Eran Segal

Eran Segal

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Eran Segal

Publications by authors named "Eran Segal"

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Clinically Accurate Prediction of Glucose Levels in Patients with Type 1 Diabetes.

Diabetes Technol Ther 2020 Mar 6. Epub 2020 Mar 6.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1089/dia.2019.0435DOI Listing
March 2020

Axes of a revolution: challenges and promises of big data in healthcare.

Nat Med 2020 01 13;26(1):29-38. Epub 2020 Jan 13.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1038/s41591-019-0727-5DOI Listing
January 2020

Prediction of gestational diabetes based on nationwide electronic health records.

Nat Med 2020 01 13;26(1):71-76. Epub 2020 Jan 13.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1038/s41591-019-0724-8DOI Listing
January 2020

Rich data sets could end costly drug discovery.

Authors:
Eran Segal

Nature 2020 01;577(7792):S19

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http://dx.doi.org/10.1038/d41586-020-00200-7DOI Listing
January 2020

Sequence determinants of polyadenylation-mediated regulation.

Genome Res 2019 10 17;29(10):1635-1647. Epub 2019 Sep 17.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 7610001, Israel.

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http://dx.doi.org/10.1101/gr.247312.118DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6771402PMC
October 2019

Dissecting splicing decisions and cell-to-cell variability with designed sequence libraries.

Nat Commun 2019 10 8;10(1):4572. Epub 2019 Oct 8.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, 7610001, Israel.

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http://dx.doi.org/10.1038/s41467-019-12642-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6783452PMC
October 2019

The pros, cons, and many unknowns of probiotics.

Nat Med 2019 05 6;25(5):716-729. Epub 2019 May 6.

Immunology Department, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1038/s41591-019-0439-xDOI Listing
May 2019

The rationale and design of the personal diet study, a randomized clinical trial evaluating a personalized approach to weight loss in individuals with pre-diabetes and early-stage type 2 diabetes.

Contemp Clin Trials 2019 04 4;79:80-88. Epub 2019 Mar 4.

Department of Population Health, Center for Healthful Behavior Change, New York University School of Medicine, New York, NY, USA; Department of Medicine, Division of Endocrinology, Diabetes, and Metabolism, New York University School of Medicine, New York, NY, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cct.2019.03.001DOI Listing
April 2019

Structural variation in the gut microbiome associates with host health.

Nature 2019 04 27;568(7750):43-48. Epub 2019 Mar 27.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel.

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http://www.nature.com/articles/s41586-019-1065-y
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http://dx.doi.org/10.1038/s41586-019-1065-yDOI Listing
April 2019

Systematic interrogation of human promoters.

Genome Res 2019 02 8;29(2):171-183. Epub 2019 Jan 8.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://genome.cshlp.org/lookup/doi/10.1101/gr.236075.118
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http://dx.doi.org/10.1101/gr.236075.118DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6360817PMC
February 2019

A Significant Expansion of Our Understanding of the Composition of the Human Microbiome.

mSystems 2019 Jan-Feb;4(1). Epub 2019 Jan 29.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1128/mSystems.00010-19DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6351723PMC
January 2019

The Helix Twist: Damage and Repair Follows the DNA Minor Groove.

Cell 2018 11;175(4):902-904

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 7610001, Israel; Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 7610001, Israel. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2018.10.034DOI Listing
November 2018

Functional characterization of the p53 "mutome".

Mol Cell Oncol 2018 25;5(6):e1511207. Epub 2018 Sep 25.

Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1080/23723556.2018.1511207DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6276857PMC
September 2018

Host genetics and microbiome associations through the lens of genome wide association studies.

Curr Opin Microbiol 2018 08 14;44:9-19. Epub 2018 Jun 14.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 7610001, Israel; Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 7610001, Israel. Electronic address:

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http://dx.doi.org/10.1016/j.mib.2018.05.003DOI Listing
August 2018

A Systematic p53 Mutation Library Links Differential Functional Impact to Cancer Mutation Pattern and Evolutionary Conservation.

