User profiles for Matteo Pellegrini

matteo pellegrini

university of california Los Angeles
Verified email at mcdb.ucla.edu
Cited by 44705

Assigning protein functions by comparative genome analysis: protein phylogenetic profiles

M Pellegrini, EM Marcotte… - Proceedings of the …, 1999 - National Acad Sciences
Determining protein functions from genomic sequences is a central goal of bioinformatics.
We present a method based on the assumption that proteins that function together in a …

Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning

…, S Pradhan, SF Nelson, M Pellegrini… - Nature, 2008 - nature.com
Cytosine DNA methylation is important in regulating gene expression and in silencing
transposons and other repetitive sequences 1 , 2 . Recent genomic studies in Arabidopsis …

Conservation and divergence of methylation patterning in plants and animals

…, KC Sadler, S Pradhan, M Pellegrini… - Proceedings of the …, 2010 - National Acad Sciences
Cytosine DNA methylation is a heritable epigenetic mark present in many eukaryotic organisms.
Although DNA methylation likely has a conserved role in gene silencing, the levels and …

Genome-wide erasure of DNA methylation in mouse primordial germ cells is affected by AID deficiency

…, W Dean, S Feng, SJ Cokus, S Andrews, M Pellegrini… - Nature, 2010 - nature.com
Epigenetic reprogramming including demethylation of DNA occurs in mammalian primordial
germ cells (PGCs) and in early embryos, and is important for the erasure of imprints and …

[HTML][HTML] Whole-Genome Analysis of Histone H3 Lysine 27 Trimethylation in Arabidopsis

…, S Cokus, YV Bernatavichute, M Pellegrini… - PLoS …, 2007 - journals.plos.org
Trimethylation of histone H3 lysine 27 (H3K27me3) plays critical roles in regulating animal
development, and in several cases, H3K27me3 is also required for the proper expression of …

Detecting protein function and protein-protein interactions from genome sequences

EM Marcotte, M Pellegrini, HL Ng, DW Rice, TO Yeates… - Science, 1999 - science.org
A computational method is proposed for inferring protein interactions from genome sequences
on the basis of the observation that some pairs of interacting proteins have homologs in …

[HTML][HTML] Genome-wide high-resolution mapping and functional analysis of DNA methylation in Arabidopsis

…, H Chen, IR Henderson, P Shinn, M Pellegrini… - Cell, 2006 - cell.com
Cytosine methylation is important for transposon silencing and epigenetic regulation of
endogenous genes, although the extent to which this DNA modification functions to regulate the …

A combined algorithm for genome-wide prediction of protein function

EM Marcotte, M Pellegrini, MJ Thompson, TO Yeates… - Nature, 1999 - nature.com
The availability of over 20 fully sequenced genomes has driven the development of new
methods to find protein function and interactions. Here we group proteins by correlated …

[PDF][PDF] Pioneer transcription factors target partial DNA motifs on nucleosomes to initiate reprogramming

…, MF Garcia, A Jaroszewicz, N Osman, M Pellegrini… - Cell, 2015 - cell.com
Pioneer transcription factors (TFs) access silent chromatin and initiate cell-fate changes,
using diverse types of DNA binding domains (DBDs). FoxA, the paradigm pioneer TF, has a …

Relationship between nucleosome positioning and DNA methylation

…, SS Merchant, X Zhang, SE Jacobsen, M Pellegrini - Nature, 2010 - nature.com
Nucleosomes compact and regulate access to DNA in the nucleus, and are composed of
approximately 147 bases of DNA wrapped around a histone octamer 1 , 2 . Here we report a …