Talk Keyword Index

TALK KEYWORD INDEX

This page contains an index consisting of author-provided keywords.

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1
1H-NMR
2
2D NMR
3
3D chromatin network
3D genomics
3D RNA	Automatic exploration of the natural variability of RNA non-canonical geometric patterns with a parameterized sampling technique
A
Adaptive Sampling
Adipogenic Stromal Cells
Affinity Propagation clustering
Aggregation
Aggressive subclones
aging
agro-ecology
AI
algorithm
aLhr2
AlphaFold
Alternative Splicing	A benchmark study of bioinformatics methods for single cell RNA-seq Nanopore long reads data
Amino-acid sequences	Can we Predict Evolution?
Analysis Pipeline
Anchor compound
Angiogenesis
Annotation	MethyLasso: a segmentation approach to analyze DNA methylation patterns and identify differentially methylation regions from whole- genome datasets
anonymity
Antimicrobial resistance
Archaea
artificial microbial consortia
assembly	Pangenome graph construction from genome alignments with Minigraph-Cactus
association genetics
Assortativity
atypical segment detection	localScore: an R package to highlight optimal and suboptimal segment in a sequence with associated p-values computation
Automated analysis
automatic integration
automating
AVITI
B
bacterial evolution	Modeling the mosaic structure of bacterial genomes to infer their evolutionary history
Bacterial genome assembly
Bacterial phylogeny
Bacterial secretion systems
Bagging models
beehive products
Benchmark	Constructing a robust framework to benchmark deconvolution algorithms codabench, a web-plateform to organize scientific competitions
benchmark comparison
Benchmarking
binary tree
Binding site
Bio-ontologies
bioactive compounds
Bioinformatic
Bioinformatic software
Bioinformatics
bioinformatics analyses
bioinformatics tools
Biological Graphs
Biological networks
Biologie des Systèmes
Biomarkers
Biomaterials
BIOTIC
biotic interactions
Bipolar disorder
bitmap
Bone marrow
Boolean model
Boolean models for biological systems	Large-scale computational modelling of the M1 and M2 synovial macrophages in rheumatoid arthritis
Breast cancer
bulk RNAseq
BurkinaBioinfo
C
C.elegans
C/D box small nucleolar RNA (SNORD)
Cancer
cancer genomics	Characterizing intergenic transcription at RNA polymerase II binding sites in normal and cancer tissues
Carbohydrate
Causal analysis	hdmax2, an R package to perform high dimension mediation analysis
Causal inference	Machine Learning Adventures in Biology: Overcoming Hurdles and Harvesting Biological Insights
CAZy Database
cellular senescence
Challenges
changepoint detection	DiffSegR: an RNA-seq data driven method for differential expression analysis using changepoint detection
Chemoinformatics
Chimeras
ChIP-seq
Chromatin
Chromatin contacts
Chromosomes	Unzipped genome assemblies of polyploid root-knot nematodes reveal unusual and clade-specific telomeric repeats
Chronic lymphocytic leukemia
CI/CD
circRNA
Classification
Classifier
climate change
Clonal heterogeneity
Cloud
cloud computing
CNN
CNV
Co-expression
Coding DNA
cohort study
Collagen interaction
Collimonas
Colorectal
community	nf-core a community dedicated to best-practices Nextflow workflows Misconceptions about Galaxy debunked by the (French) Galaxy Community
comparative analyses	MicroScope: 20 years of expertise in microbial genomics
Comparative genomics	Unzipped genome assemblies of polyploid root-knot nematodes reveal unusual and clade-specific telomeric repeats When lianas and trees talk DNA: new insights into genetic exchanges in plants Tracing genomic adaptations in emerging fungal pathogens
computational benchmark	A benchmark study of bioinformatics methods for single cell RNA-seq Nanopore long reads data
Computational biology
Compétences
Confounding effect	hdmax2, an R package to perform high dimension mediation analysis
confounding variables
Consensus network
consensus OPLS-DA
constraint-based modelling
Copy number variations
Crop resilience
Cross-sample Contamination	CroCoDeEL: accurate detection of cross-sample contamination in metagenomic data
Cytometry
D
dada2
dark matter	MDverse: Shedding Light on the Dark Matter of Molecular Dynamics Simulations
