Semi-supervised class discovery using quantitative phenotypes – CVD as a case study (2007)
Steinfeld, Israel, Navon, Roy, Ardigò, Diego, Zavaroni, Ivana, Yakhini, Zohar
No abstract available.
Discovering Motifs in Ranked Lists of DNA Sequences (2007)
Eran Eden, Doron Lipson, Sivan Yogev, Zohar Yakhini
Computational methods for discovery of sequence elements that are enriched in a target set compared with a background set are fundamental in molecular biology research. One example is the discovery...
Multilocus analysis of SNP and metabolic data within a given pathway (2006)
Kristensen, Vessela N, Tsalenko, Anya, Geisler, Jurgen, Faldaas, Anne, Grenaker, Grethe, Lingjærde, Ole, ...
Abstract Background Complex traits, which are under the influence of multiple and possibly interacting genes, have become a subject of new statistical methodological research. One of the greatest...
Multilocus analysis of SNP and metabolic data within a given pathway (2006)
Kristensen, Vessela N., Tsalenko, Anya, Geisler, Jurgen, Faldaas, Anne, Grenaker, Grethe Irene, Lingjærde, Ole Christian, ...
Background: Complex traits, which are under the influence of multiple and possibly interacting genes, have become a subject of new statistical methodological research. One of the greatest challenges...
Towards Optimally Multiplexed Applications of Universal Arrays (2004)
Amir Ben-dor, Tzvika Hartman, Richard M. Karp, Benno Schwikowski, Roded Sharan, Zohar Yakhini
We study a design and optimization problem that occurs, for example, when single nucleotide polymorphisms (SNPs) are to be genotyped using a universal DNA tag array. The problem of optimizing the...
A Distance-Based Branch and Bound Feature Selection Algorithm (2003)
Ari Frank, Dan Geiger, Zohar Yakhini
There is no known efficient method for selecting $k$ Gaussian features from $n$ which achieve the lowest Bayesian classification error. We show an example of how greedy algorithms faced with this...
Analysis of expression patterns: The scope of (2003)
Yidong Chen, Zohar Yakhini, Amir Ben-dor, Edward Dougherty, Jeffrey M. Trent, Michael Bittner, ...
Introduction The profiling of transcription patterns is a central and long-standing tool in molecular biology. Recently, it has become possible to gather this kind of data for many genes...
Analysis of expression patterns: The scope of (2003)
Yidong Chen, Zohar Yakhini, Amir Ben-dor, Edward Dougherty, Jeffrey M. Trent, Michael Bittner, ...
Introduction The profiling of transcription patterns is a central and long-standing tool in molecular biology. Recently, it has become possible to gather this kind of data for many genes...
Towards Optimally Multiplexed Applications of Universal (2003)
Amir Ben-dor, Tzvika Hartman, Benno Schwikowski, Roded Sharan, Zohar Yakhini
We study a design and optimization problem that occurs, for example, when single nucleotide polymorphisms (SNPs) are to be genotyped using a universal DNA tag array. The problem of optimizing the...
Overabundance Analysis and Class Discovery in Gene (2002)
Amir Ben-dor, Nir Friedman, Zohar Yakhini
Recent studies (Alizadeh et al. 2000, Bittner et al. 2000, Golub et al. 1999) demonstrate the discovery of disease subtypes from gene expression data. In this paper, we propose a principled and...
Overabundance Analysis and Class Discovery in Gene (2002)
Amir Ben-dor, Nir Friedman, Zohar Yakhini
Recent studies (Alizadeh et al. 2000, Bittner et al. 2000, Golub et al. 1999) demonstrate the discovery of disease subtypes from gene expression data. In this paper, we propose a principled and...
Tissue Classification with Gene Expression Profiles (2001)
Amir Ben-dor, Laurakay Bruhn, Nir Friedman, Iftach Nachman, Mich El Schummer, Zohar Yakhini
Constantly improving gene expression profiling technologies are expected to provide understanding and insight into cancer related cellular processes. Gene expression data is also A preliminary...
Class Discovery in Gene Expression Data (2001)
Recent studies (Alizadeh et al, [1]; Bittner et al,[5]; Golub et al, [11]) demonstrate the discovery of putative disease subtypes from gene expression data. The underlying computational problem is to...
On the Sample Complexity of Learning Bayesian Networks (2000)
In recent years there has been an increasing interest in learning Bayesian networks from data. One of the most effective methods for learning such networks is based on the minimum description length...
Tissue Classification with Gene Expression Profiles (2000)
Amir Ben-dor, Laurakay Bruhn, Nir Friedman, Iftach Nachman, Mich El Schummer, Zohar Yakhini
Constantly improving gene expression profiling technologies are expected to provide understanding and insight into cancer related cellular processes. Gene expression data is also A preliminary...
Universal DNA Tag Systems: A Combinatorial Design Scheme (2000)
Amir Ben-dor, Richard Karp, Benno Schwikowski, Zohar Yakhini
Custom-designed DNA arrays offer the possibility of simultaneously monitoring thousands of hybridization reactions. These arrays show great potential for many medical and scientific applications such...
Tissue Classification with Gene Expression Profiles (2000)
Amir Ben-dor, Laurakay Bruhn, Agilent Laboratories, Nir Friedman, Iftach Nachman, U. Washington, ...
Constantly improving gene expression profiling technologies are expected to provide understanding and insight into cancer related cellular processes. Gene expression data is also expected to...
Clustering Gene Expression Patterns (1999)
Amir Ben-dor, Ron Shamir, Zohar Yakhini
Recent advances in biotechnology allow researchers to measure expression levels for thousands of genes simultaneously, across different conditions and over time. Analysis of data produced by such...
