Itamar Simon

The genome-wide localization of Rsc9, a component of the RSC chromatin-remodeling complex, changes in response to stress.

Transcriptional regulatory networks in Saccharomyces cerevisiae.

Program-specific distribution of a transcription factor dependent on partner transcription factor and MAPK signaling.

Systematic analysis of essential yeast TAFs in genome-wide transcription and preinitiation complex assembly.

Comparing the continuous representation of time-series expression profiles to identify differentially expressed genes.

Continuous representations of time-series gene expression data.

Deconvolving cell cycle expression data with complementary information.

MILANO--custom annotation of microarray results using automatic literature searches.

Combined static and dynamic analysis for determining the quality of time-series expression profiles.

Evidence for an instructive mechanism of de novo methylation in cancer cells.

An analysis of intra array repeats: the good, the bad and the non informative.

Polycomb-mediated methylation on Lys27 of histone H3 pre-marks genes for de novo methylation in cancer.

Reconstructing dynamic regulatory maps.

Tamoxifen induces heparanase expression in estrogen receptor-positive breast cancer.

Continuous hidden process model for time series expression experiments.

Combined analysis reveals a core set of cycling genes.

Molecular characteristics of liver metastases from uveal melanoma.

Genome-wide transcriptional analysis of the human cell cycle identifies genes differentially regulated in normal and cancer cells.

Global organization of replication time zones of the mouse genome.

A probabilistic generative model for GO enrichment analysis.

Chromatin immunoprecipitation-on-chip reveals stress-dependent p53 occupancy in primary normal cells but not in established cell lines.

Developmental programming of CpG island methylation profiles in the human genome.

Backup in gene regulatory networks explains differences between binding and knockout results.

A combined expression-interaction model for inferring the temporal activity of transcription factors.

Genome-wide analysis of the replication program in mammals.

Integrating multiple evidence sources to predict transcription factor binding in the human genome.

Modulation of the vitamin D3 response by cancer-associated mutant p53.

Comparative analysis of DNA replication timing reveals conserved large-scale chromosomal architecture.

Combination of genomic approaches with functional genetic experiments reveals two modes of repression of yeast middle-phase meiosis genes.

DNA methylation and gene expression.

DECOD: fast and accurate discriminative DNA motif finding.

Competition between small RNAs: a quantitative view.

Studying and modelling dynamic biological processes using time-series gene expression data.

Genome-wide analysis of androgen receptor targets reveals COUP-TF1 as a novel player in human prostate cancer.

Systematic determination of replication activity type highlights interconnections between replication, chromatin structure and nuclear localization.

Integrative analysis of methylome and transcriptome reveals the importance of unmethylated CpGs in non-CpG island gene activation.

Lineage correlations of single cell division time as a probe of cell-cycle dynamics.

The p53 C terminus controls site-specific DNA binding and promotes structural changes within the central DNA binding domain.

Distinguishing between stochasticity and determinism: Examples from cell cycle duration variability.

The mutation spectrum in genomic late replication domains shapes mammalian GC content.

Persistence to anti-cancer treatments in the stationary to proliferating transition.