An overview and metanalysis of machine and deep learning-based CRISPR gRNA design tools
The CRISPR-Cas9 system has become the most promising and versatile tool for genetic
manipulation applications. Albeit the technology has been broadly adopted by both …
manipulation applications. Albeit the technology has been broadly adopted by both …
Learning functional properties of proteins with language models
Data-centric approaches have been used to develop predictive methods for elucidating
uncharacterized properties of proteins; however, studies indicate that these methods should …
uncharacterized properties of proteins; however, studies indicate that these methods should …
DeePromoter: robust promoter predictor using deep learning
The promoter region is located near the transcription start sites and regulates transcription
initiation of the gene by controlling the binding of RNA polymerase. Thus, promoter region …
initiation of the gene by controlling the binding of RNA polymerase. Thus, promoter region …
iN6-Methyl (5-step): Identifying RNA N6-methyladenosine sites using deep learning mode via Chou's 5-step rules and Chou's general PseKNC
Abstract N6-methyladenosine (m 6 A) is an RNA methylation modification and it is involved
in various biological progresses such as translation, alternative splicing, degradation …
in various biological progresses such as translation, alternative splicing, degradation …
[HTML][HTML] iRNA-PseKNC (2methyl): Identify RNA 2'-O-methylation sites by convolution neural network and Chou's pseudo components
Abstract The 2'-O-methylation transferase is involved in the process of 2'-O-methylation. In
catalytic processes, the 2-hydroxy group of the ribose moiety of a nucleotide accept a methyl …
catalytic processes, the 2-hydroxy group of the ribose moiety of a nucleotide accept a methyl …
iDNA6mA (5-step rule): Identification of DNA N6-methyladenine sites in the rice genome by intelligent computational model via Chou's 5-step rule
DNA methylation is an elementary epigenetic process. The N6-methyladenine is related to a
large kind of biological processes ie, transcription, DNA replication, and repair. In genome …
large kind of biological processes ie, transcription, DNA replication, and repair. In genome …
iPseU-CNN: identifying RNA pseudouridine sites using convolutional neural networks
Pseudouridine is the most prevalent RNA modification and has been found in both
eukaryotes and prokaryotes. Currently, pseudouridine has been demonstrated in several …
eukaryotes and prokaryotes. Currently, pseudouridine has been demonstrated in several …
A CNN-based RNA N6-methyladenosine site predictor for multiple species using heterogeneous features representation
Post-transcriptional modification such as N6-methyladenosine (m6A) has a crucial role in
the stability and regulation of gene expression. Therefore, the identification of m6A is highly …
the stability and regulation of gene expression. Therefore, the identification of m6A is highly …
DNA sequences performs as natural language processing by exploiting deep learning algorithm for the identification of N4-methylcytosine
N4-methylcytosine is a biochemical alteration of DNA that affects the genetic operations
without modifying the DNA nucleotides such as gene expression, genomic imprinting …
without modifying the DNA nucleotides such as gene expression, genomic imprinting …
4mCCNN: Identification of N4-methylcytosine sites in prokaryotes using convolutional neural network
The epigenetic modification, DNA N4-methylcytosine (4mC) plays an important role in DNA
expression, repair, and replication. It simply plays a crucial role in restriction-modification …
expression, repair, and replication. It simply plays a crucial role in restriction-modification …