Data base
data challenge	codabench, a web-plateform to organize scientific competitions
Data Engineering
data fusion
data integration	Integration of metataxonomic datasets into microbial association networks highlights shared bacterial community dynamics in fermented vegetables
Data Integration and Visualization
Data lake
data management
data reduction
data science	Using data science to build a bridge from model systems to human disease
data visualization
Data-Leakage
Database
dataset integration
de novo gene birth
deconvolution	Constructing a robust framework to benchmark deconvolution algorithms
Deconvolution algorithms
Deep Learning	Can we Predict Evolution? Semi-supervised learning improves regulatory sequence prediction with unlabeled sequences
Deep-learning	AttOmics: Attention-based architecture for diagnosis and prognosis from Omics data
DeepOmics
Degraded DNA
detection
DevOps
diagnostic
Differential analysis
Differential expression
differential expression analysis	DiffSegR: an RNA-seq data driven method for differential expression analysis using changepoint detection
Differentially methylated regions (DMRs)	MethyLasso: a segmentation approach to analyze DNA methylation patterns and identify differentially methylation regions from whole- genome datasets
Dimension Reduction
dinoflagellates
Distance
distributed computing
distributed infrastructure
DMP
DNA methylation	MethyLasso: a segmentation approach to analyze DNA methylation patterns and identify differentially methylation regions from whole- genome datasets
DNA repair
DNBSEQ-T7
Docker
Drosophila
Drosophila model organism
drug repurposing
Drug-Repurposing
Drug-target identification	Large-scale computational modelling of the M1 and M2 synovial macrophages in rheumatoid arthritis
Drug-target interactions (DTIs)	Advancing Drug-Target Interactions Prediction: Leveraging a Large-Scale Dataset with a Rapid and Robust Chemogenomic Algorithm
E
Early detection
ecological model
embedding learning
Endometriosis
enhancers	Characterizing intergenic transcription at RNA polymerase II binding sites in normal and cancer tissues
Enrichment analysis
ensemble clustering	scEVE: a scRNA-seq ensemble clustering algorithm that leverages the extrinsic variability to prevent over-clustering.
EnviBIS
Environmental biorefinery
environmental biotechnology processes
environmental DNA
Enzyme
Epidemiologic surveillance
epigenetic
epigenetics
Epitranscriptomic
eQTL
eQTL hotspots
Erythropoiesis
eukaryotes	Origins and Functional Significance of Eukaryotic Protein Folds
EuroScienceGateway
evolution	Can we Predict Evolution? Unzipped genome assemblies of polyploid root-knot nematodes reveal unusual and clade-specific telomeric repeats
Evolutionary Biology
Exome sequencing
expression
expression quantitative trait loci
Expression regulation
extrinsic variability	scEVE: a scRNA-seq ensemble clustering algorithm that leverages the extrinsic variability to prevent over-clustering.
F
factor models
FAIR
fair comparison	codabench, a web-plateform to organize scientific competitions
FAIR data	MDverse: Shedding Light on the Dark Matter of Molecular Dynamics Simulations
FAIR data analysis	Misconceptions about Galaxy debunked by the (French) Galaxy Community
FAIR principles
FAIR science
fba
Feature extraction	Benchmarking feature selection and feature extraction methods to improve the performances of machine-learning algorithms for patient classification using metabolomics biomedical data
Feature selection	Benchmarking feature selection and feature extraction methods to improve the performances of machine-learning algorithms for patient classification using metabolomics biomedical data
Federation
fermented vegetables	Integration of metataxonomic datasets into microbial association networks highlights shared bacterial community dynamics in fermented vegetables
Ferments
Fiber
Fibronectin
Forest soil
Formation
freshwater cyanobacteria
Fruit development	Comparative constraint-based modelling of fruit development across species highlights nitrogen metabolism in the growth- defence trade-off
Fruits
function prediction	InteractORF, prediction of human sORF functions from an interactome study.
