Identification and Function Analysis of Novel microRNAs by Computers in <i>Capra Hircus</i>

Zhibin Ji; Guizhi Wang; Fei Dong; Lei Hou; Zhaohua Liu; Tianle Chao; Jianmin Wang

doi:doi:10.11648/j.ijdsa.20160202.12

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Identification and Function Analysis of Novel microRNAs by Computers in Capra Hircus

Zhibin Ji, Guizhi Wang, Fei Dong, Lei Hou, Zhaohua Liu, Tianle Chao, Jianmin Wang

Published in International Journal of Data Science and Analysis (Volume 2, Issue 2)

Received: 6 September 2016 Accepted: 9 December 2016 Published: 30 December 2016

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Abstract

MicroRNAs are a class of non-protein coding small RNAs that regulate genes expression at post-transcriptional levels. Increasing evidence indicates miRNAs play key roles in a broad range of biological processes. In this study, based on the phylogenetic conservation of microRNAs, a combined bioinformatics and sequences homology comparison approach was used for the identification and function analysis of novel miRNA candidates in Capra hircus. As a result, a total of 13 potential microRNA candidates were detected following a range of filtering criteria. 153 non-redundant presumable target genes were predicted in Ovis aries 3′-Untranslated region database. 149 protein sequences were mapped by BLASTX, 2,517 GO terms were returned and distributed in biological process, molecular function and cell component. 66 KEGG pathways were also involved by these novel miRNAs. The qRT-PCR based assay was performed to validate the authenticity of these novel miRNA candidates. The results indicate the expressed sequence tags analysis is an efficient and affordable approach for identifying novel microRNA candidates, and our study provides insight into the further researches of miRNAs and their functions in Capra hircus.

Published in	International Journal of Data Science and Analysis (Volume 2, Issue 2)
DOI	10.11648/j.ijdsa.20160202.12
Page(s)	21-31
Creative Commons	This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited.
Copyright	Copyright © The Author(s), 2024. Published by Science Publishing Group

Keywords

MicroRNA, Target Gene, Capra Hircus, EST, GO, KEGG, Blast2GO

References

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APA Style

Zhibin Ji, Guizhi Wang, Fei Dong, Lei Hou, Zhaohua Liu, et al. (2016). Identification and Function Analysis of Novel microRNAs by Computers in Capra Hircus. International Journal of Data Science and Analysis, 2(2), 21-31. https://doi.org/10.11648/j.ijdsa.20160202.12

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ACS Style

Zhibin Ji; Guizhi Wang; Fei Dong; Lei Hou; Zhaohua Liu, et al. Identification and Function Analysis of Novel microRNAs by Computers in Capra Hircus. Int. J. Data Sci. Anal. 2016, 2(2), 21-31. doi: 10.11648/j.ijdsa.20160202.12

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AMA Style

Zhibin Ji, Guizhi Wang, Fei Dong, Lei Hou, Zhaohua Liu, et al. Identification and Function Analysis of Novel microRNAs by Computers in Capra Hircus. Int J Data Sci Anal. 2016;2(2):21-31. doi: 10.11648/j.ijdsa.20160202.12

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@article{10.11648/j.ijdsa.20160202.12,
  author = {Zhibin Ji and Guizhi Wang and Fei Dong and Lei Hou and Zhaohua Liu and Tianle Chao and Jianmin Wang},
  title = {Identification and Function Analysis of Novel microRNAs by Computers in Capra Hircus},
  journal = {International Journal of Data Science and Analysis},
  volume = {2},
  number = {2},
  pages = {21-31},
  doi = {10.11648/j.ijdsa.20160202.12},
  url = {https://doi.org/10.11648/j.ijdsa.20160202.12},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijdsa.20160202.12},
  abstract = {MicroRNAs are a class of non-protein coding small RNAs that regulate genes expression at post-transcriptional levels. Increasing evidence indicates miRNAs play key roles in a broad range of biological processes. In this study, based on the phylogenetic conservation of microRNAs, a combined bioinformatics and sequences homology comparison approach was used for the identification and function analysis of novel miRNA candidates in Capra hircus. As a result, a total of 13 potential microRNA candidates were detected following a range of filtering criteria. 153 non-redundant presumable target genes were predicted in Ovis aries 3′-Untranslated region database. 149 protein sequences were mapped by BLASTX, 2,517 GO terms were returned and distributed in biological process, molecular function and cell component. 66 KEGG pathways were also involved by these novel miRNAs. The qRT-PCR based assay was performed to validate the authenticity of these novel miRNA candidates. The results indicate the expressed sequence tags analysis is an efficient and affordable approach for identifying novel microRNA candidates, and our study provides insight into the further researches of miRNAs and their functions in Capra hircus.},
 year = {2016}
}

