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Het Barot

dblp:358/4875 · DBLP profile ↗
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1ranked-venue papers
0as first author
1since 2021 · last 2024
—ORCID · unresolved

Domains — the database's venue-derived domains; a paper can count in several

Applied, interdisciplinary, general and emerging computing · 1 · 1 since 2021

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
1 paper
Bioinformatics and computational biology · 100%

Topics — the 3 heaviest of 3, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Bioinformatics and computational biology › transcriptomics
spatial transcriptomics
0.812024
SpatialOne: end-to-end analysis of visium data at scale · Bioinform. 2024
Bioinformatics and computational biology › gene expression analysis
gene expression quantification
0.212024
SpatialOne: end-to-end analysis of visium data at scale · Bioinform. 2024
Bioinformatics and computational biology
transcriptomics
0.212024
SpatialOne: end-to-end analysis of visium data at scale · Bioinform. 2024

Methods — techniques the papers use, named apart from their topics

deconvolution · 0.8cell segmentation · 0.8
YearPublicationVenuePosition
2024 SpatialOne: end-to-end analysis of visium data at scale
abstract
MOTIVATION: Spatial transcriptomics allow to quantify mRNA expression within the spatial context. Nonetheless, in-depth analysis of spatial transcriptomics data remains challenging and difficult to scale due to the number of methods and libraries required for that purpose. RESULTS: Here we present SpatialOne, an end-to-end pipeline designed to simplify the analysis of 10x Visium data by combining multiple state-of-the-art computational methods to segment, deconvolve, and quantify spatial information; this approach streamlines the analysis of reproducible spatial-data at scale. AVAILABILITY AND IMPLEMENTATION: SpatialOne source code and execution examples are available at https://github.com/Sanofi-Public/spatialone-pipeline, experimental data is available at https://zenodo.org/records/12605154. SpatialOne is distributed as a docker container image.
Mena Soliman Asaad Kamel, Amrut Sarangi, Pavel Senin, Sergio Villordo, Sunaal Mathew, Het Barot, Seqian Wang, Ana Solbas, Luis Cano Ayestas, Marion Classe, Ziv Bar-Joseph, Albert Pla
Bioinform.6