Functional coordination of alternative splicing in the mammalian central nervous system (2007)
Fagnani, Matthew, Barash, Yoseph, Ip, Joanna Y, Misquitta, Christine, Pan, Qun, Saltzman, Arneet L, ...
Abstract Background Alternative splicing (AS) functions to expand proteomic complexity and plays numerous important roles in gene regulation. However, the extent to which AS coordinates functions in...
Modeling Dependencies in Protein-DNA Binding Sites (2003)
Yoseph Barash, Gal Elidan, Nir Friedman, Tommy Kaplan
The availability of whole genome sequences and high-throughput genomic assays opens the door for in silico analysis of transcription regulation. This includes methods for discovering and...
Modeling Dependencies in Protein-DNA Binding Sites (2003)
Yoseph Barash, Gal Elidan, Nir Friedman, Tommy Kaplan
The availability of whole genome sequences and high-throughput genomic assays opens the door for in silico analysis of transcription regulation. This includes methods for discovering and...
From Promoter Sequence to Expression: A Probabilistic Framework (2002)
Eran Segal, Yoseph Barash, Itamar Simon, Nir Friedman, Daphne Keller
We present a probabilistic framework that models the process by which transcriptional binding explains the mRNA expression of different genes. Our joint probabilistic model unifies the two key...
Context-Specific Bayesian Clustering for Gene Expression Data (2002)
The recent growth in genomic data and measurements of genome-wide expression patterns allows us to apply computational tools to examine gene regulation by transcription factors.
From Promoter Sequence to Expression: A Probabilistic Framework (2002)
Eran Segal, Yoseph Barash, Itamar Simon, Nir Friedman, Daphne Koller
We present a probabilistic framework that models the process by which transcriptional binding explains the mRNA expression of different genes. Our joint probabilistic model unifies the two key...
From Promoter Sequence to Expression: (2002)
Eran Segal, Yoseph Barash, Itamar Simon, Nir Friedman, Daphne Koller
We present a probabilistic framework that models the process by which transcriptional binding explains the mRNA expression of different genes. Our joint probabilistic model unifies the two key...
A Simple Hyper-Geometric Approach for Discovering Putative Transcription Factor Binding Sites (2002)
Yoseph Barash, Gill Bejerano, Nir Friedman
A central issue in molecular biology is understanding the regulatory mechanisms that control gene expression. The recent ood of genomic and post-genomic data opens the way for computational methods...
Context-Specific Bayesian Clustering for Gene Expression Data (2002)
The recent growth in genomic data and measurements of genome-wide expression patterns allows us to apply computational tools to examine gene regulation by transcription factors.
Context-Specific Bayesian Clustering for Gene Expression Data (2001)
The recent growth in genomic data and measurement of genomewide expression patterns allows to examine gene regulation by transcription factors using computational tools. In this work, we present a...
Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression
Marion, Rosa M., Regev, Aviv, Segal, Eran, Barash, Yoseph, Koller, Daphne, Friedman, Nir, ...
Yeast cells modulate their protein synthesis capacity in response to physiological needs through the transcriptional control of ribosomal protein (RP) genes. Here we demonstrate that the...
Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression
Marion, Rosa M., Regev, Aviv, Segal, Eran, Barash, Yoseph, Koller, Daphne, Friedman, Nir, ...
Yeast cells modulate their protein synthesis capacity in response to physiological needs through the transcriptional control of ribosomal protein (RP) genes. Here we demonstrate that the...
Functional coordination of alternative splicing in the mammalian central nervous system
Fagnani, Matthew, Barash, Yoseph, Ip, Joanna Y, Misquitta, Christine, Pan, Qun, Saltzman, Arneet L, ...
A microarray analysis provides new evidence suggesting that specific cellular processes in the mammalian CNS are coordinated at the level of alternative splicing, and that a complex splicing code...