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TY  - JOUR
T1  - Identification and Function Analysis of Novel microRNAs by Computers in Capra Hircus
AU  - Zhibin Ji
AU  - Guizhi Wang
AU  - Fei Dong
AU  - Lei Hou
AU  - Zhaohua Liu
AU  - Tianle Chao
AU  - Jianmin Wang
Y1  - 2016/12/30
PY  - 2016
N1  - https://doi.org/10.11648/j.ijdsa.20160202.12
DO  - 10.11648/j.ijdsa.20160202.12
T2  - International Journal of Data Science and Analysis
JF  - International Journal of Data Science and Analysis
JO  - International Journal of Data Science and Analysis
SP  - 21
EP  - 31
PB  - Science Publishing Group
SN  - 2575-1891
UR  - https://doi.org/10.11648/j.ijdsa.20160202.12
AB  - MicroRNAs are a class of non-protein coding small RNAs that regulate genes expression at post-transcriptional levels. Increasing evidence indicates miRNAs play key roles in a broad range of biological processes. In this study, based on the phylogenetic conservation of microRNAs, a combined bioinformatics and sequences homology comparison approach was used for the identification and function analysis of novel miRNA candidates in Capra hircus. As a result, a total of 13 potential microRNA candidates were detected following a range of filtering criteria. 153 non-redundant presumable target genes were predicted in Ovis aries 3′-Untranslated region database. 149 protein sequences were mapped by BLASTX, 2,517 GO terms were returned and distributed in biological process, molecular function and cell component. 66 KEGG pathways were also involved by these novel miRNAs. The qRT-PCR based assay was performed to validate the authenticity of these novel miRNA candidates. The results indicate the expressed sequence tags analysis is an efficient and affordable approach for identifying novel microRNA candidates, and our study provides insight into the further researches of miRNAs and their functions in Capra hircus.
VL  - 2
IS  - 2
ER  -

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Author Information

Zhibin Ji

Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Veterinary Medicine, Shandong Agricultural University, Taian, China
Guizhi Wang

Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Veterinary Medicine, Shandong Agricultural University, Taian, China
Fei Dong

Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Veterinary Medicine, Shandong Agricultural University, Taian, China
Lei Hou

Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Veterinary Medicine, Shandong Agricultural University, Taian, China
Zhaohua Liu

Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Veterinary Medicine, Shandong Agricultural University, Taian, China
Tianle Chao

Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Veterinary Medicine, Shandong Agricultural University, Taian, China
Jianmin Wang

Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Veterinary Medicine, Shandong Agricultural University, Taian, China

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APA Style

Zhibin Ji, Guizhi Wang, Fei Dong, Lei Hou, Zhaohua Liu, et al. (2016). Identification and Function Analysis of Novel microRNAs by Computers in Capra Hircus. International Journal of Data Science and Analysis, 2(2), 21-31. https://doi.org/10.11648/j.ijdsa.20160202.12

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ACS Style

Zhibin Ji; Guizhi Wang; Fei Dong; Lei Hou; Zhaohua Liu, et al. Identification and Function Analysis of Novel microRNAs by Computers in Capra Hircus. Int. J. Data Sci. Anal. 2016, 2(2), 21-31. doi: 10.11648/j.ijdsa.20160202.12

