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ORCIDZohar Yakhini
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- affiliation: Reichman University, Herzliya, Israel
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2020 – today
- 2025
[i15]Tuan Thanh Nguyen, Chen Wang, Kui Cai, Yiwei Zhang, Zohar Yakhini:
Constrained Coding for Composite DNA: Channel Capacity and Efficient Constructions. CoRR abs/2501.10645 (2025)- [i14]Shoham Shimon Berrebi, Eitan Yaakobi, Zohar Yakhini, Daniella Bar-Lev:
The Labeled Coupon Collector Problem with Random Sample Sizes and Partial Recovery. CoRR abs/2502.02968 (2025) - 2024
- [j40]Ron Zeira
, Leon Anavy, Zohar Yakhini, Ehud Rivlin, Daniel Freedman:
HIPI: Spatially resolved multiplexed protein expression inferred from H&E WSIs. PLoS Comput. Biol. 20(9): 1012501 (2024) - [j39]Adi Akavia, Ben Galili, Hayim Shaul, Mor Weiss, Zohar Yakhini:
Privacy Preserving Feature Selection for Sparse Linear Regression. Proc. Priv. Enhancing Technol. 2024(1): 300-313 (2024) - [j38]Roy Shafir, Omer Sabary, Leon Anavy, Eitan Yaakobi, Zohar Yakhini:
Sequence Design and Reconstruction Under the Repeat Channel in Enzymatic DNA Synthesis. IEEE Trans. Commun. 72(2): 675-691 (2024) - [j37]Inbal Preuss, Ben Galili, Zohar Yakhini, Leon Anavy:
Sequencing Coverage Analysis for Combinatorial DNA-Based Storage Systems. IEEE Trans. Mol. Biol. Multi Scale Commun. 10(2): 297-316 (2024) - [c33]Idan Cohen, Aviv Yehezkel, Zohar Yakhini:
Efficient Random Sampling from Very Large Databases. DEXA (1) 2024: 124-138 - [c32]Omer Sabary, Inbal Preuss, Ryan Gabrys, Zohar Yakhini, Leon Anavy, Eitan Yaakobi:
Error-Correcting Codes for Combinatorial Composite DNA. ISIT 2024: 109-114 - [c31]Daniella Bar-Lev, Tuvi Etzion, Eitan Yaakobi, Zohar Yakhini:
Representing Information on DNA Using Patterns Induced by Enzymatic Labeling. ISIT 2024: 1943-1948 - [c30]Amit Zrihan, Eitan Yaakobi, Zohar Yakhini:
Studying the Cycle Complexity of DNA Synthesis. ITW 2024: 633-638 - [i13]Omer Sabary, Inbal Preuss, Ryan Gabrys, Zohar Yakhini, Leon Anavy, Eitan Yaakobi:
Error-Correcting Codes for Combinatorial DNA Composite. CoRR abs/2401.15666 (2024) - [i12]Nir Weingarten, Zohar Yakhini, Moshe Butman, Ran Gilad-Bachrach:
Tighter Bounds on the Information Bottleneck with Application to Deep Learning. CoRR abs/2402.07639 (2024) - [i11]Daniella Bar-Lev, Tuvi Etzion, Eitan Yaakobi, Zohar Yakhini:
Representing Information on DNA using Patterns Induced by Enzymatic Labeling. CoRR abs/2405.08475 (2024) - [i10]Alona Levy-Jurgenson, Zohar Yakhini:
Generative Topological Networks. CoRR abs/2406.15152 (2024) - [i9]Yi Ding, Xuan He, Tuan Thanh Nguyen, Wentu Song, Zohar Yakhini, Eitan Yaakobi, Linqiang Pan, Xiaohu Tang, Kui Cai:
High Information Density and Low Coverage Data Storage in DNA with Efficient Channel Coding Schemes. CoRR abs/2410.04886 (2024) - [i8]Amit Zrihan, Eitan Yaakobi, Zohar Yakhini:
Studying the Cycle Complexity of DNA Synthesis. CoRR abs/2412.05865 (2024) - 2023
- [c29]Adi Akavia, Ben Galili, Hayim Shaul, Mor Weiss, Zohar Yakhini:
Efficient Privacy-Preserving Viral Strain Classification via k-mer Signatures and FHE. CSF 2023: 489-504 - [i7]Adi Akavia, Ben Galili, Hayim Shaul, Mor Weiss, Zohar Yakhini:
Efficient Privacy-Preserving Viral Strain Classification via k-mer Signatures and FHE. IACR Cryptol. ePrint Arch. 2023: 9 (2023) - [i6]Adi Akavia, Ben Galili, Hayim Shaul, Mor Weiss, Zohar Yakhini:
Privacy Preserving Feature Selection for Sparse Linear Regression. IACR Cryptol. ePrint Arch. 2023: 1354 (2023) - 2022
- [j36]Chloé Benmussa, Jessica R. Cauchard, Zohar Yakhini:
Generating Alerts from Breathing Pattern Outliers. Sensors 22(16): 6306 (2022) - 2021
- [j35]Omer Sabary, Yoav Orlev, Roy Shafir, Leon Anavy, Eitan Yaakobi, Zohar Yakhini:
SOLQC: Synthetic Oligo Library Quality Control tool. Bioinform. 37(5): 720-722 (2021) - [j34]Alona Levy-Jurgenson, Xavier Tekpli, Zohar Yakhini:
Assessing heterogeneity in spatial data using the HTA index with applications to spatial transcriptomics and imaging. Bioinform. 37(21): 3796-3804 (2021) - [j33]Alona Levy-Jurgenson, Xavier Tekpli, Zohar Yakhini:
Erratum to: Assessing heterogeneity in spatial data using the HTA index with applications to spatial transcriptomics and imaging. Bioinform. 37(22): 4296 (2021) - [j32]Ben Galili, Anat Samohi, Zohar Yakhini:
On the stability of log-rank test under labeling errors. Bioinform. 37(22): 4297 (2021) - [j31]Ben Galili, Anat Samohi, Zohar Yakhini:
On the stability of log-rank test under labeling errors. Bioinform. 37(23): 4451-4459 (2021) - [j30]Shay Ben-Elazar, Miriam Ragle Aure, Kristin Jonsdottir, Suvi-Katri Leivonen, Vessela N. Kristensen, Emiel A. M. Janssen, Kristine Kleivi Sahlberg, Ole Christian Lingjærde, Zohar Yakhini:
miRNA normalization enables joint analysis of several datasets to increase sensitivity and to reveal novel miRNAs differentially expressed in breast cancer. PLoS Comput. Biol. 17(2) (2021) - [c28]Alon Oring, Zohar Yakhini, Yacov Hel-Or:
Autoencoder Image Interpolation by Shaping the Latent Space. ICML 2021: 8281-8290 - [c27]Roy Shafir, Omer Sabary, Leon Anavy, Eitan Yaakobi, Zohar Yakhini:
Sequence Reconstruction Under Stutter Noise in Enzymatic DNA Synthesis. ITW 2021: 1-6 - 2020
- [c26]Anat Bremler-Barr, Haim Levy, Zohar Yakhini:
IoT or NoT: Identifying IoT Devices in a Short Time Scale. NOMS 2020: 1-9 - [i5]Alon Oring, Zohar Yakhini, Yacov Hel-Or:
Faithful Autoencoder Interpolation by Shaping the Latent Space. CoRR abs/2008.01487 (2020)
2010 – 2019
- 2019
- [c25]Alona Levy-Jurgenson, Xavier Tekpli, Vessela N. Kristensen, Zohar Yakhini:
Predicting Methylation from Sequence and Gene Expression Using Deep Learning with Attention. AlCoB 2019: 179-190 - [c24]Adi Akavia, Hayim Shaul, Mor Weiss, Zohar Yakhini:
Linear-Regression on Packed Encrypted Data in the Two-Server Model. WAHC@CCS 2019: 21-32 - [i4]Anat Bremler-Barr, Haim Levy, Zohar Yakhini:
IoT or NoT: Identifying IoT Devices in a ShortTime Scale. CoRR abs/1910.05647 (2019) - [i3]Adi Akavia, Hayim Shaul, Mor Weiss, Zohar Yakhini:
Linear-Regression on Packed Encrypted Data in the Two-Server Model. IACR Cryptol. ePrint Arch. 2019: 1238 (2019) - 2018
- [j29]Maya Polishchuk, Inbal Paz, Zohar Yakhini, Yael Mandel-Gutfreund:
SMARTIV: combined sequence and structure de-novo motif discovery for in-vivo RNA binding data. Nucleic Acids Res. 46(Webserver-Issue): W221-W228 (2018) - 2017
- [j28]Dalia Cohn-Alperovich, Alona Rabner, Ilona Kifer, Yael Mandel-Gutfreund, Zohar Yakhini:
Mutual enrichment in aggregated ranked lists with applications to gene expression regulation. Bioinform. 33(3): 470 (2017) - [j27]Ilona Kifer, Rui Mamede Branca, Amir Ben-Dor, Linhui Zhai, Ping Xu, Janne Lehtiö, Zohar Yakhini:
Optimizing Analytical Depth and Cost Efficiency of IEF-LC/MS Proteomics. IEEE ACM Trans. Comput. Biol. Bioinform. 14(2): 272-281 (2017) - 2016
- [j26]Dalia Cohn-Alperovich, Alona Rabner, Ilona Kifer, Yael Mandel-Gutfreund, Zohar Yakhini:
Mutual enrichment in aggregated ranked lists with applications to gene expression regulation. Bioinform. 32(17): 464-472 (2016) - [j25]Shay Ben-Elazar, Benny Chor, Zohar Yakhini:
Extending partial haplotypes to full genome haplotypes using chromosome conformation capture data. Bioinform. 32(17): 559-566 (2016) - 2015
- [j24]Israel Steinfeld, Roy Navon, Michael L. Creech, Zohar Yakhini, Anya Tsalenko:
ENViz: a Cytoscape App for integrated statistical analysis and visualization of sample-matched data with multiple data types. Bioinform. 31(10): 1683-1685 (2015) - [j23]Matan Drory Retwitzer, Maya Polishchuk, Elena Churkin, Ilona Kifer, Zohar Yakhini, Danny Barash:
RNAPattMatch: a web server for RNA sequence/structure motif detection based on pattern matching with flexible gaps. Nucleic Acids Res. 43(Webserver-Issue): W507-W512 (2015) - 2014
- [j22]Limor Leibovich, Zohar Yakhini:
Mutual enrichment in ranked lists and the statistical assessment of position weight matrix motifs. Algorithms Mol. Biol. 9: 11 (2014) - [c23]Ilona Kifer, Amir Ben-Dor, Zohar Yakhini, Rui Mamede Branca, Janne Lehtiö, Ping Xu:
Optimizing analytical depth and cost efficiency of IEF-LC/MS proteomics. BIBM 2014: 99-106 - 2013
- [j21]Limor Leibovich, Inbal Paz, Zohar Yakhini, Yael Mandel-Gutfreund:
DRIMust: a web server for discovering rank imbalanced motifs using suffix trees. Nucleic Acids Res. 41(Webserver-Issue): 174-179 (2013) - [c22]Limor Leibovich, Zohar Yakhini:
Mutual Enrichment in Ranked Lists and the Statistical Assessment of Position Weight Matrix Motifs. WABI 2013: 273-286 - [i2]Nir Friedman, Zohar Yakhini:
On the Sample Complexity of Learning Bayesian Networks. CoRR abs/1302.3579 (2013) - 2012
- [j20]Yonatan Aumann, Moshe Lewenstein, Oren Melamud, Ron Y. Pinter, Zohar Yakhini:
Dotted interval graphs. ACM Trans. Algorithms 8(2): 9:1-9:21 (2012) - [i1]Ari Frank, Dan Geiger, Zohar Yakhini:
A Distance-Based Branch and Bound Feature Selection Algorithm. CoRR abs/1212.2488 (2012) - 2011
- [j19]Zohar Yakhini, Igor Jurisica:
Cancer Computational Biology. BMC Bioinform. 12: 120 (2011)
2000 – 2009
- 2009
- [j18]Eran Eden, Roy Navon, Israel Steinfeld, Doron Lipson, Zohar Yakhini:
GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists. BMC Bioinform. 10 (2009) - 2008
- [c21]Israel Steinfeld, Roy Navon, Diego Ardigò, Ivana Zavaroni, Zohar Yakhini:
Clinically driven semi-supervised class discovery in gene expression data. ECCB 2008: 90-97 - 2007
- [j17]Doron Lipson, Zohar Yakhini, Yonatan Aumann:
