Results 31 to 40 of about 9,562,225 (293)

RNA-Puzzles: A CASP-like evaluation of RNA three-dimensional structure prediction.: [PDF]

, 2012
We report the results of a first, collective, blind experiment in RNA three-dimensional (3D) structure prediction, encompassing three prediction puzzles.
Rother, K., Rother, M., Philips, A., Ding, F., Waldsich, C., Patel, D. J., Das, R., Chen, S.-J., Lavender, C. A., Skorupski, M., Cao, S., Blanchet, M.-F., Cruz, J. A., Flores, S. C., Santalucia, J., Lisi, V., Wildauer, M., Dokholyan, N. V., Soltysinski, T., Hermann, T., Sripakdeevong, P., Serganov, A., Leontis, N. B., Boniecki, M., Weeks, K. M., Major, F., Tuszynska, I., Puton, T., Bujnicki, J. M., Huang, L., Mikolajczak, K., Sijenyi, F., Waldsich, C. (C), Westhof, E. (Eric), Mikolajczak, K, Rother, Magdalena, Mikolajczak, K. (K), Dokholyan, Nikolay V., Cruz, J. (J) A. (A), Soltysinski, T. (T), Boniecki, Michal, Cruz, J, Cao, S. (S), Ding, Feng, Dokholyan, N. (N) V. (V), Santalucia, John, Patel, Dinshaw J., Boniecki, M, Major, F. (F), Skorupski, Marcin, Rother, Kristian, Weeks, Kevin M., Philips, A. (A), Wildauer, Michael, Chen, Shi-Jie, Huang, Lili, Skorupski, M, Lavender, C. (C) A. (A), Major, F, Weeks, K. (K) M. (M), Lisi, V. (V), Dokholyan, N, Huang, L. (L), Leontis, N. (N) B. (B), Puton, T, Das, Rhiju, Hermann, T, Philips, A, Puton, T. (T), Philips, Anna, Santalucia, J. (J), Soltysinski, T, Das, R. (R), Bujnicki, J. (J) M. (M), Lavender, C, Leontis, N, Ding, F. (F), Lavender, Christopher A., Sijenyi, F, Serganov, A, Rother, K, Leontis, Neocles B., Lisi, Veronique, Rother, M, Blanchet, Marc-Frederick, Sripakdeevong, P, Sripakdeevong, P. (P), Waldsich, C, Cao, Song, Skorupski, M. (M), Bujnicki, J, Flores, S, Serganov, Alexander, Soltysinski, Tomasz, Tuszynska, Irina, Rother, K. (K), Puton, Tomasz, Das, R, Flores, S. (S) C. (C), Serganov, A. (A), Bujnicki, Janusz M., Lisi, V, Cruz, Jose Almeida, Coulbourn Flores, Samuel,, Chen, S, Blanchet, M. (M) F. (F), Major, Francois, Hermann, T. (T), Cao, S, Santalucia, J, Wildauer, M. (M), Weeks, K, Boniecki, M. (M), Rother, M. (M), Tuszynska, I, Waldsich, Christina, Tuszynska, I. (I), Sijenyi, Fredrick, Sripakdeevong, Parin, Ding, F, Blanchet, M, Chen, S. (S) J. (J), Patel, D, Westhof, Eric, Patel, D. (D) J. (J), Sijenyi, F. (F), Hermann, Thomas, Mikolajczak, Katarzyna, Huang, L, Wildauer, M, Patel, Dinshaw, Bujnicki, Janusz, Lavender, Christopher, Weeks, Kevin, Dokholyan, Nikolay, Flores, Samuel Coulbourn, Leontis, Neocles   +136 more
core   +1 more source

Structure and function prediction of human homologue hABH5 of _E. coli_ ALKB5 using in silico approach [PDF]

, 2011
Newly discovered human homologues of ALKB protein have shown the activity of DNA damaging drugs, used for cancer therapy. Little is known about the structure and function of hABH5, one of the members of this superfamily.
shankaracharya shankaracharya, Mr. Shankaracharya, Ambarish Sharan Vidyarthi, null Shankaracharya, Saibal Das   +4 more
core   +1 more source