Functional and taxonomic annotation
functional annotation	MicroScope: 20 years of expertise in microbial genomics
functional differentials
Functional diversity
functional motifs
Fungal guilds
Fungi
G
Galaxy	Misconceptions about Galaxy debunked by the (French) Galaxy Community
GEA
Gene annotations
Gene duplication
Gene evolutionary ages
gene expression
Gene family
gene regulation
Gene Regulatory Network
Gene regulatory networks	Improving Snoussi constraints in the Thomas framework for Gene Networks
Gene Regulatory Networks (GRN)
gene-regulatory network
genetic disorders
Genetic Diversity
Genetic hitchhiking	Beyond Recombination: Exploring the Impact of Meiotic Frequency on Genome-wide Genetic Diversity
Genetic imputation	“PhaseImpute” an NF-Core pipeline for genetic imputation
Genome
Genome annotation	Advancing genome annotation with long-read RNA sequencing: Insights from the IGDRion Facility
genome assembly
Genome browser
Genome browsers
genome evolution	Machine Learning Adventures in Biology: Overcoming Hurdles and Harvesting Biological Insights Tracing genomic adaptations in emerging fungal pathogens
Genome function	Machine Learning Adventures in Biology: Overcoming Hurdles and Harvesting Biological Insights
genome portals
Genome regulation	Machine Learning Adventures in Biology: Overcoming Hurdles and Harvesting Biological Insights
Genome repeats
genome sampling
genome sequencing	Pangenome graph construction from genome alignments with Minigraph-Cactus
genome stability
Genome structure	Machine Learning Adventures in Biology: Overcoming Hurdles and Harvesting Biological Insights
genome-scale metabolic networks
Genomes
genomic adaptation	Tracing genomic adaptations in emerging fungal pathogens
Genomic predictions
Genomic Rearrangements
genomic variation	Pangenome graph construction from genome alignments with Minigraph-Cactus
genomic variations
Genomics
Genomics core facility
genotype-phenotype relationship
genotypes
Genotyping
GitHub
Gold standard corpus
graph
Graph neural network	Semi-supervised learning improves regulatory sequence prediction with unlabeled sequences
Graph Neural Networks
Graph pangenomes
Graph Representation Learning	Graph representation learning and semantic distribution: application to omic expression data
graph theory	scEVE: a scRNA-seq ensemble clustering algorithm that leverages the extrinsic variability to prevent over-clustering.
Graph-embedding
graphe de connaissance sémantique	Intégration reproductible d’informations de haut niveau dans des graphes de connaissances sémantiques avec OntoWeaver et BioCypher, applications en oncologie et en écologie
Graphical User Interface
Graphs
GRO-seq
GSEA
GWAS
GxE interactions
Génomique Environnementale
H
H3K27ac
H3K27me3
H3K9me3
Habitat
Haplotig purging
Haplotype
Haplotypes
heat
Heterogenous data
Hi-C
Hi-C data
HiC
hierarchical clustering
High pathogenic avian influenza viruses
High-dimension	hdmax2, an R package to perform high dimension mediation analysis
high-throughput sequencing data
HLAtyping
Holobiont
homologous recombination
homology
homology search
horizontal gene transfer	Modeling the mosaic structure of bacterial genomes to infer their evolutionary history
Horizontal transfers	When lianas and trees talk DNA: new insights into genetic exchanges in plants
Host-pathogen interactions
HPC cluster
HPC infrastructure
human disease	Using data science to build a bridge from model systems to human disease
Human gut microbiome
human gut microbiota
Human Phenotype Ontology (HPO)
Hybridization-Capture
I
Image analysis
Image-based segmentation
imaging
Immunity
Immuno-oncology
Immunoevasion
immunology
Immunotherapy
impact environnemental
In silico predictions	Large-scale computational modelling of the M1 and M2 synovial macrophages in rheumatoid arthritis
Incomplete data
Information system
Infrastructure
insertions
interactive training
INTERCHANGE	When lianas and trees talk DNA: new insights into genetic exchanges in plants
Interoperability
interpretability
intégration de données	Intégration reproductible d’informations de haut niveau dans des graphes de connaissances sémantiques avec OntoWeaver et BioCypher, applications en oncologie et en écologie
Intra-species diversity
Intégration de connaissances
Isoform analysis	A benchmark study of bioinformatics methods for single cell RNA-seq Nanopore long reads data
ISRU
K
k-mers