Optimization of probe coverage for high-resolution oligonucleotide aCGH. Bioinform. 23(2): 77-83 (2007) - [j16]Nir Yosef, Zohar Yakhini, Anya Tsalenko, Vessela N. Kristensen, Anne-Lise Børresen-Dale, Eytan Ruppin, Roded Sharan:
A supervised approach for identifying discriminating genotype patterns and its application to breast cancer data. Bioinform. 23(2): 91-98 (2007) - [j15]Oleg Rokhlenko, Ydo Wexler, Zohar Yakhini:
Similarities and differences of gene expression in yeast stress conditions. Bioinform. 23(2): 184-190 (2007) - [j14]Israel Steinfeld, Roy Navon, Diego Ardigò, Ivana Zavaroni, Zohar Yakhini:
Semi-supervised class discovery using quantitative phenotypes - CVD as a case study. BMC Bioinform. 8(S-8) (2007) - [j13]Eran Eden, Doron Lipson, Sivan Yogev, Zohar Yakhini:
Discovering Motifs in Ranked Lists of DNA Sequences. PLoS Comput. Biol. 3(3) (2007) - [c20]Amir Ben-Dor, Doron Lipson, Anya Tsalenko, Mark Reimers, Lars O. Baumbusch, Michael T. Barrett, John N. Weinstein, Anne-Lise Børresen-Dale, Zohar Yakhini:
Framework for Identifying Common Aberrations in DNA Copy Number Data. RECOMB 2007: 122-136 - 2006
- [j12]Anya Tsalenko, Roded Sharan, Vessela N. Kristensen, Hege Edvardsen, Anne-Lise Børresen-Dale, Amir Ben-Dor, Zohar Yakhini:
Analysis of Snp-expression Association Matrices. J. Bioinform. Comput. Biol. 4(2): 259-274 (2006) - [j11]Doron Lipson, Yonatan Aumann, Amir Ben-Dor, Nathan Linial, Zohar Yakhini:
Efficient Calculation of Interval Scores for DNA Copy Number Data Analysis. J. Comput. Biol. 13(2): 215-228 (2006) - [j10]Chaya Ben-Zaken Zilberstein, Michal Ziv-Ukelson, Ron Y. Pinter, Zohar Yakhini:
A High-Throughput Approach for Associating MicroRNAs with Their Activity Conditions. J. Comput. Biol. 13(2): 245-266 (2006) - 2005
- [j9]Robert Kincaid, Amir Ben-Dor, Zohar Yakhini:
Exploratory visualization of array-based comparative genomic hybridization. Inf. Vis. 4(3): 176-190 (2005) - [j8]Roded Sharan, Jens Gramm, Zohar Yakhini, Amir Ben-Dor:
Multiplexing Schemes for Generic SNP Genotyping Assays. J. Comput. Biol. 12(5): 514-533 (2005) - [j7]Ydo Wexler, Zohar Yakhini, Yechezkel Kashi, Dan Geiger:
Finding Approximate Tandem Repeats in Genomic Sequences. J. Comput. Biol. 12(7): 928-942 (2005) - [j6]Yonatan Aumann, Efrat Manisterski, Zohar Yakhini:
Designing optimally multiplexed SNP genotyping assays. J. Comput. Syst. Sci. 70(3): 399-417 (2005) - [c19]Anya Tsalenko, Roded Sharan, Hege Edvardsen, Vessela N. Kristensen, Anne-Lise Børresen-Dale, Amir Ben-Dor, Zohar Yakhini:
Analysis of SNP-Expression Association Matrices. CSB 2005: 135-143 - [c18]Doron Lipson, Yonatan Aumann, Amir Ben-Dor, Nathan Linial, Zohar Yakhini:
Efficient Calculation of Interval Scores for DNA Copy Number Data Analysis. RECOMB 2005: 83-100 - [c17]Chaya Ben-Zaken Zilberstein, Michal Ziv-Ukelson, Ron Y. Pinter, Zohar Yakhini:
A High-Throughput Approach for Associating microRNAs with Their Activity Conditions. RECOMB 2005: 133-151 - [c16]Yonatan Aumann, Moshe Lewenstein, Oren Melamud, Ron Y. Pinter, Zohar Yakhini:
Dotted interval graphs and high throughput genotyping. SODA 2005: 339-348 - 2004