Mol Cell 2018 07;71(1):178-190.e8

Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 7610001, Israel; Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 7610001, Israel. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2018.06.012DOI Listing
July 2018

Prediction of acute myeloid leukaemia risk in healthy individuals.

Nature 2018 07 9;559(7714):400-404. Epub 2018 Jul 9.

Princess Margaret Cancer Centre, University Health Network (UHN), Toronto, Ontario, Canada.

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http://dx.doi.org/10.1038/s41586-018-0317-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6485381PMC
July 2018

Towards utilization of the human genome and microbiome for personalized nutrition.

Curr Opin Biotechnol 2018 06 7;51:57-63. Epub 2017 Dec 7.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, 76100 Rehovot, Israel; Department of Molecular Cell Biology, Weizmann Institute of Science, 76100 Rehovot, Israel. Electronic address:

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http://dx.doi.org/10.1016/j.copbio.2017.11.013DOI Listing
June 2018

Editorial overview: Systems biology: Data, discovery, delivery.

Curr Opin Biotechnol 2018 06;51:vii-viii

Weizmann Institute of Science, Rehovot 76100, Israel. Electronic address:

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http://dx.doi.org/10.1016/j.copbio.2018.05.002DOI Listing
June 2018

Role of the gut microbiota in nutrition and health.

BMJ 2018 Jun 13;361:k2179. Epub 2018 Jun 13.

Department of Twin Research and Genetic Epidemiology, King's College London, London, UK

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6000740PMC
http://dx.doi.org/10.1136/bmj.k2179DOI Listing
June 2018

Unraveling the determinants of microRNA mediated regulation using a massively parallel reporter assay.

Nat Commun 2018 02 6;9(1):529. Epub 2018 Feb 6.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, 7610001, Rehovot, Israel.

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http://dx.doi.org/10.1038/s41467-018-02980-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5802814PMC
February 2018

Microbiome at the Frontier of Personalized Medicine.

Mayo Clin Proc 2017 Dec;92(12):1855-1864

Department of Immunology, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1016/j.mayocp.2017.10.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5730337PMC
December 2017

Sequence features of viral and human Internal Ribosome Entry Sites predictive of their activity.

PLoS Comput Biol 2017 Sep 18;13(9):e1005734. Epub 2017 Sep 18.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1371/journal.pcbi.1005734DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5630158PMC
September 2017

Bread Affects Clinical Parameters and Induces Gut Microbiome-Associated Personal Glycemic Responses.

Cell Metab 2017 Jun;25(6):1243-1253.e5

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 7610001, Israel; Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 7610001, Israel. Electronic address:

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http://dx.doi.org/10.1016/j.cmet.2017.05.002DOI Listing
June 2017

Systematic Investigation of Transcription Factor Activity in the Context of Chromatin Using Massively Parallel Binding and Expression Assays.

Mol Cell 2017 Feb;65(4):604-617.e6

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel; Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2017.01.007DOI Listing
February 2017

Large-scale mapping of gene regulatory logic reveals context-dependent repression by transcriptional activators.

Genome Res 2017 01 13;27(1):87-94. Epub 2016 Dec 13.

Department of Experimental and Health Sciences, Universitat Pompeu Fabra, 08003 Barcelona, Spain.

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http://dx.doi.org/10.1101/gr.212316.116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5204347PMC
January 2017

Toward a systematic understanding of translational regulatory elements in human and viruses.

RNA Biol 2016 Oct 21;13(10):927-933. Epub 2016 Jul 21.

a Department of Computer Science and Applied Mathematics , Weizmann Institute of Science , Rehovot , Israel.

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http://dx.doi.org/10.1080/15476286.2016.1212802DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5056782PMC
October 2016

A Minimalistic Resource Allocation Model to Explain Ubiquitous Increase in Protein Expression with Growth Rate.

PLoS One 2016 13;11(4):e0153344. Epub 2016 Apr 13.

Department of Plant and Environmental Sciences, Weizmann Institute of Science, Rehovot, Israel.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0153344PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4830519PMC
September 2016

Massively Parallel Interrogation of the Effects of Gene Expression Levels on Fitness.

Cell 2016 Aug 18;166(5):1282-1294.e18. Epub 2016 Aug 18.

Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel; Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2016.07.024DOI Listing
August 2016

How transcription factors identify regulatory sites in genomic sequence.

Subcell Biochem 2011 ;52:193-204

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, 76100, Israel,

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http://dx.doi.org/10.1007/978-90-481-9069-0_9DOI Listing
April 2016

Talking about cross-talk: the immune system and the microbiome.

Genome Biol 2016 Mar 17;17:50. Epub 2016 Mar 17.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, 7610001, Israel.

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http://dx.doi.org/10.1186/s13059-016-0921-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4794930PMC
March 2016

Non-caloric artificial sweeteners and the microbiome: findings and challenges.

Gut Microbes 2015 1;6(2):149-55. Epub 2015 Apr 1.

a Department of Immunology ; Weizmann Institute of Science ; Rehovot , Israel.

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http://dx.doi.org/10.1080/19490976.2015.1017700DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4615743PMC
January 2016

A day in the life of the meta-organism: diurnal rhythms of the intestinal microbiome and its host.

Gut Microbes 2015 ;6(2):137-42

a Department of Immunology ; Weizmann Institute of Science ; Rehovot , Israel.

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http://dx.doi.org/10.1080/19490976.2015.1016690DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4615721PMC
January 2016

Taking it Personally: Personalized Utilization of the Human Microbiome in Health and Disease.

Cell Host Microbe 2016 Jan;19(1):12-20

Department of Immunology, Weizmann Institute of Science, Rehovot 7610001, Israel. Electronic address:

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http://www.cell.com/cell-host-microbe/pdf/S1931-3128(15)0050
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http://linkinghub.elsevier.com/retrieve/pii/S193131281500508
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http://dx.doi.org/10.1016/j.chom.2015.12.016DOI Listing
January 2016

Comparative genetics. Systematic discovery of cap-independent translation sequences in human and viral genomes.

Science 2016 Jan 14;351(6270). Epub 2016 Jan 14.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel. Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1126/science.aad4939DOI Listing
January 2016

Noise in gene expression is coupled to growth rate.

Genome Res 2015 Dec 9;25(12):1893-902. Epub 2015 Sep 9.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel; Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel;

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http://genome.cshlp.org/lookup/doi/10.1101/gr.191635.115
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http://dx.doi.org/10.1101/gr.191635.115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4665010PMC
December 2015

Personalized Nutrition by Prediction of Glycemic Responses.

Cell 2015 Nov;163(5):1079-1094

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 7610001, Israel; Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 7610001, Israel. Electronic address:

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http://www.wisdom.weizmann.ac.il/~/eran/zeevi_cell_2015.pdf
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http://linkinghub.elsevier.com/retrieve/pii/S009286741501481
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http://dx.doi.org/10.1016/j.cell.2015.11.001DOI Listing
November 2015

Unraveling determinants of transcription factor binding outside the core binding site.

Genome Res 2015 Jul 11;25(7):1018-29. Epub 2015 Mar 11.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel; Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel;

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http://dx.doi.org/10.1101/gr.185033.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4484385PMC
July 2015

Core promoter sequence in yeast is a major determinant of expression level.

Genome Res 2015 Jul 12;25(7):1008-17. Epub 2015 May 12.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, 7610001 Rehovot, Israel; Department of Molecular Cell Biology, Weizmann Institute of Science, 7610001 Rehovot, Israel;

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http://dx.doi.org/10.1101/gr.188193.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4484384PMC
July 2015

GenoExp: a web tool for predicting gene expression levels from single nucleotide polymorphisms.

Bioinformatics 2015 Jun 30;31(11):1848-50. Epub 2015 Jan 30.

Department of Computer Science and Applied Mathematics and Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel Department of Computer Science and Applied Mathematics and Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1093/bioinformatics/btv050DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4443679PMC
June 2015

Systematic dissection of the sequence determinants of gene 3' end mediated expression control.

PLoS Genet 2015 Apr 15;11(4):e1005147. Epub 2015 Apr 15.

Department of Computer Science and Applied Mathematics, The Weizmann Institute of Science, Rehovot, Israel; Department of Molecular Cell Biology, The Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1371/journal.pgen.1005147DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4398552PMC
April 2015

Editorial overview: Genome architecture and expression.