keynote	Machine Learning Adventures in Biology: Overcoming Hurdles and Harvesting Biological Insights From sequences to fitness and motions, protein language models to the rescue? Using data science to build a bridge from model systems to human disease Tracing genomic adaptations in emerging fungal pathogens Exploration of microbial ecosystems: from compositional patterns to metabolic models
Kinase Superfamily
Kink-Turn family	Automatic exploration of the natural variability of RNA non-canonical geometric patterns with a parameterized sampling technique
Knockoffs
Knowledge database
Knowledge Discovery
Knowledge Graph	Graph representation learning and semantic distribution: application to omic expression data
Knowledge-Graph
knowledgebase
Kronecker Optimized METhod	Advancing Drug-Target Interactions Prediction: Leveraging a Large-Scale Dataset with a Rapid and Robust Chemogenomic Algorithm
Kubernetes
L
Labos 1point5
Large alphabet de Bruijn graph
large language model
Large-scale computational modeling	Large-scale computational modelling of the M1 and M2 synovial macrophages in rheumatoid arthritis
Large-sized benchmark dataset	Advancing Drug-Target Interactions Prediction: Leveraging a Large-Scale Dataset with a Rapid and Robust Chemogenomic Algorithm
Latent space
LIME Algorithm
LIMS
Lindley
Lindley-CUSUM process	localScore: an R package to highlight optimal and suboptimal segment in a sequence with associated p-values computation
Linked Data
local score	localScore: an R package to highlight optimal and suboptimal segment in a sequence with associated p-values computation
Long reads
Long-read
Long-read assembly
long-read nanopore sequencing
Long-read sequencing	A benchmark study of bioinformatics methods for single cell RNA-seq Nanopore long reads data
Long-Read Sequencing facility	Advancing genome annotation with long-read RNA sequencing: Insights from the IGDRion Facility
Longevity
Loss-of-function variants
low pathogenic avian influenza viruses
LSM-8
LTR-retrotransposons	When lianas and trees talk DNA: new insights into genetic exchanges in plants
Lung cancer
Lung radiotherapy
Lymph node
M
Machine learning	Machine Learning Adventures in Biology: Overcoming Hurdles and Harvesting Biological Insights
Machine-Learning
Mapping
MAPS
marine organisms
Markov CLustering algorithm
Mash
mass spectrometry
Master
Mathematical modeling
Matrix factorization
maximal exact matches	Modeling the mosaic structure of bacterial genomes to infer their evolutionary history
Mechanisms of Disease	Tracing genomic adaptations in emerging fungal pathogens
Mediation	hdmax2, an R package to perform high dimension mediation analysis
Medical imaging
MES
meta-analysis	Integration of metataxonomic datasets into microbial association networks highlights shared bacterial community dynamics in fermented vegetables
meta-assembly
Metabarcode
Metabolic fluxes	Comparative constraint-based modelling of fruit development across species highlights nitrogen metabolism in the growth- defence trade-off
metabolic modelling
Metabolic Models
metabolic network
Metabolic networks
Metabolic networks reconstruction
metabolism	MicroScope: 20 years of expertise in microbial genomics
Metabolomic analysis
Metabolomics	Benchmarking feature selection and feature extraction methods to improve the performances of machine-learning algorithms for patient classification using metabolomics biomedical data
MetaCyc pathways
Metagenome
Metagenomic
Metagenomics	CroCoDeEL: accurate detection of cross-sample contamination in metagenomic data
metaomics data
Metaplastic breast cancer
metataxonomic study	Integration of metataxonomic datasets into microbial association networks highlights shared bacterial community dynamics in fermented vegetables
Metatranscriptomics
Metric	RNAdvisor: a comprehensive benchmarking tool for the measure and prediction of RNA structural model quality
microbial association network	Integration of metataxonomic datasets into microbial association networks highlights shared bacterial community dynamics in fermented vegetables
microbial communities	Exploration of microbial ecosystems: from compositional patterns to metabolic models
microbial community
Microbial genomics	MicroScope: 20 years of expertise in microbial genomics
microbial guilds
Microbial Translocation
microbiology
Microbiome
microbiome data
microbiota
Microbiote intestinal
microprotein	InteractORF, prediction of human sORF functions from an interactome study.
