Tamir Tuller: search on Z-Library

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1

The COP9 signalosome influences the epigenetic landscape of Arabidopsis thaliana

Tuller, Tamir, Diament, Alon, Yahalom, Avital, Zemach, Assaf, Atar, Shimshi, Chamovitz, Daniel A, Birol, Inanc

Journal:

Year:

2018

Language:

english

File:

PDF, 1.09 MB

english, 2018

2

A complete logical approach to resolve the evolution and dynamics of mitochondrial genome in bilaterians

Oxusoff, Laurent, Préa, Pascal, Perez, Yvan, Tuller, Tamir

Journal:

Year:

2018

Language:

english

File:

PDF, 5.98 MB

english, 2018

3

Biological Networks: Comparison, Conservation, and Evolution via Relative Description Length

Chor, Benny, Tuller, Tamir

Journal:

Journal of Computational Biology

Year:

2007

Language:

english

File:

PDF, 1.13 MB

english, 2007

4

Efficient Manipulations of Synonymous Mutations for Controlling Translation Rate: An Analytical Approach

Dana, Alexandra, Tuller, Tamir

Journal:

Journal of Computational Biology

Year:

2012

Language:

english

File:

PDF, 1.11 MB

english, 2012

5

Contraction after small transients

Margaliot, Michael, Sontag, Eduardo D., Tuller, Tamir

Journal:

Year:

2016

Language:

english

File:

PDF, 542 KB

english, 2016

6

Generation and comparative genomics of synthetic dengue viruses

Goz, Eli, Tsalenchuck, Yael, Benaroya, Rony Oren, Zafrir, Zohar, Atar, Shimshi, Altman, Tahel, Julander, Justin, Tuller, Tamir

Journal:

BMC Bioinformatics

Year:

2018

Language:

english

File:

PDF, 3.28 MB

english, 2018

7

An Efficient Minimum Free Energy Structure-Based Search Method for Riboswitch Identification Based on Inverse RNA Folding

Drory Retwitzer, Matan, Kifer, Ilona, Sengupta, Supratim, Yakhini, Zohar, Barash, Danny, Tuller, Tamir

Journal:

Year:

2015

Language:

english

File:

PDF, 3.24 MB

english, 2015

8

Genome scale analysis of Escherichia coli with a comprehensive prokaryotic sequence-based biophysical model of translation initiation and elongation

Shaham, Gilad, Tuller, Tamir

Journal:

Year:

2018

Language:

english

File:

PDF, 797 KB

english, 2018

9

ChimeraUGEM: unsupervised gene expression modeling in any given organism

Diament, Alon, Weiner, Iddo, Shahar, Noam, Landman, Shira, Feldman, Yael, Atar, Shimshi, Avitan, Meital, Schweitzer, Shira, Yacoby, Iftach, Tuller, Tamir, Hancock, John

Journal:

Year:

2019

Language:

english

File:

PDF, 1.22 MB

english, 2019

10

Networks of ribosome flow models for modeling and analyzing intracellular traffic

Nanikashvili, Itzik, Zarai, Yoram, Ovseevich, Alexander, Tuller, Tamir, Margaliot, Michael

Journal:

Scientific Reports

Year:

2019

Language:

english

File:

PDF, 1.73 MB

english, 2019

11

CSO – A sequence optimization software for engineering chloroplast expression in Chlamydomonas reinhardtii

Weiner, Iddo, Feldman, Yael, Shahar, Noam, Yacoby, Iftach, Tuller, Tamir

Journal:

Year:

2020

File:

PDF, 904 KB

2020

12

Efficient algorithms for reconstructing gene content by co-evolution

Hadas Birin, Tamir Tuller

Journal:

BMC Bioinformatics

Year:

2011

Language:

english

File:

PDF, 926 KB

english, 2011

13

Clone clusters in autoreactive CD4 T-cell lines from probable multiple sclerosis patients form disease-characteristic signatures

Mathilda Mandel, Anat Achiron, Tamir Tuller, Tilda Barliya, Gideon Rechavi, Ninette Amariglio, Ron Loewenthal, Gad Lavie

Journal:

Year:

2009

Language:

english

File:

PDF, 674 KB

english, 2009

14

Forbidden penta-peptides

Tamir Tuller, Benny Chor, Nathan Nelson

Journal:

Protein Science

Year:

2007

Language:

english

File:

PDF, 514 KB

english, 2007

15

Discovering local patterns of co - evolution: computational aspects and biological examples

Tamir Tuller, Yifat Felder, Martin Kupiec

Journal:

BMC Bioinformatics

Year:

2010

Language:

english

File:

PDF, 858 KB

english, 2010

16

Comparative classification of species and the study of pathway evolution based on the alignment of metabolic pathways

Adi Mano, Tamir Tuller, Oded Béjà, Ron Y Pinter

Journal:

BMC Bioinformatics

Year:

2010

Language:

english

File:

PDF, 973 KB

english, 2010

17

Properties of untranslated regions of theS. cerevisiaegenome

Tamir Tuller, Eytan Ruppin, Martin Kupiec

Journal:

Year:

2009

Language:

english

File:

PDF, 757 KB

english, 2009

18

An Evolutionarily Conserved Mechanism for Controlling the Efficiency of Protein Translation

Tamir Tuller, Asaf Carmi, Kalin Vestsigian, Sivan Navon, Yuval Dorfan, John Zaborske, Tao Pan, Orna Dahan, Itay Furman, Yitzhak Pilpel

Journal:

Year:

2010

Language:

english

File:

PDF, 1.51 MB

english, 2010

19

Stability Analysis of the Ribosome Flow Model

Margaliot, Michael, Tuller, Tamir

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2012

Language:

english

File:

PDF, 212 KB

english, 2012

20

[IEEE 2012 IEEE 27th Convention of Electrical & Electronics Engineers in Israel (IEEEI 2012) - Eilat, Israel (2012.11.14-2012.11.17)] 2012 IEEE 27th Convention of Electrical and Electronics Engineers in Israel - Flow models for efficient simulation and engineering of transcription and translation elongation

Year:

2012

Language:

english

File:

PDF, 405 KB

english, 2012

21

Prediction of acute multiple sclerosis relapses by transcription levels of peripheral blood cells

Michael Gurevich, Tamir Tuller, Udi Rubinstein, Rotem Or-Bach, Anat Achiron

Journal:

BMC Medical Genomics

Year:

2009

Language:

english

File:

PDF, 766 KB

english, 2009

22

Composite effects of gene determinants on the translation speed and density of ribosomes

Tamir Tuller, Isana Veksler-Lublinsky, Nir Gazit, Martin Kupiec…

Journal:

Year:

2012

Language:

english

File:

PDF, 1.05 MB

english, 2012

23

Co-evolutionary networks of genes and cellular processes across fungal species

Tamir Tuller, Martin Kupiec, Eytan Ruppin

Journal:

Year:

2009

Language:

english

File:

PDF, 3.10 MB

english, 2009

24

Evolutionary rate and gene expression across different brain regions

Tamir Tuller, Martin Kupiec, Eytan Ruppin

Journal:

Year:

2008

Language:

english

File:

PDF, 663 KB

english, 2008

25

Transcript features alone enable accurate prediction and understanding of gene expression inS. cerevisiae

Zur, Hadas, Tuller, Tamir

Journal:

BMC Bioinformatics

Year:

2013

Language:

english

File:

PDF, 4.69 MB

english, 2013

26

Alternative Transcription Initiation and the AUG Context Configuration Control Dual-Organellar Targeting and Functional Competence of Arabidopsis Lon1 Protease

Daras, Gerasimos, Rigas, Stamatis, Tsitsekian, Dikran, Zur, Hadas, Tuller, Tamir, Hatzopoulos, Polydefkis

Journal:

Molecular Plant

Year:

2014

Language:

english

File:

PDF, 1012 KB

english, 2014

27

Challenges and obstacles related to solving the codon bias riddles

Journal:

Biochemical Society Transactions

Year:

2014

Language:

english

File:

PDF, 163 KB

english, 2014

28

Mapping the translation initiation landscape of an S. cerevisiae gene using fluorescent proteins

Ben-Yehezkel, Tuval, Zur, Hadas, Marx, Tzipy, Shapiro, Ehud, Tuller, Tamir

Journal:

Year:

2013

Language:

english

File:

PDF, 1.65 MB

english, 2013

29

Editorial Board

Ben-Yehezkel, Tuval, Zur, Hadas, Marx, Tzipy, Shapiro, Ehud, Tuller, Tamir

Journal:

Journal of the Faculty of Radiologists

Year:

1950

File:

PDF, 19 KB

1950

30

Ribosomal mutations affecting the translation of genes that use non-optimal codons

Pelchovich, Gidi, Nadejda, Sigal, Dana, Alexandra, Tuller, Tamir, Bravo, Ignacio G., Gophna, Uri

Journal:

Year:

2014

Language:

english

File:

PDF, 456 KB

english, 2014

31

On the Steady-State Distribution in the Homogeneous Ribosome Flow Model

Margaliot, Michael, Tuller, Tamir

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2012

Language:

english

File:

PDF, 356 KB

english, 2012

32

Explicit Expression for the Steady-State Translation Rate in the Infinite-Dimensional Homogeneous Ribosome Flow Model

Zarai, Yoram, Margaliot, Michael, Tuller, Tamir

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2013

Language:

english

File:

PDF, 212 KB

english, 2013

33

The Average Common Substring Approach to Phylogenomic Reconstruction

Ulitsky, Igor, Burstein, David, Tuller, Tamir, Chor, Benny

Journal:

Journal of Computational Biology

Year:

2006

Language:

english

File:

PDF, 1014 KB

english, 2006

34

Most associations between transcript features and gene expression are monotonic

Shaham, Gilad, Tuller, Tamir

Journal:

Molecular BioSystems

Year:

2014

Language:

english

File:

PDF, 3.58 MB

english, 2014

35

[IEEE 2008 IEEE International Conference on Bioinformatics and Biomedicine - Philadelphia, PA, USA (2008.11.3-2008.11.5)] 2008 IEEE International Conference on Bioinformatics and Biomedicine - Editing Bayesian Networks: A New Approach for Combining Prior Knowledge and Gene Expression Measurements for Researching Diseases

