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Combinatorial code governing cellular responses to complex stimuli

Cells constantly integrate information from multiple stimuli. By considering every possible means by which two stimuli can interact, Cappuccio et al. define 10 interaction modes and demonstrate their preferential use by dendritic cells responding to different combinations of microbial and host inflammatory cues.

Antonio Cappuccio
Raphaël Zollinger
Vassili Soumelis
ResearchOpen Access21 Apr 2015
Nature Communications

Volume: 6, P: 1-11
Mapping disease regulatory circuits at cell-type resolution from single-cell multiomics data

A Bayesian method, called MAGICAL, that contrasts single cell multiomics data across conditions to accurately discover differences in gene regulatory circuits at cell type resolution is applied to specific host-based diagnosis of bacterial sepsis.

Xi Chen
Yuan Wang
Stuart C. Sealfon
ResearchOpen Access25 Jul 2023
Nature Computational Science

Volume: 3, P: 644-657
Combinatorial flexibility of cytokine function during human T helper cell differentiation

Type I interferons (IFNs) have pleiotropic functions in the immune system. Here, the authors evaluate transcriptional signatures generated by type I IFN under distinct T helper cell differentiation programmes and show that, depending on the cytokine context, IFN-α differentially modulates the global cytokine profile of each T helper subset.

Maxime Touzot
Maximilien Grandclaudon
Vassili Soumelis
Research28 May 2014
Nature Communications

Volume: 5, P: 1-9
Three de novo DDX3X variants associated with distinctive brain developmental abnormalities and brain tumor in intellectually disabled females

Marcello Scala
Annalaura Torella
Valeria Capra
Research01 Apr 2019
European Journal of Human Genetics

Volume: 27, P: 1254-1259
Dissection of intercellular communication using the transcriptome-based framework ICELLNET

Bulk and single-cell transcriptomic data can be a source of novel insights into how cells interact with each other. Here the authors develop ICELLNET, a global, biologically validated, and easy-to-use framework to dissect cell communication from individual or multiple cell-based transcriptomic profiles.

Floriane Noël
Lucile Massenet-Regad
Vassili Soumelis
ResearchOpen Access17 Feb 2021
Nature Communications

Volume: 12, P: 1-16
Author Correction: Mapping disease regulatory circuits at cell-type resolution from single-cell multiomics data

Xi Chen
Yuan Wang
Stuart C. Sealfon
Amendments and CorrectionsOpen Access31 Aug 2023
Nature Computational Science

Volume: 3, P: 805
DNA methylation episignature for Smith-Magenis and Potocki-Lupski syndromes: a mirror perspective

Liselot van der Laan
Karim Karimi
Mieke M. van Haelst
Research30 Sept 2025
European Journal of Human Genetics

Volume: 34, P: 90-98
Propensity score matching analysis of perioperative outcomes during Hub&Spoke training program in hepato-biliary surgery

Aldo Rocca
Pasquale Avella
Fulvio Calise
ResearchOpen Access28 Mar 2025
Scientific Reports

Volume: 15, P: 1-10
Polygenic prediction of educational attainment within and between families from genome-wide association analyses in 3 million individuals

A genome-wide association study in ~3 million individuals identifies 3,952 independent variants associated with educational attainment. A polygenic index explains 12–16% of variance for this trait and contributes to risk prediction for ten diseases.

Aysu Okbay
Yeda Wu
Alexander I. Young
ResearchOpen Access31 Mar 2022
Nature Genetics

Volume: 54, P: 437-449
De novo SMARCA2 variants clustered outside the helicase domain cause a new recognizable syndrome with intellectual disability and blepharophimosis distinct from Nicolaides–Baraitser syndrome

Gerarda Cappuccio
Camille Sayou
Nicola Brunetti-Pierri
Research22 Jul 2020
Genetics in Medicine

Volume: 22, P: 1838-1850
Genome-wide association analyses of risk tolerance and risky behaviors in over 1 million individuals identify hundreds of loci and shared genetic influences

A genetic study identifies hundreds of loci associated with risk tolerance and risky behaviors, finds evidence of substantial shared genetic influences across these phenotypes, and implicates genes involved in neurotransmission.

Richard Karlsson Linnér
Pietro Biroli
Jonathan P. Beauchamp
Research14 Jan 2019
Nature Genetics

Volume: 51, P: 245-257
Gene discovery and polygenic prediction from a genome-wide association study of educational attainment in 1.1 million individuals

Gene discovery and polygenic predictions from a genome-wide association study of educational attainment in 1.1 million individuals.

James J. Lee
Robbee Wedow
David Cesarini
Research23 Jul 2018
Nature Genetics

Volume: 50, P: 1112-1121
Genome-wide association study identifies 74 loci associated with educational attainment

A genome-wide association study in 293,723 individuals identifies 74 genetic variants associated with educational attainment, which, although only explaining a small proportion of the variation in educational attainment, highlights candidate genes and pathways for further study.

Aysu Okbay
Jonathan P. Beauchamp
Daniel J. Benjamin
Research11 May 2016
Nature

Volume: 533, P: 539-542
MicroRNAs expression dynamics reveal post-transcriptional mechanisms regulating seed development in Phaseolus vulgaris L.

José Ricardo Parreira
Michela Cappuccio
Susana de Sousa Araújo
ResearchOpen Access10 Jan 2021
Horticulture Research

Volume: 8, P: 1-17

Search

Combinatorial code governing cellular responses to complex stimuli

Mapping disease regulatory circuits at cell-type resolution from single-cell multiomics data

Combinatorial flexibility of cytokine function during human T helper cell differentiation

Three de novo DDX3X variants associated with distinctive brain developmental abnormalities and brain tumor in intellectually disabled females

Dissection of intercellular communication using the transcriptome-based framework ICELLNET

Author Correction: Mapping disease regulatory circuits at cell-type resolution from single-cell multiomics data

DNA methylation episignature for Smith-Magenis and Potocki-Lupski syndromes: a mirror perspective

Propensity score matching analysis of perioperative outcomes during Hub&Spoke training program in hepato-biliary surgery

Polygenic prediction of educational attainment within and between families from genome-wide association analyses in 3 million individuals

De novo SMARCA2 variants clustered outside the helicase domain cause a new recognizable syndrome with intellectual disability and blepharophimosis distinct from Nicolaides–Baraitser syndrome

Genome-wide association analyses of risk tolerance and risky behaviors in over 1 million individuals identify hundreds of loci and shared genetic influences

Gene discovery and polygenic prediction from a genome-wide association study of educational attainment in 1.1 million individuals

Genome-wide association study identifies 74 loci associated with educational attainment

MicroRNAs expression dynamics reveal post-transcriptional mechanisms regulating seed development in Phaseolus vulgaris L.

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