Microservice
Microsporidia
Migration
Milk
Minimal databases
Minimizers
MinION
miRNA
misconceptions	Misconceptions about Galaxy debunked by the (French) Galaxy Community
mitochondria
mitochondrial diseases
Mobile genetic elements
Modelisation
Modelling	Comparative constraint-based modelling of fruit development across species highlights nitrogen metabolism in the growth- defence trade-off
Modélisation
mole-rat
molecular clock	Modeling the mosaic structure of bacterial genomes to infer their evolutionary history
Molecular docking
molecular dynamics	MDverse: Shedding Light on the Dark Matter of Molecular Dynamics Simulations
Molecular dynamics simulations
molecular mimicry
Mosaic
Mosaic integration
multi-basic cleavage site
Multi-omics
multi-omics analysis
multi-omics data integration
multi-omics integration
multi-proteins similarity
multi-way comparison
multiblock
multimodal analysis
Multiple interactions
Multiple myeloma
multiple testing
Multivariate analysis	hdmax2, an R package to perform high dimension mediation analysis
Musa
mutation rate	Modeling the mosaic structure of bacterial genomes to infer their evolutionary history
Myriapods
N
Nanopore	A benchmark study of bioinformatics methods for single cell RNA-seq Nanopore long reads data
Natural language processing	Graph representation learning and semantic distribution: application to omic expression data
ncRNA targets
Neighborhood metrics	Automatic exploration of the natural variability of RNA non-canonical geometric patterns with a parameterized sampling technique
Nematodes	Unzipped genome assemblies of polyploid root-knot nematodes reveal unusual and clade-specific telomeric repeats
neopeptides
Network
network analysis
network inference
Network modeling
Networks
Neuroblastoma
New Generation Sequencing (NGS)	“PhaseImpute” an NF-Core pipeline for genetic imputation
next-generation sequencing
Nextflow	nf-core a community dedicated to best-practices Nextflow workflows “PhaseImpute” an NF-Core pipeline for genetic imputation Advancing genome annotation with long-read RNA sequencing: Insights from the IGDRion Facility
NGS
NMF
Non-assembled genomes	When lianas and trees talk DNA: new insights into genetic exchanges in plants
non-coding DNA	Characterizing intergenic transcription at RNA polymerase II binding sites in normal and cancer tissues
non-coding transcription	Characterizing intergenic transcription at RNA polymerase II binding sites in normal and cancer tissues
non-laboratory models
Non-model organisms
nonsense suppression therapies
nonsense variations
Nutrition
O
Oligosaccharide diversity
Olive Quick Decline Syndrome
Omic
Omics
Omics analysis
omics data	AttOmics: Attention-based architecture for diagnosis and prognosis from Omics data
Omics Data Integration	Graph representation learning and semantic distribution: application to omic expression data
oncologie	Intégration reproductible d’informations de haut niveau dans des graphes de connaissances sémantiques avec OntoWeaver et BioCypher, applications en oncologie et en écologie
Oncology	Constructing a robust framework to benchmark deconvolution algorithms
One Health
ONT
ontologies	Intégration reproductible d’informations de haut niveau dans des graphes de connaissances sémantiques avec OntoWeaver et BioCypher, applications en oncologie et en écologie
Ontology
Open access
open genomic resources	Using data science to build a bridge from model systems to human disease
Open Science	MDverse: Shedding Light on the Dark Matter of Molecular Dynamics Simulations
Open-Science	“PhaseImpute” an NF-Core pipeline for genetic imputation
opioid
Organic matter degradation
orphan genes
Orthology
Ovarian cancer
Oxalobacteraceae
Oxford Nanopore Sequencing
Oxford Nanopore Technologies
P
paleogenomics
Paleontology
Paleoproteomics
Pan-genomics
Pangenome	Pangenome graph construction from genome alignments with Minigraph-Cactus
Pangenome graph
Pangenome graphs
pangenome praph
Pangenomics	MicroScope: 20 years of expertise in microbial genomics
Parameterized Complexity	Automatic exploration of the natural variability of RNA non-canonical geometric patterns with a parameterized sampling technique
Parasites	Unzipped genome assemblies of polyploid root-knot nematodes reveal unusual and clade-specific telomeric repeats
pathway analysis