Rubinstein, Udi, Felder, Yifat, Ginzbourg, Nana, Gurevich, Michael, Tuller, Tamir

Year:

2008

Language:

english

File:

PDF, 284 KB

english, 2008

36

Co-evolution Is Incompatible with the Markov Assumption in Phylogenetics

Tuller, Tamir, Mossel, Elchanan

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2011

Language:

english

File:

PDF, 526 KB

english, 2011

37

The RNA Polymerase Flow Model of Gene Transcription

Edri, Shlomit, Gazit, Eran, Cohen, Eyal, Tuller, Tamir

Journal:

IEEE Transactions on Biomedical Circuits and Systems

Year:

2014

Language:

english

File:

PDF, 2.49 MB

english, 2014

38

Reconstruction of Ancestral Genomic Sequences Using Likelihood

Elias, Isaac, Tuller, Tamir

Journal:

Journal of Computational Biology

Year:

2007

Language:

english

File:

PDF, 360 KB

english, 2007

39

Three-dimensional eukaryotic genomic organization is strongly correlated with codon usage expression and function

Diament, Alon, Pinter, Ron Y., Tuller, Tamir

Journal:

Nature Communications

Year:

2014

Language:

english

File:

PDF, 1.22 MB

english, 2014

40

Higher-Order Genomic Organization of Cellular Functions in Yeast

Tuller, Tamir, Rubinstein, Udi, Bar, Dani, Gurevitch, Michael, Ruppin, Eytan, Kupiec, Martin

Journal:

Journal of Computational Biology

Year:

2009

Language:

english

File:

PDF, 702 KB

english, 2009

41

Reconstructing Ancestral Genomic Sequences by Co-Evolution: Formal Definitions, Computational Issues, and Biological Examples

Tuller, Tamir, Birin, Hadas, Kupiec, Martin, Ruppin, Eytan

Journal:

Journal of Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.11 MB

english, 2010

42

Maximizing Protein Translation Rate in the Ribosome Flow Model: The Homogeneous Case

Zarai, Yoram, Margaliot, Michael, Tuller, Tamir

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2014

Language:

english

File:

PDF, 618 KB

english, 2014

43

THE NET-HMM APPROACH: PHYLOGENETIC NETWORK INFERENCE BY COMBINING MAXIMUM LIKELIHOOD AND HIDDEN MARKOV MODELS

SNIR, SAGI, TULLER, TAMIR

Journal:

Journal of Bioinformatics and Computational Biology

Year:

2009

Language:

english

File:

PDF, 587 KB

english, 2009

44

sbv IMPROVER Diagnostic Signature Challenge

Norel, Raquel, Bilal, Erhan, Conrad-Chemineau, Nathalie, Bonneau, Richard, de la Fuente, Alberto, Jurisica, Igor, Marbach, Daniel, Meyer, Pablo, Rice, J Jeremy, Tuller, Tamir, Stolovitzky, Gustavo

Journal:

Systems Biomedicine

Year:

2013

Language:

english

File:

PDF, 3.36 MB

english, 2013

45

Strong association between mRNA folding strength and protein abundance in S. cerevisiae

Zur, Hadas, Tuller, Tamir

Journal:

Year:

2012

Language:

english

File:

PDF, 199 KB

english, 2012

46

Properties and determinants of codon decoding time distributions

Dana, Alexandra, Tuller, Tamir

Journal:

Year:

2014

Language:

english

File:

PDF, 2.63 MB

english, 2014

47

Genome-Wide Survey and Expression Analysis of Amino Acid Transporter Gene Family in Rice (Oryza sativa L.)

Zhao, Heming, Ma, Haoli, Yu, Li, Wang, Xin, Zhao, Jie, Tuller, Tamir

Journal:

Year:

2012

Language:

english

File:

PDF, 2.07 MB

english, 2012

48

Genomic analysis of COP9 signalosome function in Drosophila melanogaster reveals a role in temporal regulation of gene expression

Oron, Efrat, Tuller, Tamir, Li, Ling, Rozovsky, Nina, Yekutieli, Daniel, Rencus-Lazar, Sigal, Segal, Daniel, Chor, Benny, Edgar, Bruce A, Chamovitz, Daniel A

Journal:

Molecular Systems Biology

Year:

2007

Language:

english

File:

PDF, 341 KB

english, 2007

49

Genome-Scale Analysis of Translation Elongation with a Ribosome Flow Model

Reuveni, Shlomi, Meilijson, Isaac, Kupiec, Martin, Ruppin, Eytan, Tuller, Tamir, Wasserman, Wyeth W.

Journal:

PLoS Computational Biology

Year:

2011

Language:

english

File:

PDF, 1.10 MB

english, 2011

50

Improving 3D Genome Reconstructions Using Orthologous and Functional Constraints

Diament, Alon, Tuller, Tamir, Marti-Renom, Marc A.

Journal:

PLoS Computational Biology

Year:

2015

Language:

english

File:

PDF, 3.04 MB

english, 2015