Curr Opin Genet Dev 2015 Apr 4;31:v-vi. Epub 2015 Jun 4.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Ramat Hasharon 47301, Israel. Electronic address:

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http://dx.doi.org/10.1016/j.gde.2015.05.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4476266PMC
April 2015

[Acute subdural hematoma following spine surgery].

Harefuah 2015 Apr;154(4):243-5, 280

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April 2015

[Airway management in the morbidly obese patient].

Harefuah 2015 Apr;154(4):274-8

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April 2015

Molecular dissection of the genetic mechanisms that underlie expression conservation in orthologous yeast ribosomal promoters.

Genome Res 2014 Dec 7;24(12):1991-9. Epub 2014 Oct 7.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, 7610001, Israel; Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, 7610001, Israel

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http://dx.doi.org/10.1101/gr.179259.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4248315PMC
December 2014

A shared architecture for promoters and enhancers.

Nat Genet 2014 Dec;46(12):1253-4

Department of Computer Science and Applied Mathematics and the Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1038/ng.3152DOI Listing
December 2014

Probing the effect of promoters on noise in gene expression using thousands of designed sequences.

Genome Res 2014 Oct 16;24(10):1698-706. Epub 2014 Jul 16.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel; Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot 76100, Israel;

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http://dx.doi.org/10.1101/gr.168773.113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4199362PMC
October 2014

Religious objections to brain death.

Authors:
Eran Segal

J Crit Care 2014 Oct 29;29(5):875-7. Epub 2014 Jun 29.

Department of Anesthesia, Critical Care and Pain Medicine, Assuta Medical Centers, Tel Aviv, Israel. Electronic address:

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http://dx.doi.org/10.1016/j.jcrc.2014.06.017DOI Listing
October 2014

Host-parasite network structure is associated with community-level immunogenetic diversity.

Nat Commun 2014 Oct 14;5:5172. Epub 2014 Oct 14.

Integrative Ecology Group, Estación Biológica de Doñana (EBD-CSIC), Seville 41092, Spain.

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http://dx.doi.org/10.1038/ncomms6172DOI Listing
October 2014

In pursuit of design principles of regulatory sequences.

Nat Rev Genet 2014 Jul 10;15(7):453-68. Epub 2014 Jun 10.

Department of Molecular Cell Biology, and Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1038/nrg3684DOI Listing
July 2014

The grammar of transcriptional regulation.

Hum Genet 2014 Jun 5;133(6):701-11. Epub 2014 Jan 5.

Department of Computer Science, Applied Mathematics and Department of Molecular Cell Biology, Weizmann Institute of Science, 76100, Rehovot, Israel,

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http://dx.doi.org/10.1007/s00439-013-1413-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4024068PMC
June 2014

Predicting disease risk using bootstrap ranking and classification algorithms.

PLoS Comput Biol 2013 22;9(8):e1003200. Epub 2013 Aug 22.

Dept of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1371/journal.pcbi.1003200DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3749941PMC
February 2014

Landscape and variation of RNA secondary structure across the human transcriptome.

Nature 2014 Jan;505(7485):706-9

Howard Hughes Medical Institute and Program in Epithelial Biology, Stanford University School of Medicine, Stanford, California 94305, USA.

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http://dx.doi.org/10.1038/nature12946DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3973747PMC
January 2014

Promoter sequence determines the relationship between expression level and noise.

PLoS Biol 2013 2;11(4):e1001528. Epub 2013 Apr 2.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1371/journal.pbio.1001528DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3614515PMC
October 2013

Promoters maintain their relative activity levels under different growth conditions.

Mol Syst Biol 2013 Oct 29;9:701. Epub 2013 Oct 29.

1] Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel [2] Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, Israel [3] Department of Plant Sciences, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1038/msb.2013.59DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3817408PMC
October 2013

Deciphering the rules by which 5'-UTR sequences affect protein expression in yeast.

Proc Natl Acad Sci U S A 2013 Jul 5;110(30):E2792-801. Epub 2013 Jul 5.

