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Select item 104394031.

Phylogenetic investigation of Gammaproteobacteria proteins involved in exogenous long-chain fatty acid acquisition and assimilation

Saksham Saksena, Kwame Forbes, Nipun Rajan, David Giles

Biochem Biophys Rep. 2023 Sep; 35: 101504. Published online 2023 Jul 4. doi: 10.1016/j.bbrep.2023.101504

PMCID:: PMC10439403

Abstract Article PDF–5.8M

Select item 104501672.

DoubleHelix: nucleic acid sequence identification, assignment and validation tool for cryo-EM and crystal structure models

Grzegorz Chojnowski

Nucleic Acids Res. 2023 Aug 25; 51(15): 8255–8269. Published online 2023 Jul 3. doi: 10.1093/nar/gkad553

PMCID:: PMC10450167

Abstract Article PDF–2.0M

Select item 91751133.

Perspectives on conformationally constrained peptide nucleic acid (PNA): insights into the structural design, properties and applications

Chaturong Suparpprom, Tirayut Vilaivan

RSC Chem Biol. 2022 Jun 8; 3(6): 648–697. Published online 2022 Mar 18. doi: 10.1039/d2cb00017b

PMCID:: PMC9175113

Abstract Article PDF–13M

Select item 87890634.

Computational investigation of the impact of core sequence on immobile DNA four-way junction structure and dynamics

Matthew R Adendorff, Guo Qing Tang, David P Millar, Mark Bathe, William P Bricker

Nucleic Acids Res. 2022 Jan 25; 50(2): 717–730. Published online 2021 Dec 22. doi: 10.1093/nar/gkab1246

PMCID:: PMC8789063

Abstract Article PDF–4.1M

Select item 34792145.

Nucleotide excision repair of 2-acetylaminofluorene- and 2-aminofluorene-(C8)-guanine adducts: molecular dynamics simulations elucidate how lesion structure and base sequence context impact repair efficiencies

Hong Mu, Konstantin Kropachev, Lihua Wang, Lu Zhang, Alexander Kolbanovskiy, Marina Kolbanovskiy, Nicholas E. Geacintov, Suse Broyde

Nucleic Acids Res. 2012 Oct; 40(19): 9675–9690. Published online 2012 Aug 13. doi: 10.1093/nar/gks788

PMCID:: PMC3479214

Abstract Article PDF–10M

Select item 108820386.

CRISPR/Cas-based nucleic acid detection strategies: Trends and challenges

Jian Zhou, Zhuo Li, Joshua Seun Olajide, Gang Wang

Heliyon. 2024 Feb 29; 10(4): e26179. Published online 2024 Feb 14. doi: 10.1016/j.heliyon.2024.e26179

PMCID:: PMC10882038

Abstract Article PDF–12M

Select item 95141657.

Discovery of a tRNA-like base sequence in the coronavirus genome and possible mechanism of action

Hachiro Inokuchi

Genes Genomics. 2022; 44(11): 1399–1404. Published online 2022 Sep 27. doi: 10.1007/s13258-022-01299-w

PMCID:: PMC9514165

Abstract Article PDF–725K

Select item 83019198.

Gold–Oligonucleotide Nanoconstructs Engineered to Detect Conserved Enteroviral Nucleic Acid Sequences

Veeren M. Chauhan, Mohamed M. Elsutohy, C. Patrick McClure, William L. Irving, Neil Roddis, Jonathan W. Aylott

Biosensors (Basel) 2021 Jul; 11(7): 238. Published online 2021 Jul 14. doi: 10.3390/bios11070238

PMCID:: PMC8301919

Abstract Article PDF–20M

Select item 71795679.

CFSP: a collaborative frequent sequence pattern discovery algorithm for nucleic acid sequence classification

He Peng

PeerJ. 2020; 8: e8965. Published online 2020 Apr 20. doi: 10.7717/peerj.8965

PMCID:: PMC7179567

Abstract Article PDF–1.0M

Select item 292309610.

Distant neighbor base sequence context effects in human nucleotide excision repair of a benzo[a]pyrene-derived DNA lesion

Yuqin Cai, Konstantin Kropachev, Rong Xu, Yijin Tang, Marina Kolbanovskii, Alexander Kolbanovskii, Shantu Amin, Dinshaw J. Patel, Suse Broyde, Nicholas E. Geacintov

J Mol Biol. Author manuscript; available in PMC 2011 Jun 11.

