Computational identification of functional introns: high positional conservation of introns that harbor RNA genes

Anticancer peptide (ACP) is a kind of small peptides that can kill cancer cells without damaging normal cells. In recent years, ACP has been pre-clinically used for cancer treatment. Therefore, accurate identification of ACPs will promote their clinical applications. In contrast to labor-intensive experimental techniques, a series of computational methods have been proposed for identifying ACPs. In this review, we briefly summarized the current progress in computational identification of ACPs. The challenges and future perspectives in developing reliable methods for identification of ACPs were also discussed. We anticipate that this review could provide novel insights into future researches on anticancer peptides.

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Special Protein Molecules Computational Identification

Current Proteomics ◽

10.2174/157016461704200514074413 ◽

2020 ◽

Vol 17 (4) ◽

pp. 256-257

Author(s):

Fei Guo

Keyword(s):

Protein Molecules ◽

Computational Identification

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Computational Identification of microRNA-like Elements in Leishmania major

MicroRNA ◽

10.2174/2211536602666131203232422 ◽

2014 ◽

Vol 2 (3) ◽

pp. 225-230 ◽

Cited By ~ 3

Author(s):

Ganesh Sahoo ◽

Md. Ansari ◽

Manas Dikhit ◽

Neha Gupta ◽

Sindhuprava Rana ◽

...

Keyword(s):

Leishmania Major ◽

Computational Identification

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Computational Identification of MicroRNA-targeted Nucleotide-Binding Site-Leucine-Rich Repeat Genes in Plants

BIO-PROTOCOL ◽

10.21769/bioprotoc.1637 ◽

2015 ◽

Vol 5 (21) ◽

Cited By ~ 1

Author(s):

Zhu-Qing Shao ◽

Yan-Mei Zhang ◽

Bin Wang ◽

Jian-Qun Chen

Keyword(s):

Binding Site ◽

Nucleotide Binding ◽

Nucleotide Binding Site ◽

Leucine Rich Repeat ◽

Computational Identification

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The Complete Mitochondrial Genome of endemic giant tarantula, Lyrognathus crotalus (Araneae: Theraphosidae) and comparative analysis

Scientific Reports ◽

10.1038/s41598-019-57065-8 ◽

2020 ◽

Vol 10 (1) ◽

Cited By ~ 2

Author(s):

Vikas Kumar ◽

Kaomud Tyagi ◽

Rajasree Chakraborty ◽

Priya Prasad ◽

Shantanu Kundu ◽

...

Keyword(s):

Mitochondrial Genome ◽

Complete Mitochondrial Genome ◽

Start Codon ◽

Gene Arrangement ◽

Sister Relationship ◽

Protein Coding ◽

Relationship Of ◽

Rna Genes ◽

Boundary Mapping ◽

Cloverleaf Structure

AbstractThe complete mitochondrial genome of Lyrognathus crotalus is sequenced, annotated and compared with other spider mitogenomes. It is 13,865 bp long and featured by 22 transfer RNA genes (tRNAs), and two ribosomal RNA genes (rRNAs), 13 protein-coding genes (PCGs), and a control region (CR). Most of the PCGs used ATN start codon except cox3, and nad4 with TTG. Comparative studies indicated the use of TTG, TTA, TTT, GTG, CTG, CTA as start codons by few PCGs. Most of the tRNAs were truncated and do not fold into the typical cloverleaf structure. Further, the motif (CATATA) was detected in CR of nine species including L. crotalus. The gene arrangement of L. crotalus compared with ancestral arthropod showed the transposition of five tRNAs and one tandem duplication random loss (TDRL) event. Five plesiomophic gene blocks (A-E) were identified, of which, four (A, B, D, E) retained in all taxa except family Salticidae. However, block C was retained in Mygalomorphae and two families of Araneomorphae (Hypochilidae and Pholcidae). Out of 146 derived gene boundaries in all taxa, 15 synapomorphic gene boundaries were identified. TreeREx analysis also revealed the transposition of trnI, which makes three derived boundaries and congruent with the result of the gene boundary mapping. Maximum likelihood and Bayesian inference showed similar topologies and congruent with morphology, and previously reported multi-gene phylogeny. However, the Gene-Order based phylogeny showed sister relationship of L. crotalus with two Araneomorphae family members (Hypochilidae and Pholcidae) and other Mygalomorphae species.

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