MRNA Transcription, Translation, and Defects in Developmental Cognitive and Behavioral Disorders

Smith, Moyra

doi:10.3389/fmolb.2020.577710

Cited by 3 publications

(2 citation statements)

References 69 publications

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“…mRNA (messenger RNA) consists of genetic codes called codons, sequences of trinucleotides that correspond to specific amino acids. Translation is the process of translating mRNA codons into amino acids to form proteins (Pánek et al, 2017;Smith, 2020;Taylor, 2006). The following example shows the application of the Transcription and Translation Biopython scripts to generate mRNA and protein sequences.…”

Section: Amino Acidsmentioning

confidence: 99%

Biopython: Comparing the DNA Polymerase I (polA) Gene of Thermophilic, Mesophilic, and Psychrophilic Bacteria

Adam

2021

BEDJ

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Biopython is a specialized Python tool for computational molecular biology. Various computational molecular analysis that can be performed using Biopython, such as reconstructing phylogenetic trees, multiple sequence analysis, generating complementary sequences, counting amino acids, etc. This technical notes paper describes in detail the procedures computational DNA sequence analysis using Biopython. The DNA polymerase I (polA) gene sequences of bacteria were used in this study to compare the differences between Thermophilic, Mesophilic, and Psychrophilic bacteria.

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Section: Amino Acidsmentioning

confidence: 99%

Biopython: Comparing the DNA Polymerase I (polA) Gene of Thermophilic, Mesophilic, and Psychrophilic Bacteria

Adam

2021

BEDJ

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“…Dysregulated translation has been implicated in a gamut of human diseases (101) including cancer (102,103) and several neurological disorders (99,104,105).…”

Section: Viral Subgenomic Rnasmentioning

confidence: 99%

Global effects of plant virus infection, viral noncoding RNAs, and unfolded protein response on plant gene expression

Kanodia

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DORQ-seq: high-throughput quantification of femtomol tRNA pools by combination of cDNA hybridization and Deep sequencing

Kristen,

Lander,

Kilz

et al. 2024

Nucleic Acids Research

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Due to its high modification content tRNAs are notoriously hard to quantify by reverse transcription and RNAseq. Bypassing numerous biases resulting from concatenation of enzymatic treatments, we here report a hybrid approach that harnesses the advantages of hybridization-based and deep sequencing–based approaches. The method renders obsolete any RNAseq related workarounds and correction factors that affect accuracy, sensitivity, and turnaround time. Rather than by reverse transcription, quantitative information on the isoacceptor composition of a tRNA pool is transferred to a cDNA mixture in a single step procedure, thereby omitting all enzymatic conversations except for the subsequent barcoding PCR. As a result, a detailed tRNA composition matrix can be obtained from femtomolar amounts of total tRNA. The method is fast, low in cost, and its bioinformatic data workup surprisingly simple. These properties make the approach amenable to high-throughput investigations including clinical samples, as we have demonstrated by application to a collection of variegated biological questions, each answered with novel findings. These include tRNA pool quantification of polysome-bound tRNA, of tRNA modification knockout strains under stress conditions, and of Alzheimer patients’ brain tissues.

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MRNA Transcription, Translation, and Defects in Developmental Cognitive and Behavioral Disorders

Cited by 3 publications

References 69 publications

Biopython: Comparing the DNA Polymerase I (polA) Gene of Thermophilic, Mesophilic, and Psychrophilic Bacteria

Biopython: Comparing the DNA Polymerase I (polA) Gene of Thermophilic, Mesophilic, and Psychrophilic Bacteria

Global effects of plant virus infection, viral noncoding RNAs, and unfolded protein response on plant gene expression

DORQ-seq: high-throughput quantification of femtomol tRNA pools by combination of cDNA hybridization and Deep sequencing

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