Bindewald, Eckart: search on Z-Library

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1

RNA Toehold Interactions Initiate Conditional Gene Silencing

Zakrevsky, Paul, Bindewald, Eckart, Shapiro, Bruce A

Journal:

DNA and RNA Nanotechnology

Year:

2016

Language:

english

File:

PDF, 515 KB

english, 2016

2

The favorable IFNL3 genotype escapes mRNA decay mediated by AU-rich elements and hepatitis C virus–induced microRNAs

McFarland, Adelle P, Horner, Stacy M, Jarret, Abigail, Joslyn, Rochelle C, Bindewald, Eckart, Shapiro, Bruce A, Delker, Don A, Hagedorn, Curt H, Carrington, Mary, Gale, Michael, Savan, Ram

Journal:

Nature Immunology

Year:

2013

Language:

english

File:

PDF, 738 KB

english, 2013

3

Multistrand Structure Prediction of Nucleic Acid Assemblies and Design of RNA Switches

Bindewald, Eckart, Afonin, Kirill A., Viard, Mathias, Zakrevsky, Paul, Kim, Taejin, Shapiro, Bruce A.

Journal:

Year:

2016

Language:

english

File:

PDF, 2.90 MB

english, 2016

4

RNA–Protein Interactions Prevent Long RNA Duplex Formation: Implications for the Design of RNA-Based Therapeutics

Bindewald, Eckart, Dai, Lisheng, Kasprzak, Wojciech, Kim, Taejin, Gu, Shuo, Shapiro, Bruce

Journal:

Year:

2018

Language:

english

File:

PDF, 1.81 MB

english, 2018

5

Bridging the gap in RNA structure prediction

Bruce A Shapiro, Yaroslava G Yingling, Wojciech Kasprzak, Eckart Bindewald

Journal:

Current Opinion in Structural Biology

Year:

2007

Language:

english

File:

PDF, 542 KB

english, 2007

6

Design and Modeling of a Tetrahedron Nanostructure for Enhanced Delivery of RNAi Substrates

Kasprzak, Wojciech K., Zakrevsky, Paul, Bindewald, Eckart, Heinz, William F., Wu, Weimin, Kahnt, Htet, Dorjsuren, Nomongo, Fields, Eric A., de Val, Natalia, Jaeger, Luc, Shapiro, Bruce A.

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 40 KB

2020

7

CS3-5 miRNA interacts with AU-rich elements stabilizing interferon gamma gene

Ram Savan, Michal Legiewicz, Eckart Bindewald, Adelle P. McFarland, Selinda Orr, Johannes Schwerk, Rajesh Yalamanchili, Shakeeb Hakim, Anthony Kronfli, Karthika Ramakrishnan, Stephen Anderson, Bruce S

Journal:

Year:

2010

Language:

english

File:

PDF, 139 KB

english, 2010

8

Design and self-assembly of siRNA-functionalized RNA nanoparticles for use in automated nanomedicine

Afonin, Kirill A, Grabow, Wade W, Walker, Faye M, Bindewald, Eckart, Dobrovolskaia, Marina A, Shapiro, Bruce A, Jaeger, Luc

Journal:

Bioentrepreneur

Year:

2011

Language:

english

File:

PDF, 869 KB

english, 2011

9

Validation of the EORTC QLQ-C30 and EORTC QLQ-H&N35 in patients with laryngeal cancer after surgery

Susanne Singer, Dorit Wollbrück, Cornelia Wulke, Andreas Dietz, Eckart Klemm, Jens Oeken, Eberhard F. Meister, Hilmar Gudziol, Julian Bindewald, Reinhold Schwarz

Journal:

Year:

2009

Language:

english

File:

PDF, 128 KB

english, 2009

10

Use of RNA structure flexibility data in nanostructure modeling

Wojciech Kasprzak, Eckart Bindewald, Tae-Jin Kim, Luc Jaeger, Bruce A. Shapiro

Journal:

Year:

2011

Language:

english

File:

PDF, 2.03 MB

english, 2011

11

RiboSketch: Versatile Visualization of Multi-stranded RNA and DNA Secondary Structure

Lu, Jacob S, Bindewald, Eckart, Kasprzak, Wojciech, Shapiro, Bruce A, Valencia, Alfonso

Journal:

Year:

2018

Language:

english

File:

PDF, 222 KB

english, 2018

12

Cellular Delivery of RNA Nanoparticles

Parlea, Lorena, Puri, Anu, Kasprzak, Wojciech K., Bindewald, Eckart, Zakrevsky, Paul, Satterwhite, Emily, Joseph, Kenya, Afonin, Kirill A, Shapiro, Bruce A

Journal:

ACS Combinatorial Science

Year:

2016

Language:

english

File:

PDF, 2.11 MB

english, 2016

13

In Silico Design and Enzymatic Synthesis of Functional RNA Nanoparticles

Afonin, Kirill A., Kasprzak, Wojciech K., Bindewald, Eckart, Kireeva, Maria, Viard, Mathias, Kashlev, Mikhail, Shapiro, Bruce A.

Journal:

Accounts of Chemical Research

Year:

2014

Language:

english

File:

PDF, 6.85 MB

english, 2014

14

Computational strategies for the automated design of RNA nanoscale structures from building blocks using NanoTiler

Eckart Bindewald, Calvin Grunewald, Brett Boyle, Mary O’Connor, Bruce A. Shapiro

Journal:

Journal of Molecular Graphics and Modelling

Year:

2008

Language:

english

File:

PDF, 1.45 MB

english, 2008

15

Visualization of fast energy flow and solvent caging in unimolecular dynamics

Rejto, Paul A., Bindewald, Eckart, Chandler, David

Journal:

Year:

1995

File:

PDF, 469 KB

1995

16

Achieving multiple goals via voluntary efforts and motivation asymmetry

Bindewald, Eckart, Atallah, Shady S.

Journal:

Ecological Modelling

Year:

2017

Language:

english

File:

PDF, 1.61 MB

english, 2017

17

Meso-Scale Modeling for Predicting Properties of RNA Complexes

Bindewald, Eckart, Viard, Mathias, Shapiro, Bruce A.

Journal:

Biophysical Journal

Year:

2018

File:

PDF, 39 KB

2018

18

Truncated tetrahedral RNA nanostructures exhibit enhanced features for delivery of RNAi substrates

Zakrevsky, Paul, Kasprzak, Wojciech K., Heinz, William F., Wu, Weimin, Khant, Htet, Bindewald, Eckart, Dorjsuren, Nomongo, Fields, Eric A., de Val, Natalia, Jaeger, Luc, Shapiro, Bruce A.

Journal:

Year:

2020

File:

PDF, 3.25 MB

2020

19

Multistrand RNA Secondary Structure Prediction and Nanostructure Design Including Pseudoknots

Bindewald, Eckart, Afonin, Kirill, Jaeger, Luc, Shapiro, Bruce A.

Journal:

Year:

2011

Language:

english

File:

PDF, 4.68 MB

english, 2011

20

Design and Modeling of RNA Nanostructures with Flexible Building Blocks

Kasprzak, Wojciech K., Bindewald, Eckart, Kim, Tae-Jin, Zimmermann, Michael T., Jernigan, Robert L., Shapiro, Bruce A.

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 59 KB

english, 2011

21

Align: a C++ Class Library and Web Server for Rapid Sequence Alignment Prototyping

Silvio C.E. Tosatto, Bentham Science Publisher, Albiero, Alessandro, Mantovan, Alessandra, Ferrari, Carlo, Bindewald, Eckart, Toppo, Stefano

Journal:

Current Drug Discovery Technologies

Year:

2006

Language:

english

File:

PDF, 301 KB

english, 2006

22

In vitro assembly of cubic RNA-based scaffolds designed in silico

Afonin, Kirill A., Bindewald, Eckart, Yaghoubian, Alan J., Voss, Neil, Jacovetty, Erica, Shapiro, Bruce A., Jaeger, Luc

Journal:

Nature Nanotechnology

Year:

2010

Language:

english

File:

PDF, 2.54 MB

english, 2010

23

A survey suggests individual priorities are virtually unique: Implications for group dynamics, goal achievement and ecology

Bindewald, Eckart

Journal:

Ecological Modelling

Year:

2017

Language:

english

File:

