Progresses in predicting post-translational modification
KC Chou - International Journal of Peptide Research and …, 2020 - Springer
Identification of the sites of post-translational modifications (PTMs) in protein, RNA, and DNA
sequences is currently a very hot topic. This is because the information thus obtained is very …
sequences is currently a very hot topic. This is because the information thus obtained is very …
Sequence representation approaches for sequence-based protein prediction tasks that use deep learning
Deep learning has been increasingly used in bioinformatics, especially in sequence-based
protein prediction tasks, as large amounts of biological data are available and deep learning …
protein prediction tasks, as large amounts of biological data are available and deep learning …
MRMD2. 0: a python tool for machine learning with feature ranking and reduction
S He, F Guo, Q Zou - Current Bioinformatics, 2020 - ingentaconnect.com
Aims: The study aims to find a way to reduce the dimensionality of the dataset. Background:
Dimensionality reduction is the key issue of the machine learning process. It does not only …
Dimensionality reduction is the key issue of the machine learning process. It does not only …
Anticancer peptides prediction with deep representation learning features
Anticancer peptides constitute one of the most promising therapeutic agents for combating
common human cancers. Using wet experiments to verify whether a peptide displays …
common human cancers. Using wet experiments to verify whether a peptide displays …
Identification of membrane protein types via multivariate information fusion with Hilbert–Schmidt independence criterion
Membrane proteins perform a variety of functions vital to the survival of organisms, such as
oxidoreductase, transferase or hydrolase. If the type of membrane protein can be detected …
oxidoreductase, transferase or hydrolase. If the type of membrane protein can be detected …
iEnhancer-5Step: identifying enhancers using hidden information of DNA sequences via Chou's 5-step rule and word embedding
An enhancer is a short (50–1500bp) region of DNA that plays an important role in gene
expression and the production of RNA and proteins. Genetic variation in enhancers has …
expression and the production of RNA and proteins. Genetic variation in enhancers has …
CRBPDL: Identification of circRNA-RBP interaction sites using an ensemble neural network approach
Circular RNAs (circRNAs) are non-coding RNAs with a special circular structure produced
formed by the reverse splicing mechanism. Increasing evidence shows that circular RNAs …
formed by the reverse splicing mechanism. Increasing evidence shows that circular RNAs …
DeepAVP: a dual-channel deep neural network for identifying variable-length antiviral peptides
Antiviral peptides (AVPs) have been experimentally verified to block virus into host cells,
which have antiviral activity with decapeptide amide. Therefore, utilization of experimentally …
which have antiviral activity with decapeptide amide. Therefore, utilization of experimentally …
NmRF: identification of multispecies RNA 2'-O-methylation modification sites from RNA sequences
C Ao, Q Zou, L Yu - Briefings in bioinformatics, 2022 - academic.oup.com
O-methylation (Nm) is a post-transcriptional modification of RNA that is catalyzed by 2'-O-
methyltransferase and involves replacing the H on the 2′-hydroxyl group with a methyl …
methyltransferase and involves replacing the H on the 2′-hydroxyl group with a methyl …
RF-PseU: a random forest predictor for RNA pseudouridine sites
One of the ubiquitous chemical modifications in RNA, pseudouridine modification is crucial
for various cellular biological and physiological processes. To gain more insight into the …
for various cellular biological and physiological processes. To gain more insight into the …