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AMA Style

Zhibin Ji, Guizhi Wang, Fei Dong, Lei Hou, Zhaohua Liu, et al. Identification and Function Analysis of Novel microRNAs by Computers in Capra Hircus. Int J Data Sci Anal. 2016;2(2):21-31. doi: 10.11648/j.ijdsa.20160202.12

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@article{10.11648/j.ijdsa.20160202.12,
  author = {Zhibin Ji and Guizhi Wang and Fei Dong and Lei Hou and Zhaohua Liu and Tianle Chao and Jianmin Wang},
  title = {Identification and Function Analysis of Novel microRNAs by Computers in Capra Hircus},
  journal = {International Journal of Data Science and Analysis},
  volume = {2},
  number = {2},
  pages = {21-31},
  doi = {10.11648/j.ijdsa.20160202.12},
  url = {https://doi.org/10.11648/j.ijdsa.20160202.12},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijdsa.20160202.12},
  abstract = {MicroRNAs are a class of non-protein coding small RNAs that regulate genes expression at post-transcriptional levels. Increasing evidence indicates miRNAs play key roles in a broad range of biological processes. In this study, based on the phylogenetic conservation of microRNAs, a combined bioinformatics and sequences homology comparison approach was used for the identification and function analysis of novel miRNA candidates in Capra hircus. As a result, a total of 13 potential microRNA candidates were detected following a range of filtering criteria. 153 non-redundant presumable target genes were predicted in Ovis aries 3′-Untranslated region database. 149 protein sequences were mapped by BLASTX, 2,517 GO terms were returned and distributed in biological process, molecular function and cell component. 66 KEGG pathways were also involved by these novel miRNAs. The qRT-PCR based assay was performed to validate the authenticity of these novel miRNA candidates. The results indicate the expressed sequence tags analysis is an efficient and affordable approach for identifying novel microRNA candidates, and our study provides insight into the further researches of miRNAs and their functions in Capra hircus.},
 year = {2016}
}

Copy | Download

TY  - JOUR
T1  - Identification and Function Analysis of Novel microRNAs by Computers in Capra Hircus
AU  - Zhibin Ji
AU  - Guizhi Wang
AU  - Fei Dong
AU  - Lei Hou
AU  - Zhaohua Liu
AU  - Tianle Chao
AU  - Jianmin Wang
Y1  - 2016/12/30
PY  - 2016
N1  - https://doi.org/10.11648/j.ijdsa.20160202.12
DO  - 10.11648/j.ijdsa.20160202.12
T2  - International Journal of Data Science and Analysis
JF  - International Journal of Data Science and Analysis
JO  - International Journal of Data Science and Analysis
SP  - 21
EP  - 31
PB  - Science Publishing Group
SN  - 2575-1891
UR  - https://doi.org/10.11648/j.ijdsa.20160202.12
AB  - MicroRNAs are a class of non-protein coding small RNAs that regulate genes expression at post-transcriptional levels. Increasing evidence indicates miRNAs play key roles in a broad range of biological processes. In this study, based on the phylogenetic conservation of microRNAs, a combined bioinformatics and sequences homology comparison approach was used for the identification and function analysis of novel miRNA candidates in Capra hircus. As a result, a total of 13 potential microRNA candidates were detected following a range of filtering criteria. 153 non-redundant presumable target genes were predicted in Ovis aries 3′-Untranslated region database. 149 protein sequences were mapped by BLASTX, 2,517 GO terms were returned and distributed in biological process, molecular function and cell component. 66 KEGG pathways were also involved by these novel miRNAs. The qRT-PCR based assay was performed to validate the authenticity of these novel miRNA candidates. The results indicate the expressed sequence tags analysis is an efficient and affordable approach for identifying novel microRNA candidates, and our study provides insight into the further researches of miRNAs and their functions in Capra hircus.
VL  - 2
IS  - 2
ER  -

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