A New Method of RNA Secondary Structure Prediction Based on Convolutional Neural Network and Dynamic Programming

Frontiers in Genetics, 2019
In recent years, obtaining RNA secondary structure information has played an important role in RNA and gene function research. Although some RNA secondary structures can be gained experimentally, in most cases, efficient, and accurate computational ...
Hao Zhang, Chunhe Zhang, Zhi Li, Cong Li, Xu Wei, Borui Zhang, Yuanning Liu   +6 more
doaj   +1 more source

REDfold: accurate RNA secondary structure prediction using residual encoder-decoder network

BMC Bioinformatics, 2023
Background As the RNA secondary structure is highly related to its stability and functions, the structure prediction is of great value to biological research.
Chun-Chi Chen, Yi-Ming Chan
doaj   +1 more source

RNAvigator: A Pipeline to Identify Candidates for Functional RNA Structure Elements

Frontiers in Virology, 2022
Identifying structural elements in long and complex RNAs, such as long non-coding and RNA viruses, can shed light on the functionality and mechanisms of such RNAs.
Riccardo Delli Ponti, Jiaxu Wang, Yue Wan, Roland G. Huber   +3 more
doaj   +1 more source

A hepatitis C virus cis-acting replication element forms a long-range RNA-RNA interaction with upstream RNA sequences in NS5B [PDF]

, 2008
The genome of hepatitis C virus (HCV) contains cis-acting replication elements (CREs) comprised of RNA stem-loop structures located in both the 5' and 3' non-coding regions (NCR), and in the NS5B coding sequence.
Diviney, Sinéad, Elliot, R., Evans, David John, Evans, D., Armstrong, V, Tuplin, Andrew, Evans, D.J., Struthers, Madeleine, Struthers, M., Elliott, Richard M., Diviney, S., Tuplin, A., Armstrong, V., Struthers, M, Simmonds, Peter, Elliott, Richard Michael, Armstrong, Victoria, Tuplin, A, Evans, David J., Simmonds, P., Diviney, S, Elliott, R.M., Simmonds, P, Evans, David John; id_orcid   +23 more
core   +1 more source

The Prediction of Tertiary Structure of RNA Based upon Secondary Structure by Using the Relaxation Method and Texture Mapping Method [PDF]

Journal of Systemics, Cybernetics and Informatics, 2013
In this paper, we propose a method to predict tertiary structure of an RNA sequence. Our prediction method would first find the secondary structure of the given RNA sequence.
C.C. Lin, R.C.T. Lee
doaj  

Crystal structure of Schmallenberg orthobunyavirus nucleoprotein-RNA complex reveals a novel RNA sequestration mechanism [PDF]

, 2013
Schmallenberg virus (SBV) is a newly emerged orthobunyavirus (family Bunyaviridae) that has caused severe disease in the offspring of farm animals across Europe.
Richard M. Elliott, Böttcher, Bettina, Li, P., Dong, H., Li, Ping, Dong, Changjiang, Dong, Haohao, Elliott, R., Boettcher, Bettina, Elliott, Richard M., Bottcher, B., Haohao Dong, Bettina Böttcher, Ping Li, Elliott, Richard M, Dong, C., Changjiang Dong   +16 more
core   +1 more source

Prediction of 3D RNA Structures from Sequence Using Energy Landscapes of RNA Dimers: Application to RNA Tetraloops [PDF]

, 2023
Access to the three-dimensional structure of RNA enables an ability to gain a more profound understanding of its biological mechanisms, as well as the ability to design RNA-targeting drugs, which can take advantage of the unique chemical environment ...
ILYAS, YILDIRIM, Ivan, Riveros
core   +2 more sources

An Algorithm for Template-Based Prediction of Secondary Structures of Individual RNA Sequences

Frontiers in Genetics, 2017
While understanding the structure of RNA molecules is vital for deciphering their functions, determining RNA structures experimentally is exceptionally hard.
Josef Pánek, Martin Modrák, Marek Schwarz   +2 more
doaj   +1 more source