Speeding with control: codon usage, tRNAs, and ribosomes

EM Novoa, LR de Pouplana - Trends in Genetics, 2012 - cell.com
Codon usage and tRNA abundance are critical parameters for gene synthesis. However, the
forces determining codon usage bias within genomes and between organisms, as well as …

Physical principles and visual-OMP software for optimal PCR design

J SantaLucia - PCR primer design, 2007 - Springer
The physical principles of DNA hybridization and folding are described within the context of
how they are important for designing optimal PCRs. The multi-state equilibrium model for …

3D mapping and accelerated super-resolution imaging of the human genome using in situ sequencing

HQ Nguyen, S Chattoraj, D Castillo, SC Nguyen… - Nature …, 2020 - nature.com
There is a need for methods that can image chromosomes with genome-wide coverage, as
well as greater genomic and optical resolution. We introduce OligoFISSEQ, a suite of three …

Second-generation DNA-templated macrocycle libraries for the discovery of bioactive small molecules

DL Usanov, AI Chan, JP Maianti, DR Liu - Nature chemistry, 2018 - nature.com
DNA-encoded libraries have emerged as a widely used resource for the discovery of
bioactive small molecules, and offer substantial advantages compared with conventional …

Detection of low-frequency mutations in clinical samples by increasing mutation abundance via the excision of wild-type sequences

W Chen, H Xu, S Dai, J Wang, Z Yang, Y Jin… - Nature biomedical …, 2023 - nature.com
The efficiency of DNA-enrichment techniques is often insufficient to detect mutations that
occur at low frequencies. Here we report a DNA-excision method for the detection of low …

[HTML][HTML] Java web tools for PCR, in silico PCR, and oligonucleotide assembly and analysis

R Kalendar, D Lee, AH Schulman - Genomics, 2011 - Elsevier
The polymerase chain reaction is fundamental to molecular biology and is the most
important practical molecular technique for the research laboratory. We have developed and …

Paired end sequencing

J Berka, Z Chen, M Egholm, BC Godwin… - US Patent …, 2009 - Google Patents
(*) Netleei subJeet to any dlselalmeri the term ofthls Pelicic, v. et al,(2000) J. Bacteriol. 182:
5391-5398. patent is extended or adjusted under 35 Yao, M. AndKow, YW.(1995) J. Biol …

Guide RNAs containing universal bases enable Cas9/Cas12a recognition of polymorphic sequences

AR Krysler, CR Cromwell, T Tu, J Jovel… - Nature …, 2022 - nature.com
CRISPR/Cas complexes enable precise gene editing in a wide variety of organisms. While
the rigid identification of DNA sequences by these systems minimizes the potential for off …

Dual priming oligonucleotide system for the multiplex detection of respiratory viruses and SNP genotyping of CYP2C19 gene

JY Chun, KJ Kim, IT Hwang, YJ Kim… - Nucleic acids …, 2007 - academic.oup.com
Successful PCR starts with proper priming between an oligonucleotide primer and the
template DNA. However, the inevitable risk of mismatched priming cannot be avoided in the …

Analysis of 16S rRNA primer systems for profiling of thermophilic microbial communities

AY Merkel, IY Tarnovetskii, OA Podosokorskaya… - Microbiology, 2019 - Springer
Thermophilic microorganisms are of special interest for phylogenetics and research in
prokaryotic evolution, since many of them belong to deep branches of the tree of life. For this …