PDF, 2.52 MB

english, 2017

24

Computational and experimental characterization of RNA cubic nanoscaffolds

Afonin, Kirill A., Kasprzak, Wojciech, Bindewald, Eckart, Puppala, Praneet S., Diehl, Alex R., Hall, Kenneth T., Kim, Tae Jin, Zimmermann, Michael T., Jernigan, Robert L., Jaeger, Luc, Shapiro, Bruce

Journal:

Year:

2014

Language:

english

File:

PDF, 2.02 MB

english, 2014

25

A Suite of Therapeutically-Inspired Nucleic Acid Logic Systems for Conditional Generation of Single-Stranded and Double-Stranded Oligonucleotides

Zakrevsky, Paul, Bindewald, Eckart, Humbertson, Hadley, Viard, Mathias, Dorjsuren, Nomongo, Shapiro, Bruce A.

Journal:

Year:

2019

File:

PDF, 2.26 MB

2019

26

The Use of Minimal RNA Toeholds to Trigger the Activation of Multiple Functionalities

Afonin, Kirill A., Viard, Mathias, Tedbury, Philip, Bindewald, Eckart, Parlea, Lorena, Howington, Marshall, Valdman, Melissa, Johns-Boehme, Alizah, Brainerd, Cara, Freed, Eric O., Shapiro, Bruce A.

Journal:

Year:

2016

Language:

english

File:

PDF, 4.03 MB

english, 2016

27

Functionally-interdependent shape-switching nanoparticles with controllable properties

Halman, Justin R., Satterwhite, Emily, Roark, Brandon, Chandler, Morgan, Viard, Mathias, Ivanina, Anna, Bindewald, Eckart, Kasprzak, Wojciech K., Panigaj, Martin, Bui, My N., Lu, Jacob S., Miller, Joh

Journal:

Nucleic Acids Research

Year:

2017

Language:

english

File:

PDF, 6.25 MB

english, 2017

28

Ring Catalog: A resource for designing self-assembling RNA nanostructures

Parlea, Lorena, Bindewald, Eckart, Sharan, Rishabh, Bartlett, Nathan, Moriarty, Daniel, Oliver, Jerome, Afonin, Kirill A., Shapiro, Bruce A.

Journal:

Year:

2016

Language:

english

File:

PDF, 2.58 MB

english, 2016

29

A scoring function for docking ligands to low-resolution protein structures

Eckart Bindewald, Jeffrey Skolnick

Journal:

Journal of Computational Chemistry

Year:

2005

Language:

english

File:

PDF, 178 KB

english, 2005

30

Coarse-Grained Computational Characterization of RNA Nanocube Flexibility Correlates with Experiments

Kasprzak, Wojciech K., Afonin, Kirill A., Bindewald, Eckart, Puppala, Praneet S., Kim, Tae-Jin, Zimmermann, Michael T., Jernigan, Robert L., Shapiro, Bruce A.

Journal:

Biophysical Journal

Year:

2013

Language:

english

File:

PDF, 41 KB

english, 2013

31

Predicting RNA SHAPE scores with deep learning

Bliss, Noah, Bindewald, Eckart, Shapiro, Bruce A.

Journal:

Year:

2020

File:

PDF, 2.95 MB

2020

32

A Suite of Therapeutically-Inspired Nucleic Acid Logic Systems for Conditional Generation of Single-Stranded and Double-Stranded Oligonucleotides

Zakrevsky, Paul, Bindewald, Eckart, Humbertson, Hadley, Viard, Mathias, Dorjsuren, Nomongo, Shapiro, Bruce A.

Journal:

Year:

2019

Language:

english

File:

PDF, 2.26 MB

english, 2019

33

Evaluation of Selected Kissing-Loops as Building Blocks in RNA Nano Design

Kasprzak, Wojciech K., Bindewald, Eckart, Kim, Tae-Jin, Stephen, Andrew, Fisher, Robert, Shapiro, Bruce A.

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 38 KB

english, 2010

34

Role of 3′UTRs in the Translation of mRNAs Regulated by Oncogenic eIF4E—A Computational Inference

Santhanam, Arti N., Bindewald, Eckart, Rajasekhar, Vinagolu K., Larsson, Ola, Sonenberg, Nahum, Colburn, Nancy H., Shapiro, Bruce A., Stajich, Jason E.

Journal:

Year:

2009

Language:

english

File:

PDF, 382 KB

english, 2009

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