Bar-Joseph, Ziv : rechercher sur Z-Library

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1

Network Design and the Brain

Navlakha, Saket, Bar-Joseph, Ziv, Barth, Alison L.

Journal:

Trends in Cognitive Sciences

Année:

2017

Langue:

english

Fichier:

PDF, 2.00 MB

english, 2017

2

The sirtuin SIRT6 regulates lifespan in male mice

Kanfi, Yariv, Naiman, Shoshana, Amir, Gail, Peshti, Victoria, Zinman, Guy, Nahum, Liat, Bar-Joseph, Ziv, Cohen, Haim Y.

Journal:

Année:

2012

Langue:

english

Fichier:

PDF, 515 KB

english, 2012

3

Studying and modelling dynamic biological processes using time-series gene expression data

Bar-Joseph, Ziv, Gitter, Anthony, Simon, Itamar

Journal:

Nature Reviews Genetics

Année:

2012

Langue:

english

Fichier:

PDF, 656 KB

english, 2012

4

Reconstructing differentiation networks and their regulation from time series single cell expression data

Ding, Jun, Aronow, Bruce, Kaminski, Naftali, Kitzmiller, Joseph, Whitsett, Jeffrey, Bar-Joseph, Ziv

Journal:

Genome Research

Année:

2018

Langue:

english

Fichier:

PDF, 5.95 MB

english, 2018

5

Towards unified quality verification of synthetic count data with countsimQC

Soneson, Charlotte, Robinson, Mark D, Bar-Joseph, Ziv

Journal:

Année:

2018

Langue:

english

Fichier:

PDF, 173 KB

english, 2018

6

Bringing numerous methods for expression and promoter analysis to a public cloud computing service

Polański, Krzysztof, Gao, Bo, Mason, Sam A, Brown, Paul, Ott, Sascha, Denby, Katherine J, Wild, David L, Bar-Joseph, Ziv

Journal:

Année:

2018

Langue:

english

Fichier:

PDF, 76 KB

english, 2018

7

Biological interaction networks are conserved at the module level

Guy E Zinman, Shan Zhong, Ziv Bar-Joseph

Journal:

BMC Systems Biology

Année:

2011

Langue:

english

Fichier:

PDF, 836 KB

english, 2011

8

Systematic prediction of human membrane receptor interactions

Yanjun Qi, Harpreet K. Dhiman, Neil Bhola, Ivan Budyak, Siddhartha Kar, David Man, Arpana Dutta, Kalyan Tirupula, Brian I. Carr, Jennifer Grandis, Ziv Bar-Joseph, Judith Klein-Seetharaman

Journal:

Année:

2009

Langue:

english

Fichier:

PDF, 420 KB

english, 2009

9

Evaluation of different biological data and computational classification methods for use in protein interaction prediction

Yanjun Qi, Ziv Bar-Joseph, Judith Klein-Seetharaman

Journal:

Proteins: Structure, Function, and Bioinformatics

Année:

2006

Langue:

english

Fichier:

PDF, 313 KB

english, 2006

10

Combined static and dynamic analysis for determining the quality of time-series expression profiles

Simon, Itamar, Siegfried, Zahava, Ernst, Jason, Bar-Joseph, Ziv

Journal:

Nature Biotechnology

Année:

2005

Langue:

english

Fichier:

PDF, 430 KB

english, 2005

11

Computational discovery of gene modules and regulatory networks

Bar-Joseph, Ziv, Gerber, Georg K, Lee, Tong Ihn, Rinaldi, Nicola J, Yoo, Jane Y, Robert, François, Gordon, D Benjamin, Fraenkel, Ernest, Jaakkola, Tommi S, Young, Richard A

Journal:

Nature Biotechnology

Année:

2003

Langue:

english

Fichier:

PDF, 1.13 MB

english, 2003

12

Hierarchical Context-based Pixel Ordering

Ziv Bar-Joseph, Daniel Cohen-Or

Journal:

Computer Graphics Forum

Année:

2003

Langue:

english

Fichier:

PDF, 905 KB

english, 2003

13

STEM: a tool for the analysis of short time series gene expression data

Jason Ernst, Ziv Bar-Joseph

Journal:

BMC Bioinformatics

Année:

2006

Langue:

english

Fichier:

PDF, 1.08 MB

english, 2006

14

A mixture of feature experts approach for protein-protein interaction prediction

Yanjun Qi, Judith Klein-Seetharaman, Ziv Bar-Joseph

Journal:

BMC Bioinformatics

Année:

2007

Langue:

english

Fichier:

PDF, 434 KB

english, 2007

15

Combination of genomic approaches with functional genetic experiments reveals two modes of repression of yeast middle-phase meiosis genes

Michael Klutstein, Zahava Siegfried, Ariel Gispan, Shlomit Farkash-Amar, Guy Zinman, Ziv Bar-Joseph, Giora Simchen, Itamar Simon

Journal:

Année:

2010

Langue:

english

Fichier:

PDF, 1.19 MB

english, 2010

16

Impact of the solvent capacity constraint onE. colimetabolism

Alexei Vazquez, Qasim K Beg, Marcio A deMenezes, Jason Ernst, Ziv Bar-Joseph, Albert-László Barabási, László G Boros, Zoltán N Oltvai

Journal:

BMC Systems Biology

Année:

2008

Langue:

english

Fichier:

PDF, 515 KB

english, 2008

17

DREM 2.0: Improved reconstruction of dynamic regulatory networks from time-series expression data

Marcel H Schulz, William E Devanny, Anthony Gitter, Shan Zhong, Jason Ernst, Ziv Bar-Joseph

Journal:

BMC Systems Biology

Année:

2012

Langue:

english

Fichier:

PDF, 919 KB

english, 2012

18

Evolutionary divergence in the fungal response to fluconazole revealed by soft clustering

Dwight Kuo, Kai Tan, Guy Zinman, Timothy Ravasi, Ziv Bar-Joseph…

Journal:

Année:

2010

Langue:

english

Fichier:

PDF, 1.95 MB

english, 2010

19

Beeping a maximal independent set

Yehuda Afek, Noga Alon, Ziv Bar-Joseph, Alejandro Cornejo…

Journal:

Distributed Computing

Année:

2013

Langue:

english

Fichier:

PDF, 318 KB

english, 2013

20

ExpressionBlast: mining large, unstructured expression databases

Zinman, Guy E, Naiman, Shoshana, Kanfi, Yariv, Cohen, Haim, Bar-Joseph, Ziv

Journal:

Année:

2013

Langue:

english

Fichier:

PDF, 184 KB

english, 2013

21

Carbon catabolite repression correlates with the maintenance of near invariant molecular crowding in proliferatingE. colicells

Zhou, Yi, Vazquez, Alexei, Wise, Aaron, Warita, Tomoko, Warita, Katsuhiko, Bar-Joseph, Ziv, Oltvai, Zoltán N

Journal:

BMC Systems Biology

Année:

2013

Langue:

english

Fichier:

PDF, 1.07 MB

english, 2013

22

Future Directions in Idiopathic Pulmonary Fibrosis Research. An NHLBI Workshop Report

Blackwell, Timothy S., Tager, Andrew M., Borok, Zea, Moore, Bethany B., Schwartz, David A., Anstrom, Kevin J., Bar-Joseph, Ziv, Bitterman, Peter, Blackburn, Michael R., Bradford, William, Brown, Kevin

Journal:

American Journal of Respiratory and Critical Care Medicine

Année:

2014

Langue:

english

Fichier:

PDF, 526 KB

english, 2014

23

[ACM Press the sixth annual international conference - Washington, DC, USA (2002.04.18-2002.04.21)] Proceedings of the sixth annual international conference on Computational biology - RECOMB '02 - A new approach to analyzing gene expression time series data

Bar-Joseph, Ziv, Gerber, Georg, Gifford, David K., Jaakkola, Tommi S., Simon, Itamar

Année:

2002

Langue:

english

Fichier:

PDF, 1.61 MB

english, 2002

24

Cross Species Expression Analysis of Innate Immune Response

Lu, Yong, Rosenfeld, Roni, Nau, Gerard J., Bar-Joseph, Ziv

Journal:

Journal of Computational Biology

Année:

2010

Langue:

english

Fichier:

PDF, 2.73 MB

english, 2010

25

A Combined Expression-Interaction Model for Inferring the Temporal Activity of Transcription Factors

Shi, Yanxin, Klutstein, Michael, Simon, Itamar, Mitchell, Tom, Bar-Joseph, Ziv

Journal:

Journal of Computational Biology

Année:

2009

Langue:

english

Fichier:

PDF, 411 KB

english, 2009

26

A Patient-Gene Model for Temporal Expression Profiles in Clinical Studies

Kaminski, Naftali, Bar-Joseph, Ziv

Journal:

Journal of Computational Biology

Année:

2007

Langue:

english

Fichier:

PDF, 520 KB

english, 2007

27

Preface

Kellis, Manolis, Califano, Andrea, Bar-Joseph, Ziv

Journal:

Journal of Computational Biology

Année:

2011

Langue:

english

Fichier:

PDF, 35 KB

english, 2011

28

Continuous Representations of Time-Series Gene Expression Data

Bar-Joseph, Ziv, Gerber, Georg K., Gifford, David K., Jaakkola, Tommi S., Simon, Itamar

Journal:

Journal of Computational Biology

Année:

2003

Langue:

english

Fichier:

PDF, 297 KB

english, 2003

29

Gene Expression in Relation to Exhaled Nitric Oxide Identifies Novel Asthma Phenotypes with Unique Biomolecular Pathways

Modena, Brian D., Tedrow, John R., Milosevic, Jadranka, Bleecker, Eugene R., Meyers, Deborah A., Wu, Wei, Bar-Joseph, Ziv, Erzurum, Serpil C., Gaston, Benjamin M., Busse, William W., Jarjour, Nizar N.

Journal:

American Journal of Respiratory and Critical Care Medicine

Année:

2014

Langue:

english

Fichier:

PDF, 1.28 MB

english, 2014

30

Learning Cellular Sorting Pathways Using Protein Interactions and Sequence Motifs

Lin, Tien-Ho, Bar-Joseph, Ziv, Murphy, Robert F.

Journal:

Journal of Computational Biology

Année:

2011

Langue:

english

Fichier:

PDF, 1.80 MB

english, 2011

31

Distributed information processing in biological and computational systems

Navlakha, Saket, Bar-Joseph, Ziv

Journal:

Communications of the ACM

Année:

2014

Langue:

english

Fichier:

PDF, 9.48 MB

english, 2014

32

MassExodus: modeling evolving networks in harsh environments

Navlakha, Saket, Faloutsos, Christos, Bar-Joseph, Ziv

Journal:

Data Mining and Knowledge Discovery

Année:

2015

Langue:

english

Fichier:

PDF, 1.66 MB

english, 2015

33

Backup in gene regulatory networks explains differences between binding and knockout results

Gitter, Anthony, Siegfried, Zehava, Klutstein, Michael, Fornes, Oriol, Oliva, Baldo, Simon, Itamar, Bar-Joseph, Ziv

Journal:

Molecular Systems Biology

Année:

2009

Langue:

english

Fichier:

PDF, 979 KB

english, 2009

34

Reconstructing dynamic regulatory maps

Ernst, Jason, Vainas, Oded, Harbison, Christopher T, Simon, Itamar, Bar-Joseph, Ziv

Journal:

Molecular Systems Biology

Année:

2007

Langue:

english

Fichier:

PDF, 404 KB

english, 2007

35

A Semi-Supervised Method for Predicting Transcription Factor–Gene Interactions in Escherichia coli

Ernst, Jason, Beg, Qasim K., Kay, Krin A., Balázsi, Gábor, Oltvai, Zoltán N., Bar-Joseph, Ziv, Stormo, Gary

Journal:

PLoS Computational Biology

Année:

2008

Langue:

english

Fichier:

PDF, 557 KB

english, 2008

36

Multitask Learning of Signaling and Regulatory Networks with Application to Studying Human Response to Flu

Jain, Siddhartha, Gitter, Anthony, Bar-Joseph, Ziv, Singh, Mona

Journal:

PLoS Computational Biology

Année:

2014

Langue:

english

Fichier:

PDF, 1.26 MB

english, 2014

37

Modeling spatial and temporal variation in motion data

Lau, Manfred, Bar-Joseph, Ziv, Kuffner, James

Journal:

ACM Transactions on Graphics

Année:

2009

Langue:

english

Fichier:

PDF, 12.58 MB

english, 2009

38

cDREM: Inferring Dynamic Combinatorial Gene Regulation

Wise, Aaron, Bar-Joseph, Ziv

Journal:

Journal of Computational Biology

Année:

2015

Langue:

english

Fichier:

PDF, 361 KB

english, 2015

39

[ACM Press ACM SIGGRAPH Asia 2009 papers - Yokohama, Japan (2009.12.16-2009.12.19)] ACM SIGGRAPH Asia 2009 papers on - SIGGRAPH Asia '09 - Modeling spatial and temporal variation in motion data

Lau, Manfred, Bar-Joseph, Ziv, Kuffner, James

Année:

2009

Langue:

english

Fichier:

PDF, 12.58 MB

english, 2009

40

[ACM Press the seventeenth annual ACM symposium - Puerto Vallarta, Mexico (1998.06.28-1998.07.02)] Proceedings of the seventeenth annual ACM symposium on Principles of distributed computing - PODC '98 - A tight lower bound for randomized synchronous consensus

Bar-Joseph, Ziv, Ben-Or, Michael

Année:

1998

Langue:

english

Fichier:

PDF, 911 KB

english, 1998

41

[WORLD SCIENTIFIC Proceedings of the Pacific Symposium - Hawaii, USA (4 – 8 January 2005)] Biocomputing 2005 - RANDOM FOREST SIMILARITY FOR PROTEIN-PROTEIN INTERACTION PREDICTION FROM MULTIPLE SOURCES

QI, YANJUN, KLEIN-SEETHARAMAN, JUDITH, BAR-JOSEPH, ZIV

Langue:

english

Fichier:

PDF, 670 KB

english

42

Temporal transcriptional response to latency reversing agents identifies specific factors regulating HIV-1 viral transcriptional switch

Venkatachari, Narasimhan J., Zerbato, Jennifer M., Jain, Siddhartha, Mancini, Allison E., Chattopadhyay, Ansuman, Sluis-Cremer, Nicolas, Bar-Joseph, Ziv, Ayyavoo, Velpandi

Journal:

Année:

2015

Langue:

english

Fichier:

PDF, 2.82 MB

english, 2015

43

De novo ChIP-seq analysis

He, Xin, Cicek, A. Ercument, Wang, Yuhao, Schulz, Marcel H., Le, Hai-Son, Bar-Joseph, Ziv

Journal:

Année:

2015

Langue:

english

Fichier:

PDF, 1.49 MB

english, 2015

44

Predicting tissue specific transcription factor binding sites

Zhong, Shan, He, Xin, Bar-Joseph, Ziv

Journal:

Année:

2013

Langue:

english

Fichier:

PDF, 1.59 MB

english, 2013

45

Reconstructing the temporal progression of HIV-1 immune response pathways

Jain, Siddhartha, Arrais, Joel, Venkatachari, Narasimhan J., Ayyavoo, Velpandi, Bar-Joseph, Ziv

Journal:

Année:

2016

Langue:

english

Fichier:

PDF, 3.28 MB

english, 2016

46

Genome wide predictions of miRNA regulation by transcription factors

Ruffalo, Matthew, Bar-Joseph, Ziv

Journal:

Année:

2016

Langue:

english

Fichier:

PDF, 989 KB

english, 2016

47

Tradeoffs between Dense and Replicate Sampling Strategies for High-Throughput Time Series Experiments

Sefer, Emre, Kleyman, Michael, Bar-Joseph, Ziv

Journal:

Année:

2016

Langue:

english

Fichier:

PDF, 1.63 MB

english, 2016

48

TASIC: Determining branching models from time series single cell data

Rashid, Sabrina, Kotton, Darrell N., Bar-Joseph, Ziv

Journal:

Année:

2017

Langue:

english

Fichier:

PDF, 998 KB

english, 2017

49

Transcriptome analyses identify key cellular factors associated with HIV-1-associated neuropathogenesis in infected men

Venkatachari, Narasimhan J., Jain, Siddhartha, Walker, Leah, Bivalkar-Mehla, Shalmali, Chattopadhyay, Ansuman, Bar-Joseph, Ziv, Rinaldo, Charles, Ragin, Ann, Seaberg, Eric, Levine, Andrew, Becker, Jam

Journal:

Année:

2017

Langue:

english

Fichier:

PDF, 772 KB

english, 2017

50

MethRaFo: MeDIP-seq methylation estimate using a Random Forest Regressor

Ding, Jun, Bar-Joseph, Ziv

Journal:

Année:

2017

Langue:

english

Fichier:

PDF, 328 KB

english, 2017