Departments of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1073/pnas.1222534110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3725075PMC
July 2013

Two DNA-encoded strategies for increasing expression with opposing effects on promoter dynamics and transcriptional noise.

Genome Res 2013 Jun 12;23(6):966-76. Epub 2013 Feb 12.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1101/gr.149096.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3668364PMC
June 2013

Sequence features of yeast and human core promoters that are predictive of maximal promoter activity.

Nucleic Acids Res 2013 Jun 17;41(11):5569-81. Epub 2013 Apr 17.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1093/nar/gkt256DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3675475PMC
June 2013

Determinants of nucleosome positioning.

Nat Struct Mol Biol 2013 Mar;20(3):267-73

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1038/nsmb.2506DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3740156PMC
March 2013

Robust prediction of expression differences among human individuals using only genotype information.

PLoS Genet 2013 Mar 28;9(3):e1003396. Epub 2013 Mar 28.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1371/journal.pgen.1003396DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3610805PMC
March 2013

Genome-wide measurement of RNA folding energies.

Mol Cell 2012 Oct 13;48(2):169-81. Epub 2012 Sep 13.

Howard Hughes Medical Institute and Program in Epithelial Biology, Stanford University, Stanford, CA 94305, USA.

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https://linkinghub.elsevier.com/retrieve/pii/S10972765120069
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http://dx.doi.org/10.1016/j.molcel.2012.08.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3483374PMC
October 2012

Genomics: ENCODE explained.

Nature 2012 Sep;489(7414):52-5

Howard Hughes Medical Institute and the Salk Institute for Biological Studies, La Jolla, California 92037, USA.

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http://www.nature.com/articles/489052a
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http://dx.doi.org/10.1038/489052aDOI Listing
September 2012

Inferring gene regulatory logic from high-throughput measurements of thousands of systematically designed promoters.

Nat Biotechnol 2012 May 20;30(6):521-30. Epub 2012 May 20.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1038/nbt.2205DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3374032PMC
May 2012

Manipulating nucleosome disfavoring sequences allows fine-tune regulation of gene expression in yeast.

Nat Genet 2012 May 27;44(7):743-50. Epub 2012 May 27.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel.

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May 2012

Compensation for differences in gene copy number among yeast ribosomal proteins is encoded within their promoters.

Genome Res 2011 Dec 18;21(12):2114-28. Epub 2011 Oct 18.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1101/gr.119669.110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3227101PMC
December 2011

Understanding the transcriptome through RNA structure.

Nat Rev Genet 2011 Aug 18;12(9):641-55. Epub 2011 Aug 18.

Howard Hughes Medical Institute and Program in Epithelial Biology, Stanford University School of Medicine, Stanford, California 94305, USA.

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http://www.nature.com/articles/nrg3049
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3858389PMC
August 2011

Computational prediction of RNA structural motifs involved in post-transcriptional regulatory processes.

Methods Mol Biol 2011 ;714:467-79

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehoboth, Rehovot, Israel.

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http://dx.doi.org/10.1007/978-1-61779-005-8_28DOI Listing
July 2011

Contribution of histone sequence preferences to nucleosome organization: proposed definitions and methodology.

Genome Biol 2010 30;11(11):140. Epub 2010 Nov 30.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1186/gb-2010-11-11-140DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3156944PMC
June 2011

Mitochondrial function and tissue vitality: bench-to-bedside real-time optical monitoring system.

J Biomed Opt 2011 Jun;16(6):067004

Bar-Ilan University, The Mina & Everard Goodman Faculty of Life-Sciences, Ramat-Gan, 52900 Israel.

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http://dx.doi.org/10.1117/1.3585674DOI Listing
June 2011

High nucleosome occupancy is encoded at X-linked gene promoters in C. elegans.

Genome Res 2011 Feb 22;21(2):237-44. Epub 2010 Dec 22.

Department of Biology, Carolina Center for the Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599-3280, USA.

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http://dx.doi.org/10.1101/gr.115931.110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3032927PMC
February 2011

Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project.