- [j5]Amir Ben-Dor, Tzvika Hartman, Richard M. Karp, Benno Schwikowski, Roded Sharan, Zohar Yakhini:
Towards Optimally Multiplexed Applications of Universal Arrays. J. Comput. Biol. 11(2/3): 476-492 (2004) - [c15]Roded Sharan, Amir Ben-Dor, Zohar Yakhini:
Multiplexing Schemes for Generic SNP Genotyping Assays. Pacific Symposium on Biocomputing 2004: 140-151 - [c14]Chaya Ben-Zaken Zilberstein, Eleazar Eskin, Zohar Yakhini:
Using Expression Data to Discover RNA and DNA Regulatory Sequence Motifs. Regulatory Genomics 2004: 65-78 - [c13]Ydo Wexler, Zohar Yakhini, Yechezkel Kashi, Dan Geiger:
Finding approximate tandem repeats in genomic sequences. RECOMB 2004: 223-232 - [c12]Doron Lipson, Amir Ben-Dor, Elinor Dehan, Zohar Yakhini:
Joint Analysis of DNA Copy Numbers and Gene Expression Levels. WABI 2004: 135-146 - 2003
- [j4]Amir Ben-Dor, Benny Chor, Richard M. Karp, Zohar Yakhini:
Discovering Local Structure in Gene Expression Data: The Order-Preserving Submatrix Problem. J. Comput. Biol. 10(3/4): 373-384 (2003) - [c11]Anna Tsalenko, Amir Ben-Dor, Nancy Cox, Zohar Yakhini:
Methods for Analysis and Visualization of SNP Genotype Data for Complex Diseases. Pacific Symposium on Biocomputing 2003: 548-561 - [c10]Amir Ben-Dor, Tzvika Hartman, Benno Schwikowski, Roded Sharan, Zohar Yakhini:
Towards optimally multiplexed applications of universal DNA tag systems. RECOMB 2003: 48-56 - [c9]Ari Frank, Dan Geiger, Zohar Yakhini:
A Distance-Based Branch and Bound Feature Selection Algorithm. UAI 2003: 241-248 - [c8]Yonatan Aumann, Efrat Manisterski, Zohar Yakhini:
Designing Optimally Multiplexed SNP Genotyping Assays. WABI 2003: 320-338 - 2002
- [c7]Amir Ben-Dor, Benny Chor, Richard M. Karp, Zohar Yakhini:
Discovering local structure in gene expression data: the order-preserving submatrix problem. RECOMB 2002: 49-57 - [c6]Doron Lipson, Peter Webb, Zohar Yakhini:
Designing Specific Oligonucleotide Probes for the Entire S. cerevisiae Transcriptome. WABI 2002: 491-505 - 2001
- [c5]Amir Ben-Dor, Nir Friedman, Zohar Yakhini:
Class discovery in gene expression data. RECOMB 2001: 31-38 - 2000
- [j3]Amir Ben-Dor, Richard M. Karp, Benno Schwikowski, Zohar Yakhini:
Universal DNA Tag Systems: A Combinatorial Design Scheme. J. Comput. Biol. 7(3-4): 503-519 (2000) - [j2]Amir Ben-Dor, Laurakay Bruhn, Nir Friedman, Iftach Nachman, Michèl Schummer, Zohar Yakhini:
Tissue Classification with Gene Expression Profiles. J. Comput. Biol. 7(3-4): 559-583 (2000) - [c4]Amir Ben-Dor, Laurakay Bruhn, Nir Friedman, Iftach Nachman, Michèl Schummer, Zohar Yakhini:
Tissue classification with gene expression profiles. RECOMB 2000: 54-64 - [c3]Amir Ben-Dor, Richard M. Karp, Benno Schwikowski, Zohar Yakhini:
Universal DNA tag systems: a combinatorial design scheme. RECOMB 2000: 65-75
1990 – 1999
- 1999
- [j1]Amir Ben-Dor, Ron Shamir, Zohar Yakhini:
Clustering Gene Expression Patterns. J. Comput. Biol. 6(3/4): 281-297 (1999) - [c2]Amir Ben-Dor, Zohar Yakhini:
Clustering gene expression patterns. RECOMB 1999: 33-42 - 1996
- [c1]Nir Friedman, Zohar Yakhini:
On the Sample Complexity of Learning Bayesian Networks. UAI 1996: 274-282
Coauthor Index
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