Expertise: ODE modelling of biological interaction network, Bioinformatics
Tools: Python, bash, c++, standard bioinformatic tools, Java
ORCID: Not specified
Antoine's tagsRelated items
Biomining is a biotechnological process carried out in many parts of the world that exploits acid loving microorganisms to extract metals from sulphide minerals. One industrial biomining method is called ‘heap bioleaching’ where typically copper containing minerals are piled into very large heaps, acid and microorganisms are added to the top and the soluble metal is collected at the heap base.
The role of the different types of microbes in the process is to speed up metal solubilisation by oxidising
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Programme: ERASysAPP
Public web page: http://sysmetex.eu/index.html
The workshop focuses on the publication, curation, retrieval, and usage of kinetic data from the reaction kinetics database SABIO-RK and on the use of data in modeling. There will be experience reports from scientists who successfully used experimental data to formulate or verify biological hypotheses with the computer, and you will experience how experimental data can be used with computational models.
Programme: de.NBI Systems Biology Service Center (de.NBI-SysBio)
Public web page: http://www.h-its.org/event/kinetics-on-the-move/
Supplementary files for the submission:
Reverse Engineering Directed Gene Regulatory Networks from
Transcriptomics and Proteomics Data of Biomining Bacterial
Communities with Approximate Bayesian Computation and
Steady-State Signalling Simulations
Snapshots: Snapshot 1
Supplementary files for the publication:
Deep Neural Networks Outperform Human Expert’s Capacity in Characterizing Bioleaching Bacterial Biofilm Composition
Snapshots: Snapshot 1
Publication data made available for Biotechnology Reports, supplementary data
Snapshots: No snapshots
Proteomics and transcriptomics data tables, sample IDs and description, source code
Person responsible: Malte Herold
Snapshots: No snapshots
Publication data made available for Biotechnology Reports, supplementary data
Person responsible: Antoine Buetti-Dinh
Snapshots: No snapshots
tbd
Contributor: Malte Herold
Assay type: Experimental Assay Type
Technology type: Confocal Laser Scanning Microscopy (CLSM)
Snapshots: No snapshots
Images used for training and validation of deep learning algorithm to determine biofilm composition of mixed species biofilms on mineral grains
Creators: Malte Herold, Soeren Bellenberg, Antoine Buetti-Dinh
Contributor: Malte Herold
DownloadArchive contains python scripts for image analysis
Creators: Malte Herold, Antoine Buetti-Dinh
Contributor: Malte Herold
just cell counts, the area of the grains is separate.
Creator: Antoine Buetti-Dinh
Contributor: Antoine Buetti-Dinh
after shankra, saving the images that could not be analysed earlier.
here they are simply treated by imagej change in brightness/contrast.
the same can also be done with imagemagic.
Creator: Antoine Buetti-Dinh
Contributor: Antoine Buetti-Dinh
Abstract (Expand)
Authors: Stephan Christel, Malte Herold, Soeren Bellenberg, Mohamed El Hajjami, Antoine Buetti-Dinh, Igor Pivkin, Wolfgang Sand, Paul Wilmes, Ansgar Poetsch, Mark Dopson
Date Published: 1st Feb 2018
Journal: Appl Environ Microbiol
Abstract
Authors: Antoine Buetti-Dinh, Olga Dethlefsen, Ran Friedman, Mark Dopson
Date Published: 26th May 2016
Journal: Not specified
Workshop by the fairdomhub team on reproducible and citable data and models
Creator: Antoine Buetti-Dinh
Contributor: Antoine Buetti-Dinh
External Link