Publications de Antonio Carlos Alves Meireles Filho

Extensive tissue-specific expression variation and novel regulators underlying circadian behavior

Matteo Dal Peraro, Bart Deplancke, Vincent Roland Julien Gardeux, Julie Marie Russeil, Virginie Sandra Braman, Antonio Carlos Alves Meireles Filho, Maria Litovchenko, Michael Vincent Frochaux, Alessio Prunotto, Brian Dennis Hollis

Natural genetic variation affects circadian rhythms across the evolutionary tree, but the underlying molecular mechanisms are poorly understood. We investigated population-level, molecular circadian clock variation by generating >700 tissue-specific transc ...

2021

A parallelized, automated platform enabling individual or sequential ChIP of histone marks and transcription factors

Bart Deplancke, Vincent Roland Julien Gardeux, Riccardo Dainese, Jia Yuan Jiang, Daniel Alpern, Antonio Carlos Alves Meireles Filho, Gerard Llimos Aubach

Despite its popularity, chromatin immunoprecipitation followed by sequencing (ChIP-seq) remains a tedious (>2 d), manually intensive, low-sensitivity and low-throughput approach. Here, we combine principles of microengineering, surface chemistry, and molec ...

National Academy of Sciences2020

BRB-seq: ultra-affordable high-throughput transcriptomics enabled by bulk RNA barcoding and sequencing

Bart Deplancke, David Hacker, Bastien Mangeat, Vincent Roland Julien Gardeux, Julie Marie Russeil, Daniel Alpern, Antonio Carlos Alves Meireles Filho

Despite its widespread use, RNA-seq is still too laborious and expensive to replace RT-qPCR as the default gene expression analysis method. We present a novel approach, BRB-seq, which uses early multiplexing to produce 3 cDNA libraries for dozens of sample ...

2019

Dynamic regulation of chromatin accessibility by pluripotency transcription factors across the cell cycle

Bart Deplancke, David Michael Suter, Cédric Deluz, Vincent Roland Julien Gardeux, Antonio Carlos Alves Meireles Filho, Torgil Elias Friman, Subashika Govindan

The pioneer activity of transcription factors allows for opening of inaccessible regulatory elements and has been extensively studied in the context of cellular differentiation and reprogramming. In contrast, the function of pioneer activity in self-renewi ...

2019

Engineered Multivalent Sensors to Detect Coexisting Histone Modifications in Living Stem Cells

Bart Deplancke, Beat Fierz, Horst Pick, David Michael Suter, Cédric Deluz, Aurore Marie-France Delachat, Antonio Carlos Alves Meireles Filho, Nora Guidotti, Andreas Linus Bachmann, Carolin Christine Lechner

2018

OCT4 and SOX2 are required at the M-G1 transition to re-establish chromatin accessibility at enhancers in pluripotent stem cells

Cédric Deluz, David Michael Suter, Vincent Roland Julien Gardeux, Antonio Carlos Alves Meireles Filho, Torgil Elias Friman

MARY ANN LIEBERT, INC2018

Gene regulatory mechanisms underlying the intestinal innate immune response

Bart Deplancke, Antonio Carlos Alves Meireles Filho

In the mammalian gastrointestinal tract, distinct types of cells, including epithelial cells and macrophages, collaborate to eliminate ingested pathogens while striving to preserve the commensal microbiota. The underlying innate immune response is driven b ...

Elsevier2017

Profiling of Single-Cell Transcriptomes

Bart Deplancke, Vincent Roland Julien Gardeux, Antonio Carlos Alves Meireles Filho, Wanze Chen

Complex biological systems are composed of multiple cell types whose transcriptional activity can vary due to differences in cell state, environmental stimulation or intrinsic programs. Conventional bulk analysis methods capture the average transcriptional ...

2017

The Environment is Everything That Isn't Me: Molecular Mechanisms and Evolutionary Dynamics of Insect Clocks in Variable Surroundings

Antonio Carlos Alves Meireles Filho

Circadian rhythms are oscillations in behavior, metabolism and physiology that have a period close to 24 h. These rhythms are controlled by an internal pacemaker that evolved under strong selective pressures imposed by environmental cyclical changes, mainl ...

Frontiers Media Sa2016

Genome-Wide Ultrabithorax Binding Analysis Reveals Highly Targeted Genomic Loci at Developmental Regulators and a Potential Connection to Polycomb-Mediated Regulation

Antonio Carlos Alves Meireles Filho

Hox homeodomain transcription factors are key regulators of animal development. They specify the identity of segments along the anterior-posterior body axis in metazoans by controlling the expression of diverse downstream targets, including transcription f ...

Public Library of Science2016