M
Matteo Pellegrini
Researcher at University of California, Los Angeles
Publications - 493
Citations - 36180
Matteo Pellegrini is an academic researcher from University of California, Los Angeles. The author has contributed to research in topics: DNA methylation & Gene. The author has an hindex of 80, co-authored 419 publications receiving 30546 citations. Previous affiliations of Matteo Pellegrini include Stanford University & Pasteur Institute.
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Journal ArticleDOI
Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning
Shawn J. Cokus,Suhua Feng,Xiaoyu Zhang,Zugen Chen,Barry Merriman,Christian D. Haudenschild,Sriharsa Pradhan,Stanley F. Nelson,Matteo Pellegrini,Steven E. Jacobsen +9 more
TL;DR: A map at single-base-pair resolution of methylated cytosines for Arabidopsis is generated by combining bisulphite treatment of genomic DNA with ultra-high-throughput sequencing using the Illumina 1G Genome Analyser and Solexa sequencing technology.
PatentDOI
Assigning protein functions by comparative genome analysis protein phylogenetic profiles
Matteo Pellegrini,Edward M. Marcotte,Michael J. Thompson,David Eisenberg,Robert Grothe,Todd O. Yeates +5 more
TL;DR: In this paper, a computational method system and computer program are provided for inferring functional links from genome sequences, based on the observation that some pairs of proteins A′ and B′ have homologs in another organism fused into a single protein chain AB.
Journal ArticleDOI
Genome-wide high-resolution mapping and functional analysis of DNA methylation in arabidopsis.
Xiaoyu Zhang,Junshi Yazaki,Ambika Sundaresan,Shawn J. Cokus,Simon W. L. Chan,Huaming Chen,Ian R. Henderson,Paul Shinn,Matteo Pellegrini,Steve E. Jacobsen,Joseph R. Ecker +10 more
TL;DR: This is the first comprehensive DNA methylation map of an entire genome, at 35 base pair resolution, using the flowering plant Arabidopsis thaliana as a model and finds that pericentromeric heterochromatin, repetitive sequences, and regions producing small interfering RNAs are heavily methylated.
Journal ArticleDOI
Detecting Protein Function and Protein-Protein Interactions from Genome Sequences
Edward M. Marcotte,Matteo Pellegrini,Ho Leung Ng,Danny W. Rice,Todd O. Yeates,David Eisenberg +5 more
TL;DR: Searching sequences from many genomes revealed 6809 putative protein-protein interactions in Escherichia coli and 45,502 in yeast, and many members of these pairs were confirmed as functionally related; computational filtering further enriches for interactions.
Journal ArticleDOI
Conservation and divergence of methylation patterning in plants and animals
Suhua Feng,Shawn J. Cokus,Xiaoyu Zhang,Pao-Yang Chen,Magnolia Bostick,Mary G. Goll,Jonathan Hetzel,Jayati Jain,Steven H. Strauss,Marnie E. Halpern,Chinweike Ukomadu,Kirsten C. Sadler,Sriharsa Pradhan,Matteo Pellegrini,Steven E. Jacobsen +14 more
TL;DR: Comparisons of DNA methylation in eight diverse plant and animal genomes found that patterns of methylation are very similar in flowering plants with methylated cytosines detected in all sequence contexts, whereas CG methylation predominates in animals.