Orenstein, Yaron: search on Z-Library

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1

Identifying Regulatory Elements via Deep Learning

Barshai, Mira, Tripto, Eitamar, Orenstein, Yaron

Journal:

Annual Review of Biomedical Data Science

Year:

2020

File:

PDF, 999 KB

2020

2

Comprehensive, high-resolution binding energy landscapes reveal context dependencies of transcription factor binding

Le, Daniel D., Shimko, Tyler C., Aditham, Arjun K., Keys, Allison M., Longwell, Scott A., Orenstein, Yaron, Fordyce, Polly M.

Journal:

Proceedings of the National Academy of Sciences

Year:

2018

Language:

english

File:

PDF, 1.29 MB

english, 2018

3

Joker de Bruijn: Covering k -Mers Using Joker Characters

Orenstein, Yaron, Yu, Yun William, Berger, Bonnie

Journal:

Journal of Computational Biology

Year:

2018

Language:

english

File:

PDF, 159 KB

english, 2018

4

DeCoDe: degenerate codon design for complete protein-coding DNA libraries

Shimko, Tyler C, Fordyce, Polly M, Orenstein, Yaron, Martelli, Pier Luigi

Journal:

Year:

2020

Language:

english

File:

PDF, 788 KB

english, 2020

5

RAP: Accurate and Fast Motif Finding Based on Protein-Binding Microarray Data

Orenstein, Yaron, Mick, Eran, Shamir, Ron

Journal:

Journal of Computational Biology

Year:

2013

Language:

english

File:

PDF, 297 KB

english, 2013

6

RCK: accurate and efficient inference of sequence- and structure-based protein–RNA binding models from RNAcompete data

Orenstein, Yaron, Wang, Yuhao, Berger, Bonnie

Journal:

Year:

2016

Language:

english

File:

PDF, 1017 KB

english, 2016

7

Custom DNA microarrays reveal diverse binding preferences of proteins and small molecules to thousands of G-quadruplexes

Ray, Sreejana, Tillo, Desiree, Boer, Robert E., Assad, Nima, Barshai, Mira, Wu, Guanhui, Orenstein, Yaron, Yang, Danzhou, Schneekloth, Jr., John S, Vinson, Charles

Journal:

ACS Chemical Biology

Year:

2020

Language:

english

File:

PDF, 749 KB

english, 2020

8

InP Nanoflag Growth from a Nanowire Template by in Situ Catalyst Manipulation

Kelrich, Alexander, Sorias, Ofir, Calahorra, Yonatan, Kauffmann, Yaron, Gladstone, Ran, Cohen, Shimon, Orenstein, Meir, Ritter, Dan

Journal:

Year:

2016

Language:

english

File:

PDF, 7.84 MB

english, 2016

9

[ACM Press the 8th ACM International Conference - Boston, Massachusetts, USA (2017.08.20-2017.08.23)] Proceedings of the 8th ACM International Conference on Bioinformatics, Computational Biology,and Health Informatics - ACM-BCB '17 - Computational Modeling of Protein-RNA Interactions

Orenstein, Yaron

Year:

2017

Language:

english

File:

PDF, 510 KB

english, 2017

10

Efficient Design of Compact Unstructured RNA Libraries Covering All k -mers

Orenstein, Yaron, Berger, Bonnie

Journal:

Journal of Computational Biology

Year:

2015

Language:

english

File:

PDF, 484 KB

english, 2015

11

Transcription factor family‐specific DNA shape readout revealed by quantitative specificity models

Yang, Lin, Orenstein, Yaron, Jolma, Arttu, Yin, Yimeng, Taipale, Jussi, Shamir, Ron, Rohs, Remo

Journal:

Molecular Systems Biology

Year:

2017

Language:

english

File:

PDF, 1.62 MB

english, 2017

12

A deep neural network approach for learning intrinsic protein-RNA binding preferences

Ben-Bassat, Ilan, Chor, Benny, Orenstein, Yaron

Journal:

Year:

2018

Language:

english

File:

PDF, 906 KB

english, 2018

13

Quantitative Analysis of Differential Expression of HOX Genes in Multiple Cancers

Adato, Orit, Orenstein, Yaron, Kopolovic, Juri, Juven-Gershon, Tamar, Unger, Ron

Journal:

Year:

2020

File:

PDF, 2.06 MB

2020

14

Testing Eulerianity and connectivity in directed sparse graphs

Yaron Orenstein, Dana Ron

Journal:

Theoretical Computer Science

Year:

2011

Language:

english

File:

PDF, 394 KB

english, 2011

15

Improving the performance of minimizers and winnowing schemes

Marçais, Guillaume, Pellow, David, Bork, Daniel, Orenstein, Yaron, Shamir, Ron, Kingsford, Carl

Journal:

Year:

2017

Language:

english

File:

PDF, 249 KB

english, 2017

16

Optimized Sequence Library Design for Efficient In Vitro Interaction Mapping

Orenstein, Yaron, Puccinelli, Robert, Kim, Ryan, Fordyce, Polly, Berger, Bonnie

Journal:

Year:

2017

Language:

english

File:

PDF, 2.40 MB

english, 2017

17

[ACM Press the 10th ACM International Conference - Niagara Falls, NY, USA (2019.09.07-2019.09.10)] Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics - BCB '19 - Predicting G-quadruplexes from DNA Sequences Using Multi-Kernel Convolutional Neural Networks

Barshai, Mira, Orenstein, Yaron

Year:

2019

File:

PDF, 1.26 MB

2019

18

ElemeNT: a computational tool for detecting core promoter elements

Sloutskin, Anna, Danino, Yehuda M, Orenstein, Yaron, Zehavi, Yonathan, Doniger, Tirza, Shamir, Ron, Juven-Gershon, Tamar

Journal:

Year:

2015

Language:

english

File:

PDF, 1.33 MB

english, 2015

19

[ACM Press the 10th ACM International Conference - Niagara Falls, NY, USA (2019.09.07-2019.09.10)] Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics - BCB '19 - Predicting G-Quadruplexes from DNA Sequences Using Multi-Kernel Convolutional Neural Networks

Barshai, Mira, Orenstein, Yaron

Year:

2019

Language:

english

File:

PDF, 2.56 MB

english, 2019

20

Modeling protein–DNA binding via high-throughput in vitro technologies

Orenstein, Yaron, Shamir, Ron

Journal:

Briefings in Functional Genomics

Year:

2016

Language:

english

File:

PDF, 674 KB

english, 2016

21

[ACM Press the 10th ACM International Conference - Niagara Falls, NY, USA (2019.09.07-2019.09.10)] Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics - BCB '19 - Predicting G-quadruplexes from DNA Sequences Using Multi-Kernel Convolutional Neural Networks

Barshai, Mira, Orenstein, Yaron

Year:

2019

Language:

english

File:

PDF, 1.26 MB

english, 2019

22

Integrated microfluidic approach for quantitative high-throughput measurements of transcription factor binding affinities

Glick, Yair, Orenstein, Yaron, Chen, Dana, Avrahami, Dorit, Zor, Tsaffrir, Shamir, Ron, Gerber, Doron

Journal:

Nucleic Acids Research

Year:

2015

Language:

english

File:

PDF, 4.21 MB

english, 2015

23

Drosophila TRF2 is a preferential core promoter regulator

Kedmi, Adi, Zehavi, Yonathan, Glick, Yair, Orenstein, Yaron, Ideses, Diana, Wachtel, Chaim, Doniger, Tirza, Waldman Ben-Asher, Hiba, Muster, Nemone, Thompson, James, Anderson, Scott, Avrahami, Dorit,

Journal:

Genes & Development

Year:

2014

Language:

english

File:

PDF, 1.23 MB

english, 2014

24

Finding RNA structure in the unstructured RBPome

Orenstein, Yaron, Ohler, Uwe, Berger, Bonnie

Journal:

Year:

2018

Language:

english

File:

PDF, 1.15 MB

english, 2018

25

SELMAP - SELEX affinity landscape MAPping of transcription factor binding sites using integrated microfluidics

Chen, Dana, Orenstein, Yaron, Golodnitsky, Rada, Pellach, Michal, Avrahami, Dorit, Wachtel, Chaim, Ovadia-Shochat, Avital, Shir-Shapira, Hila, Kedmi, Adi, Juven-Gershon, Tamar, Shamir, Ron, Gerber, Do

Journal:

Scientific Reports

Year:

2016

Language:

english

File:

PDF, 2.03 MB

english, 2016

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