KRAB zinc-finger proteins and their transposable element targets: between antagonism and cooperation

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Related publications (208)

ChIPnorm: a statistical method for normalizing and identifying differential regions in histone modification ChIP-seq libraries

Bernard Moret, Philipp Bucher, Nishanth Ulhas Nair

The advent of high-throughput technologies such as ChIP-seq has made possible the study of histone modifications. A problem of particular interest is the identification of regions of the genome where different cell types from the same organism exhibit diff ...

Public Library of Science2012

Impact of copy number variations (CNVs) on long-range gene regulation at the HoxD locus

Denis Duboule

Copy number variations are genomic structural variants that are frequently associated with human diseases. Among these copy number variations, duplications of DNA segments are often assumed to lead to dosage effects by increasing the copy number of either ...

Natl Acad Sciences2012

Dissecting Gene Regulatory Networks Using Targeted Quantitative Proteomics

Jovan Simicevic

Gene regulatory networks control gene expression levels, and therefore play an essential role in mammalian development and function. Regulation of gene expression is the result of a complex interplay between DNA regulatory elements and their binding partne ...

EPFL2012

Human-Specific Histone Methylation Signatures at Transcription Start Sites in Prefrontal Neurons

Jeffrey David Jensen

Cognitive abilities and disorders unique to humans are thought to result from adaptively driven changes in brain transcriptomes, but little is known about the role of cis-regulatory changes affecting transcription start sites (TSS). Here, we mapped in huma ...

Public Library Science2012

Virulence Regulator EspR of Mycobacterium tuberculosis Is a Nucleoid-Associated Protein

Stewart Cole, Jacques Rougemont, Florence Pojer, Claudia Sala, Ruben Hartkoorn, Swapna Uplekar, Jeffrey Chen, Benjamin Blasco

The principal virulence determinant of Mycobacterium tuberculosis (Mtb), the ESX-1 protein secretion system, is positively controlled at the transcriptional level by EspR. Depletion of EspR reportedly affects a small number of genes, both positively or neg ...

Public Library of Science2012

Reverse Engineering and Analysis of Genome-Wide Gene Regulatory Networks from Gene Expression Profiles Using High-Performance Computing

Giovanni D'Angelo

Regulation of gene expression is a carefully regulated phenomenon in the cell. “Reverse-engineering” algorithms try to reconstruct the regulatory interactions among genes from genome-scale measurements of gene expression profiles (microarrays). Mammalian c ...

2012

RNA Profiling and Chromatin Immunoprecipitation-Sequencing Reveal that PTF1a Stabilizes Pancreas Progenitor Identity via the Control of MNX1/HLXB9 and a Network of Other Transcription Factors

Emilie Gesina, Philipp Bucher, Anne Grapin-Botton, Nancy Thompson

Pancreas development is initiated by the specification and expansion of a small group of endodermal cells. Several transcription factors are crucial for progenitor maintenance and expansion, but their interactions and the downstream targets mediating their ...

American Society for Microbiology2012

Personal receptor repertoires: olfaction as a model

Sebastian Martin Waszak

Background: Information on nucleotide diversity along completely sequenced human genomes has increased tremendously over the last few years. This makes it possible to reassess the diversity status of distinct receptor proteins in different human individual ...

BioMed Central2012

Common Mechanisms for Calorie Restriction and AC5 Knockout Models of Longevity

Johan Auwerx

Adenylyl cyclase type 5 knockout mice (AC5 KO) live longer and are stress resistant, similar to calorie restriction (CR). AC5 KO mice eat more, but actually weigh less and accumulate less fat compared to WT mice. CR applied to AC5 KO result in rapid decrea ...

Wiley-Blackwell2012

Mammalian spermatogenesis is a process that involves a complex expression program in both somatic and germ cells present in the male gonad. A number of studies have attempted to define the transcriptome of male meiosis and gametogenesis in rodents and prim ...

Oxford University Press2012

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