Integration of sequence and functional information to identify and annotate neuropeptides in the pig genome

Kenneth I. Porter, Bruce R. Southey, Malik N. Akhtar, Jonathan V Sweedler, Sandra Luisa Rodriguez-Zas

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Neuropeptides support inter-cell communication and have a role in many diverse biological processes. For pig, a biomedical model, few prohormones from which neuropeptides result after convertase processing are listed in the UniProt database. Therefore, our goals are to obtain an in silico library of pig prohormone and convertase genes and to functionally annotate these genes based on a large number of complementary gene expression microarray experiments. Using a bioinformatics pipeline, 101 prohormone genes and 8 convertase genes known in human, rat, mouse, chicken, and cow were located in the pig genome. Frequently (P-value < 0.005) differentially expressed prohormone genes included adrenomedullin (ADML), augurin (AUGN), neuropeptide Y (NPY), proenkephalin-A (PENK), parathyroid hormone-related protein (PTHR), and vascular endothelial growth factor C (VEGFC) and convertases (PCSK1 and PCSK7). Embryo and placental tissues displayed the most differentially expressed genes. Our genomic characterization allows the use of the pig as an effective animal model to gain a deeper understanding of neuropeptides.

Original languageEnglish (US)
Title of host publication2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011
Pages988-990
Number of pages3
DOIs
StatePublished - Dec 1 2011
Event2011 IEEE International Conference onBioinformatics and Biomedicine Workshops, BIBMW 2011 - Atlanta, GA, United States
Duration: Nov 12 2011Nov 15 2011

Publication series

Name2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011

Other

Other2011 IEEE International Conference onBioinformatics and Biomedicine Workshops, BIBMW 2011
CountryUnited States
CityAtlanta, GA
Period11/12/1111/15/11

Fingerprint

Neuropeptides
Swine
Genes
Genome
Proprotein Convertases
Vascular Endothelial Growth Factor C
Adrenomedullin
Biological Phenomena
Parathyroid Hormone-Related Protein
Neuropeptide Y
Computational Biology
Cell Communication
Computer Simulation
Libraries
Bioinformatics
Microarrays
Chickens
Gene expression
Embryonic Structures
Animal Models

ASJC Scopus subject areas

  • Biomedical Engineering
  • Health Informatics
  • Health Information Management

Cite this

Porter, K. I., Southey, B. R., Akhtar, M. N., Sweedler, J. V., & Rodriguez-Zas, S. L. (2011). Integration of sequence and functional information to identify and annotate neuropeptides in the pig genome. In 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011 (pp. 988-990). [6112532] (2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011). https://doi.org/10.1109/BIBMW.2011.6112532

Integration of sequence and functional information to identify and annotate neuropeptides in the pig genome. / Porter, Kenneth I.; Southey, Bruce R.; Akhtar, Malik N.; Sweedler, Jonathan V; Rodriguez-Zas, Sandra Luisa.

2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011. 2011. p. 988-990 6112532 (2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Porter, KI, Southey, BR, Akhtar, MN, Sweedler, JV & Rodriguez-Zas, SL 2011, Integration of sequence and functional information to identify and annotate neuropeptides in the pig genome. in 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011., 6112532, 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011, pp. 988-990, 2011 IEEE International Conference onBioinformatics and Biomedicine Workshops, BIBMW 2011, Atlanta, GA, United States, 11/12/11. https://doi.org/10.1109/BIBMW.2011.6112532
Porter KI, Southey BR, Akhtar MN, Sweedler JV, Rodriguez-Zas SL. Integration of sequence and functional information to identify and annotate neuropeptides in the pig genome. In 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011. 2011. p. 988-990. 6112532. (2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011). https://doi.org/10.1109/BIBMW.2011.6112532
Porter, Kenneth I. ; Southey, Bruce R. ; Akhtar, Malik N. ; Sweedler, Jonathan V ; Rodriguez-Zas, Sandra Luisa. / Integration of sequence and functional information to identify and annotate neuropeptides in the pig genome. 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011. 2011. pp. 988-990 (2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011).
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