On the Sample Complexity of Learning Bayesian Networks (1999)
In recent years there has been an increasing interest in learning Bayesian networks from data. One of the most effective methods for learning such networks is based on the minimum description length...
On the Sample Complexity of Learning Bayesian Networks (1999)
In recent years there has been an increasing interest in learning Bayesian networks from data. One of the most effective methods for learning such networks is based on the minimum description length...
Billiard approximations for Brownian motion / (1997)
Thesis (Ph. D.)--Stanford University, 1997.
Zuo, Fengrong, Kaminski, Naftali, Eugui, Elsie, Allard, John, Yakhini, Zohar, Ben-Dor, Amir, ...
Pulmonary fibrosis is a progressive and largely untreatable group of disorders that affects up to 100,000 people on any given day in the United States. To elucidate the molecular mechanisms that lead...
Molecular classification of familial non-BRCA1/BRCA2 breast cancer
Hedenfalk, Ingrid, Ringnér, Markus, Ben-Dor, Amir, Yakhini, Zohar, Chen, Yidong, Chebil, Gunilla, ...
In the decade since their discovery, the two major breast cancer susceptibility genes BRCA1 and BRCA2, have been shown conclusively to be involved in a significant fraction of families segregating...
Comparative genomic hybridization using oligonucleotide microarrays and total genomic DNA
Barrett, Michael T., Scheffer, Alicia, Ben-Dor, Amir, Sampas, Nick, Lipson, Doron, Kincaid, Robert, ...
Array-based comparative genomic hybridization (CGH) measures copy-number variations at multiple loci simultaneously, providing an important tool for studying cancer and developmental disorders and...
Levy, Alon M., Gilad, Oren, Xia, Liang, Izumiya, Yoshihiro, Choi, Jonathan, Tsalenko, Anya, ...
Marek's disease virus (MDV) is a highly pathogenic and oncogenic herpesvirus of chickens. MDV encodes a basic leucine zipper (bZIP) protein, Meq (MDV EcoQ). The bZIP domain of Meq shares homology...
Multilocus analysis of SNP and metabolic data within a given pathway
Kristensen, Vessela N, Tsalenko, Anya, Geisler, Jurgen, Faldaas, Anne, Grenaker, Grethe Irene, Lingjærde, Ole Christian, ...
Genetic variation in putative regulatory loci controlling gene expression in breast cancer
Kristensen, Vessela N., Edvardsen, Hege, Tsalenko, Anya, Nordgard, Silje H., Sørlie, Therese, Sharan, Roded, ...
Candidate single-nucleotide polymorphisms (SNPs) were analyzed for associations to an unselected whole genome pool of tumor mRNA transcripts in 50 unrelated patients with breast cancer. SNPs were...
Zuo, Fengrong, Kaminski, Naftali, Eugui, Elsie, Allard, John, Yakhini, Zohar, Ben-Dor, Amir, ...
Pulmonary fibrosis is a progressive and largely untreatable group of disorders that affects up to 100,000 people on any given day in the United States. To elucidate the molecular mechanisms that lead...
Molecular classification of familial non-BRCA1/BRCA2 breast cancer
Hedenfalk, Ingrid, Ringnér, Markus, Ben-Dor, Amir, Yakhini, Zohar, Chen, Yidong, Chebil, Gunilla, ...
In the decade since their discovery, the two major breast cancer susceptibility genes BRCA1 and BRCA2, have been shown conclusively to be involved in a significant fraction of families segregating...
Comparative genomic hybridization using oligonucleotide microarrays and total genomic DNA
Barrett, Michael T., Scheffer, Alicia, Ben-Dor, Amir, Sampas, Nick, Lipson, Doron, Kincaid, Robert, ...
Array-based comparative genomic hybridization (CGH) measures copy-number variations at multiple loci simultaneously, providing an important tool for studying cancer and developmental disorders and...
Levy, Alon M., Gilad, Oren, Xia, Liang, Izumiya, Yoshihiro, Choi, Jonathan, Tsalenko, Anya, ...
Marek's disease virus (MDV) is a highly pathogenic and oncogenic herpesvirus of chickens. MDV encodes a basic leucine zipper (bZIP) protein, Meq (MDV EcoQ). The bZIP domain of Meq shares homology...
Multilocus analysis of SNP and metabolic data within a given pathway
Kristensen, Vessela N, Tsalenko, Anya, Geisler, Jurgen, Faldaas, Anne, Grenaker, Grethe Irene, Lingjærde, Ole Christian, ...
Genetic variation in putative regulatory loci controlling gene expression in breast cancer
Kristensen, Vessela N., Edvardsen, Hege, Tsalenko, Anya, Nordgard, Silje H., Sørlie, Therese, Sharan, Roded, ...
Candidate single-nucleotide polymorphisms (SNPs) were analyzed for associations to an unselected whole genome pool of tumor mRNA transcripts in 50 unrelated patients with breast cancer. SNPs were...
Discovering Motifs in Ranked Lists of DNA Sequences
Eden, Eran, Lipson, Doron, Yogev, Sivan, Yakhini, Zohar
Computational methods for discovery of sequence elements that are enriched in a target set compared with a background set are fundamental in molecular biology research. One example is the discovery...
Small Deletion Variants Have Stable Breakpoints Commonly Associated with Alu Elements
De Smith, Adam J., Walters, Robin G., Coin, Lachlan J. M., Steinfeld, Israel, Yakhini, Zohar, Sladek, Rob, ...
Copy number variants (CNVs) contribute significantly to human genomic variation, with over 5000 loci reported, covering more than 18% of the euchromatic human genome. Little is known, however, about...