matteo pellegrini
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Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning
SJ Cokus, S Feng, X Zhang, Z Chen, B Merriman, CD Haudenschild, ...
Nature 452 (7184), 215-219, 2008
Assigning protein functions by comparative genome analysis: protein phylogenetic profiles
M Pellegrini, EM Marcotte, MJ Thompson, D Eisenberg, TO Yeates
Proceedings of the National Academy of Sciences 96 (8), 4285-4288, 1999
Detecting protein function and protein-protein interactions from genome sequences
EM Marcotte, M Pellegrini, HL Ng, DW Rice, TO Yeates, D Eisenberg
Science 285 (5428), 751-753, 1999
Genome-wide high-resolution mapping and functional analysis of DNA methylation in Arabidopsis
X Zhang, J Yazaki, A Sundaresan, S Cokus, SWL Chan, H Chen, ...
Cell 126 (6), 1189-1201, 2006
Conservation and divergence of methylation patterning in plants and animals
S Feng, SJ Cokus, X Zhang, PY Chen, M Bostick, MG Goll, J Hetzel, J Jain, ...
Proceedings of the National Academy of Sciences 107 (19), 8689-8694, 2010
Induced pluripotent stem cells and embryonic stem cells are distinguished by gene expression signatures
MH Chin, MJ Mason, W Xie, S Volinia, M Singer, C Peterson, ...
Cell Stem Cell 5 (1), 111-123, 2009
A combined algorithm for genome-wide prediction of protein function
EM Marcotte, M Pellegrini, MJ Thompson, TO Yeates, D Eisenberg
Nature 402 (6757), 83-86, 1999
Genome-wide erasure of DNA methylation in mouse primordial germ cells is affected by AID deficiency
C Popp, W Dean, S Feng, SJ Cokus, S Andrews, M Pellegrini, ...
Nature 463 (7284), 1101-1105, 2010
Relationship between nucleosome positioning and DNA methylation
RK Chodavarapu, S Feng, YV Bernatavichute, PY Chen, H Stroud, Y Yu, ...
Nature 466 (7304), 388-392, 2010
Whole-Genome Analysis of Histone H3 Lysine 27 Trimethylation in Arabidopsis
X Zhang, O Clarenz, S Cokus, YV Bernatavichute, M Pellegrini, ...
PLoS biology 5 (5), e129, 2007
Pioneer transcription factors target partial DNA motifs on nucleosomes to initiate reprogramming
A Soufi, MF Garcia, A Jaroszewicz, N Osman, M Pellegrini, KS Zaret
Cell 161 (3), 555-568, 2015
Genome-wide analysis of mono-, di- and trimethylation of histone H3 lysine 4 in Arabidopsis thaliana
X Zhang, YV Bernatavichute, S Cokus, M Pellegrini, SE Jacobsen
Genome biology 10, 1-14, 2009
Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog, PcG complex, and histone H3 K4/K27 trimethylation
SD Fouse, Y Shen, M Pellegrini, S Cole, A Meissner, L Van Neste, ...
Cell stem cell 2 (2), 160-169, 2008
A census of protein repeats
EM Marcotte, M Pellegrini, TO Yeates, D Eisenberg
Journal of molecular biology 293 (1), 151-160, 1999
Three acyltransferases and nitrogen-responsive regulator are implicated in nitrogen starvation-induced triacylglycerol accumulation in Chlamydomonas
NR Boyle, MD Page, B Liu, IK Blaby, D Casero, J Kropat, SJ Cokus, ...
Journal of Biological Chemistry 287 (19), 15811-15825, 2012
Distinct shifts in microbiota composition during Drosophila aging impair intestinal function and drive mortality
RI Clark, A Salazar, R Yamada, S Fitz-Gibbon, M Morselli, J Alcaraz, ...
Cell reports 12 (10), 1656-1667, 2015
Genetic mechanisms of immune evasion in colorectal cancer
CS Grasso, M Giannakis, DK Wells, T Hamada, XJ Mu, M Quist, JA Nowak, ...
Cancer discovery 8 (6), 730-749, 2018
Genome-wide association of histone H3 lysine nine methylation with CHG DNA methylation in Arabidopsis thaliana
YV Bernatavichute, X Zhang, S Cokus, M Pellegrini, SE Jacobsen
PloS one 3 (9), e3156, 2008
BS-Seeker2: a versatile aligning pipeline for bisulfite sequencing data
W Guo, P Fiziev, W Yan, S Cokus, X Sun, MQ Zhang, PY Chen, ...
BMC genomics 14, 1-8, 2013
Prolinks: a database of protein functional linkages derived from coevolution
PM Bowers, M Pellegrini, MJ Thompson, J Fierro, TO Yeates, D Eisenberg
Genome biology 5, 1-13, 2004
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