[HTML][HTML] Hypoxia-induced exosomal circPDK1 promotes pancreatic cancer glycolysis via c-myc activation by modulating miR-628-3p/BPTF axis and degrading BIN1

J Lin, X Wang, S Zhai, M Shi, C Peng, X Deng… - Journal of Hematology & …, 2022 - Springer
Background circRNA has been established to play a pivotal role in tumorigenesis
development in a variety of cancers; nevertheless, the biological functions and molecular …

RNALigands: a database and web server for RNA–ligand interactions

S Sun, J Yang, Z Zhang - Rna, 2022 - rnajournal.cshlp.org
RNA molecules can fold into complex and stable 3D structures, allowing them to carry out
important genetic, structural, and regulatory roles inside the cell. These complex structures …

[HTML][HTML] Interaction preferences between protein side chains and key epigenetic modifications 5-methylcytosine, 5-hydroxymethycytosine and N6-methyladenine

M Hajnic, S Alonso-Gil, AA Polyansky, A de Ruiter… - Scientific Reports, 2022 - nature.com
Covalent modifications of standard DNA/RNA nucleobases affect epigenetic regulation of
gene expression by modulating interactions between nucleic acids and protein readers. We …

Computational methods for predicting hotspots at protein–RNA interfaces

LC Mei, GF Hao, GF Yang - Wiley Interdisciplinary Reviews …, 2022 - Wiley Online Library
Protein–RNA interactions play essential roles in many critical biological events. A
comprehensive understanding of the mechanisms underlying these interactions is helpful …

蛋白质-DNA 复合物中残基界面偏好性分析及在识别界面中的应用

杨爽, 李春华 - Biophysics, 2022 - hanspub.org
蛋白质-DNA 识别在生物过程中起着重要作用, 其结合是由序列特异性识别和结构特征共同影响
的. 为了研究残基类型和蛋白质二级结构对结合的贡献, 本文构建了一个新的非冗余蛋白质-DNA …

[PDF][PDF] Matea Hajnic1, 2, Santiago Alonso Gil1, Anton A. Polyansky1, Anita de Ruiter1, 3 &

B Zagrovic1Ε - Scientific Reports, 2022 - researchgate.net
Covalent modifications of standard DNA/RNA nucleobases affect epigenetic regulation of
gene expression by modulating interactions between nucleic acids and protein readers. We …

Advanced computational tools for quantitative analysis of protein–nucleic acid interfaces

S Mukherjee, C Nithin - Advances in Protein Molecular and Structural …, 2022 - Elsevier
Protein–nucleic acids interactions, which involve the binding of protein with RNA or/and
DNA molecules, play crucial roles in many biochemical pathways. Experimental studies of …

[HTML][HTML] Statistical potentials for RNA-protein interactions optimized by CMA-ES

T Kimura, N Yasuo, M Sekijima, B Lustig - Journal of Molecular Graphics …, 2022 - Elsevier
Characterizing RNA-protein interactions remains an important endeavor, complicated by the
difficulty in obtaining the relevant structures. Evaluating model structures via statistical …

[PDF][PDF] Homology modeling of the complex between the Repressor of Primer protein and its cognate RNA kissing complex

D Nikolopoulou - 2022 - utopia.duth.gr
The ROP protein is a dimeric protein with an α-helix bundle conformation that is found in
bacteria. ROP protein is involved in the replication regulation mechanism of the …