Integration of Proteomics, Bioinformatics and Systems biology in Brain Injury Biomarker Discovery
Traumatic brain injury (TBI) is a major medical crisis without any FDA-approved pharmacological therapies that have been demonstrated to improve functional outcomes. It has been argued that discovery of disease-relevant biomarkers might help to guide successful clinical trials for TBI. Major advanc...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2013-05-01
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| Series: | Frontiers in Neurology |
| Subjects: | |
| Online Access: | http://journal.frontiersin.org/Journal/10.3389/fneur.2013.00061/full |
| _version_ | 1817994565220564992 |
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| author | Joy eGuingab-Cagmat Emilio eCagmat Ronald L Hayes John eAnagli |
| author_facet | Joy eGuingab-Cagmat Emilio eCagmat Ronald L Hayes John eAnagli |
| author_sort | Joy eGuingab-Cagmat |
| collection | DOAJ |
| description | Traumatic brain injury (TBI) is a major medical crisis without any FDA-approved pharmacological therapies that have been demonstrated to improve functional outcomes. It has been argued that discovery of disease-relevant biomarkers might help to guide successful clinical trials for TBI. Major advances in mass spectrometry (MS) have revolutionized the field of proteomic biomarker discovery and facilitated the identification of several candidate markers that are being further evaluated for their efficacy as TBI biomarkers. However, several hurdles have to be overcome even during the discovery phase which is only the first step in the long process of biomarker development. The high throughput nature of MS-based proteomic experiments generates a massive amount of mass spectral data presenting great challenges in downstream interpretation. Currently, different bioinformatics platforms are available for functional analysis and data mining of MS-generated proteomic data. These tools provide a way to convert data sets to biologically interpretable results and functional outcomes. A strategy that has promise in advancing biomarker development involves the triad of proteomics, bioinformatics and systems biology. In this review, a brief overview of how bioinformatics and systems biology tools analyze, transform and interpret complex MS datasets into biologically relevant results is discussed. In addition, challenges and limitations of proteomics, bioinformatics and systems biology in TBI biomarker discovery are presented. A brief survey of researches that utilized these three overlapping disciplines in TBI biomarker discovery is also presented. Finally, examples of TBI biomarkers and their applications are discussed. |
| first_indexed | 2024-04-14T01:54:41Z |
| format | Article |
| id | doaj.art-b52706ac7864408dbfc54cf0ca06ddc1 |
| institution | Directory Open Access Journal |
| issn | 1664-2295 |
| language | English |
| last_indexed | 2024-04-14T01:54:41Z |
| publishDate | 2013-05-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Neurology |
| spelling | doaj.art-b52706ac7864408dbfc54cf0ca06ddc12022-12-22T02:19:09ZengFrontiers Media S.A.Frontiers in Neurology1664-22952013-05-01410.3389/fneur.2013.0006143805Integration of Proteomics, Bioinformatics and Systems biology in Brain Injury Biomarker DiscoveryJoy eGuingab-Cagmat0Emilio eCagmat1Ronald L Hayes2John eAnagli3Banyan Biomarkers, IncBanyan Biomarkers, IncBanyan Biomarkers, IncBanyan Biomarkers, IncTraumatic brain injury (TBI) is a major medical crisis without any FDA-approved pharmacological therapies that have been demonstrated to improve functional outcomes. It has been argued that discovery of disease-relevant biomarkers might help to guide successful clinical trials for TBI. Major advances in mass spectrometry (MS) have revolutionized the field of proteomic biomarker discovery and facilitated the identification of several candidate markers that are being further evaluated for their efficacy as TBI biomarkers. However, several hurdles have to be overcome even during the discovery phase which is only the first step in the long process of biomarker development. The high throughput nature of MS-based proteomic experiments generates a massive amount of mass spectral data presenting great challenges in downstream interpretation. Currently, different bioinformatics platforms are available for functional analysis and data mining of MS-generated proteomic data. These tools provide a way to convert data sets to biologically interpretable results and functional outcomes. A strategy that has promise in advancing biomarker development involves the triad of proteomics, bioinformatics and systems biology. In this review, a brief overview of how bioinformatics and systems biology tools analyze, transform and interpret complex MS datasets into biologically relevant results is discussed. In addition, challenges and limitations of proteomics, bioinformatics and systems biology in TBI biomarker discovery are presented. A brief survey of researches that utilized these three overlapping disciplines in TBI biomarker discovery is also presented. Finally, examples of TBI biomarkers and their applications are discussed.http://journal.frontiersin.org/Journal/10.3389/fneur.2013.00061/fullProteomicsSystems BiologybioinformaticsTraumatic Brain Injurybiomarkers |
| spellingShingle | Joy eGuingab-Cagmat Emilio eCagmat Ronald L Hayes John eAnagli Integration of Proteomics, Bioinformatics and Systems biology in Brain Injury Biomarker Discovery Frontiers in Neurology Proteomics Systems Biology bioinformatics Traumatic Brain Injury biomarkers |
| title | Integration of Proteomics, Bioinformatics and Systems biology in Brain Injury Biomarker Discovery |
| title_full | Integration of Proteomics, Bioinformatics and Systems biology in Brain Injury Biomarker Discovery |
| title_fullStr | Integration of Proteomics, Bioinformatics and Systems biology in Brain Injury Biomarker Discovery |
| title_full_unstemmed | Integration of Proteomics, Bioinformatics and Systems biology in Brain Injury Biomarker Discovery |
| title_short | Integration of Proteomics, Bioinformatics and Systems biology in Brain Injury Biomarker Discovery |
| title_sort | integration of proteomics bioinformatics and systems biology in brain injury biomarker discovery |
| topic | Proteomics Systems Biology bioinformatics Traumatic Brain Injury biomarkers |
| url | http://journal.frontiersin.org/Journal/10.3389/fneur.2013.00061/full |
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