Authors:
Mark B Gerstein Zhi John Lu Eric L Van Nostrand Chao Cheng Bradley I Arshinoff Tao Liu Kevin Y Yip Rebecca Robilotto Andreas Rechtsteiner Kohta Ikegami Pedro Alves Aurelien Chateigner Marc Perry Mitzi Morris Raymond K Auerbach Xin Feng Jing Leng Anne Vielle Wei Niu Kahn Rhrissorrakrai Ashish Agarwal Roger P Alexander Galt Barber Cathleen M Brdlik Jennifer Brennan Jeremy Jean Brouillet Adrian Carr Ming-Sin Cheung Hiram Clawson Sergio Contrino Luke O Dannenberg Abby F Dernburg Arshad Desai Lindsay Dick Andréa C Dosé Jiang Du Thea Egelhofer Sevinc Ercan Ghia Euskirchen Brent Ewing Elise A Feingold Reto Gassmann Peter J Good Phil Green Francois Gullier Michelle Gutwein Mark S Guyer Lukas Habegger Ting Han Jorja G Henikoff Stefan R Henz Angie Hinrichs Heather Holster Tony Hyman A Leo Iniguez Judith Janette Morten Jensen Masaomi Kato W James Kent Ellen Kephart Vishal Khivansara Ekta Khurana John K Kim Paulina Kolasinska-Zwierz Eric C Lai Isabel Latorre Amber Leahey Suzanna Lewis Paul Lloyd Lucas Lochovsky Rebecca F Lowdon Yaniv Lubling Rachel Lyne Michael MacCoss Sebastian D Mackowiak Marco Mangone Sheldon McKay Desirea Mecenas Gennifer Merrihew David M Miller Andrew Muroyama John I Murray Siew-Loon Ooi Hoang Pham Taryn Phippen Elicia A Preston Nikolaus Rajewsky Gunnar Rätsch Heidi Rosenbaum Joel Rozowsky Kim Rutherford Peter Ruzanov Mihail Sarov Rajkumar Sasidharan Andrea Sboner Paul Scheid Eran Segal Hyunjin Shin Chong Shou Frank J Slack Cindie Slightam Richard Smith William C Spencer E O Stinson Scott Taing Teruaki Takasaki Dionne Vafeados Ksenia Voronina Guilin Wang Nicole L Washington Christina M Whittle Beijing Wu Koon-Kiu Yan Georg Zeller Zheng Zha Mei Zhong Xingliang Zhou Julie Ahringer Susan Strome Kristin C Gunsalus Gos Micklem X Shirley Liu Valerie Reinke Stuart K Kim LaDeana W Hillier Steven Henikoff Fabio Piano Michael Snyder Lincoln Stein Jason D Lieb Robert H Waterston

Science 2010 Dec 22;330(6012):1775-87. Epub 2010 Dec 22.

Program in Computational Biology and Bioinformatics, Yale University, Bass 432, 266 Whitney Avenue, New Haven, CT 06520, USA.

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http://dx.doi.org/10.1126/science.1196914DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3142569PMC
December 2010

Widespread compensatory evolution conserves DNA-encoded nucleosome organization in yeast.

PLoS Comput Biol 2010 Dec 23;6(12):e1001039. Epub 2010 Dec 23.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, Israel.

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http://dx.doi.org/10.1371/journal.pcbi.1001039DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3009600PMC
December 2010

Overlapping codes within protein-coding sequences.

Genome Res 2010 Nov 14;20(11):1582-9. Epub 2010 Sep 14.

Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel

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http://dx.doi.org/10.1101/gr.105072.110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2963821PMC
November 2010

p53 binds preferentially to genomic regions with high DNA-encoded nucleosome occupancy.

Genome Res 2010 Oct 17;20(10):1361-8. Epub 2010 Aug 17.

Department of Molecular Cell Biology, The Weizmann Institute, Rehovot 76100, Israel.

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http://dx.doi.org/10.1101/gr.103945.109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2945185PMC
October 2010

Genome-wide measurement of RNA secondary structure in yeast.

Nature 2010 Sep;467(7311):103-7

Dept. of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel.

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http://dx.doi.org/10.1038/nature09322DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3847670PMC
September 2010