Patient classification	Benchmarking feature selection and feature extraction methods to improve the performances of machine-learning algorithms for patient classification using metabolomics biomedical data
PCHi-C
PDAC
Pea Genome
performance analysis
Personalized medicine	Benchmarking feature selection and feature extraction methods to improve the performances of machine-learning algorithms for patient classification using metabolomics biomedical data
Pharmaceutical industry
Phasing
Phenotypes
phenotypic adaptations
Phylogenetic Analysis
Phylogenetic datation
phylogenomic
phylogenomics
Pig
Pinot Noir
pipeline	Constructing a robust framework to benchmark deconvolution algorithms
pipelines	nf-core a community dedicated to best-practices Nextflow workflows
Plant genetic diversity	Comparative constraint-based modelling of fruit development across species highlights nitrogen metabolism in the growth- defence trade-off
plant parasitic nematodes
Platform
polymerase
Population genetics	Beyond Recombination: Exploring the Impact of Meiotic Frequency on Genome-wide Genetic Diversity
population genomics
population polymorphism
Pore-C analysis
Post-transcriptional modifications
precision medicine	AttOmics: Attention-based architecture for diagnosis and prognosis from Omics data
Prediction
Preprocessing
privacy
Protein Binding
Protein Diversification
protein folds	Origins and Functional Significance of Eukaryotic Protein Folds
Protein interaction
Protein Language Model
protein language models	From sequences to fitness and motions, protein language models to the rescue?
protein mutation
Protein Protein Interaction
Protein structure	Origins and Functional Significance of Eukaryotic Protein Folds
Protein structure prediction
protein-protein interaction network	InteractORF, prediction of human sORF functions from an interactome study.
Proteogenomic
proteomics
Provence
proximal optimization
Pseudo-labeling
pseudogenes
Pseudogymnoascus destructans
Psoriasis
Psychosis
PU-learning
Pulsar
Pédagogie
Q
QTL detection
Quality control	CroCoDeEL: accurate detection of cross-sample contamination in metagenomic data
R
R library
R package development
R shiny
R. Thomas’ discrete modeling framework	Improving Snoussi constraints in the Thomas framework for Gene Networks
Radio-toxicity
Random Forest
Ranking	Constructing a robust framework to benchmark deconvolution algorithms
Rare disease
Rare diseases
Rare Variants
Recombination	Beyond Recombination: Exploring the Impact of Meiotic Frequency on Genome-wide Genetic Diversity
Reconstruction
reference genome	Pangenome graph construction from genome alignments with Minigraph-Cactus
Regeneration
Regenerative medicine
Regulatory DNA sequence	Semi-supervised learning improves regulatory sequence prediction with unlabeled sequences
Regulatory elements
Regulatory genomics	Characterizing intergenic transcription at RNA polymerase II binding sites in normal and cancer tissues
Regulatory Sequence
Regulatory variants
RELIEFF
remote homologs identification
Repeated-sequences
Representation Learning
representative genomes
Reproducibility	nf-core a community dedicated to best-practices Nextflow workflows codabench, a web-plateform to organize scientific competitions
Reproducible science
RGCCA
Rhabdoid tumors
Rheumatoid Arthritis synovial macrophages	Large-scale computational modelling of the M1 and M2 synovial macrophages in rheumatoid arthritis
RiboMethSeq
ribonucleases	DiffSegR: an RNA-seq data driven method for differential expression analysis using changepoint detection
ribosomal RNA epitranscriptomics
Rice
RNA 3D structure	RNAdvisor: a comprehensive benchmarking tool for the measure and prediction of RNA structural model quality
RNA half-life
RNA maturation	DiffSegR: an RNA-seq data driven method for differential expression analysis using changepoint detection
RNA-end sequencing
RNA-RNA interactions
RNA-seq	DiffSegR: an RNA-seq data driven method for differential expression analysis using changepoint detection
RNA-Seq data analysis
RNAseq
Rshiny
RStudio
RuleFit
ruminants
réseau de laboratoire
S
Schizophrenia
Science popularization
scientific competition	codabench, a web-plateform to organize scientific competitions
Scientiﬁc competition
scNaUmi-seq
Scoring function	RNAdvisor: a comprehensive benchmarking tool for the measure and prediction of RNA structural model quality
scRNA-seq	scEVE: a scRNA-seq ensemble clustering algorithm that leverages the extrinsic variability to prevent over-clustering.