Published in final edited form as: J Mol Biol. 2010 Jun 11; 399(3): 397–409. Published online 2010 Apr 22. doi: 10.1016/j.jmb.2010.04.004

PMCID:: PMC2923096

Abstract Article PDF–2.3M

Select item 1084181411.

CryoREAD: De novo structure modeling for nucleic acids in cryo-EM maps using deep learning

Xiao Wang, Genki Terashi, Daisuke Kihara

Nat Methods. Author manuscript; available in PMC 2024 Nov 1.

Published in final edited form as: Nat Methods. 2023 Nov; 20(11): 1739–1747. Published online 2023 Oct 2. doi: 10.1038/s41592-023-02032-5

PMCID:: PMC10841814

Abstract Article PDF–5.8M

Select item 324776412.

Real-Time Nucleic Acid Sequence-Based Amplification to Predict the Clinical Outcome of Invasive Aspergillosis

Si-Hyun Kim, Chulmin Park, Eun-Young Kwon, Na-Young Shin, Jae-Cheol Kwon, Sun Hee Park, Su-Mi Choi, Dong-Gun Lee, Jung-Hyun Choi, Jin-Hong Yoo

J Korean Med Sci. 2012 Jan; 27(1): 10–15. Published online 2011 Dec 19. doi: 10.3346/jkms.2012.27.1.10

PMCID:: PMC3247764

Abstract Article PDF–435K

Select item 996939413.

Sequence-Dependent Melting and Refolding Dynamics of RNA UNCG Tetraloops Using Temperature-Jump/Drop Infrared Spectroscopy

C. P. Howe, G. M. Greetham, B. Procacci, A. W. Parker, N. T. Hunt

J Phys Chem B. 2023 Feb 23; 127(7): 1586–1597. Published online 2023 Feb 14. doi: 10.1021/acs.jpcb.2c08709

PMCID:: PMC9969394

Abstract Article PDF–5.9M

Select item 1046585414.

Development of a bicistronic anti-CD19/CD20 CAR construct including abrogation of unexpected nucleic acid sequence deletions

Norris Lam, Richard Finney, Shicheng Yang, Stephanie Choi, Xiaolin Wu, Lauren Cutmore, Jorge Andrade, Lei Huang, Christina Amatya, Margaret Cam, James N. Kochenderfer

Mol Ther Oncolytics. 2023 Sep 21; 30: 132–149. Published online 2023 Jul 19. doi: 10.1016/j.omto.2023.07.001

PMCID:: PMC10465854

Abstract Article PDF–3.8M

Select item 754151015.

Sequence-to-function deep learning frameworks for engineered riboregulators

Jacqueline A. Valeri, Katherine M. Collins, Pradeep Ramesh, Miguel A. Alcantar, Bianca A. Lepe, Timothy K. Lu, Diogo M. Camacho

Nat Commun. 2020; 11: 5058. Published online 2020 Oct 7. doi: 10.1038/s41467-020-18676-2

PMCID:: PMC7541510

Abstract Article PDF–1.9M

Select item 681817316.

Local DNA Base Conformations and Ligand Intercalation in DNA Constructs Containing Optical Probes

Huiying Ji, Neil P. Johnson, Peter H. von Hippel, Andrew H. Marcus

Biophys J. 2019 Sep 17; 117(6): 1101–1115. Published online 2019 Aug 12. doi: 10.1016/j.bpj.2019.08.006

PMCID:: PMC6818173

Abstract Article PDF–1.7M

Select item 592094417.

RNA Structural Dynamics As Captured by Molecular Simulations: A Comprehensive Overview

Jiří Šponer, Giovanni Bussi, Miroslav Krepl, Pavel Banáš, Sandro Bottaro, Richard A. Cunha, Alejandro Gil-Ley, Giovanni Pinamonti, Simón Poblete, Petr Jurečka, Nils G. Walter, Michal Otyepka

Chem Rev. 2018 Apr 25; 118(8): 4177–4338. Published online 2018 Jan 3. doi: 10.1021/acs.chemrev.7b00427