Segmentation	MethyLasso: a segmentation approach to analyze DNA methylation patterns and identify differentially methylation regions from whole- genome datasets
Semantic Web
Semi supervised learning	Semi-supervised learning improves regulatory sequence prediction with unlabeled sequences
Semi-supervised learning
sequence analysis	localScore: an R package to highlight optimal and suboptimal segment in a sequence with associated p-values computation From sequences to fitness and motions, protein language models to the rescue?
Sequence similarity networks
Sequence to graph mapping
service
sex-differences
Shiny
Short reads
shotgun metagenomics
Silencers
simulation framework
Simulations	Beyond Recombination: Exploring the Impact of Meiotic Frequency on Genome-wide Genetic Diversity
Single cell RNA sequencing
Single Cell RNA-seq
Single Cell RNASeq
single-cell
Single-cell RNA-seq	A benchmark study of bioinformatics methods for single cell RNA-seq Nanopore long reads data
Single-cell RNAseq
Ski2-like helicases
smoking
Snakemake
snakemake pipelines
Snoussi’s constraints	Improving Snoussi constraints in the Thomas framework for Gene Networks
software
Solution space sampling
sORF	InteractORF, prediction of human sORF functions from an interactome study.
space biomining
Spatial
spatial biology
Spatial transcriptomic
Spatial transcriptomics
species
Squidpy
Standardization
statistical signiﬁcance	localScore: an R package to highlight optimal and suboptimal segment in a sequence with associated p-values computation
Statistics
Strobemers
Structural annotation
structural variation
Structure evaluation	RNAdvisor: a comprehensive benchmarking tool for the measure and prediction of RNA structural model quality
Sufficient dimension reduction
supervised learning
Supervised machine learning	Advancing Drug-Target Interactions Prediction: Leveraging a Large-Scale Dataset with a Rapid and Robust Chemogenomic Algorithm
survival analysis	AttOmics: Attention-based architecture for diagnosis and prognosis from Omics data
synapomorphy	Origins and Functional Significance of Eukaryotic Protein Folds
sysadmin
Systems Bioinformatics
systems biology	Exploration of microbial ecosystems: from compositional patterns to metabolic models
T
T lymphocytes
Targeted metagenomics
Taxonomic annotation
taxonomic classification
Taxonomic profiling
TCGA
Technologies comparison
Telomeres	Unzipped genome assemblies of polyploid root-knot nematodes reveal unusual and clade-specific telomeric repeats
Tissue engineering
Toxicogenomic
Toxicology
Toxins
Trajectory Inference
Transcript-based segmentation
Transcription factors
Transcription factors binding
Transcription start site
Transcriptional Regulatory Networks
Transcriptomic
Transcriptomics	Comparative constraint-based modelling of fruit development across species highlights nitrogen metabolism in the growth- defence trade-off A benchmark study of bioinformatics methods for single cell RNA-seq Nanopore long reads data
Transfer learning
transformer
Transition matrix
Translation speed profiling
tree of life	Origins and Functional Significance of Eukaryotic Protein Folds
Tumor classification
Tumor microenvironment
Ty
type 2 diabetes
U
UI / UX
Ultra-high-risk patients
Unix
Uveal melanoma
V
V3-V4 size
Variable selection
Variant calling
variant prioritization
Variation graph
Viral hepatitis
Viruses
Visium
Visualisation
visualization
W
WASM
web application
Web applications
Web components
Web platform
webtool
WGS analysis
Whole exome sequencing
Whole Genome Sequencing
Wine authenticity
Workflow
Workflow developments
Workflow Manager	Misconceptions about Galaxy debunked by the (French) Galaxy Community
workflows	nf-core a community dedicated to best-practices Nextflow workflows
Workshop
Y
Yeast	Beyond Recombination: Exploring the Impact of Meiotic Frequency on Genome-wide Genetic Diversity
Z
ZooMS
é
écologie	Intégration reproductible d’informations de haut niveau dans des graphes de connaissances sémantiques avec OntoWeaver et BioCypher, applications en oncologie et en écologie