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RNA-seq을 이용한 간암의 신규 전사체 발굴
| DC Field | Value | Language |
|---|---|---|
| dc.contributor.advisor | 우현구 | - |
| dc.contributor.author | Kim Yoon Hee | - |
| dc.date.accessioned | 2019-10-21T07:26:46Z | - |
| dc.date.available | 2019-10-21T07:26:46Z | - |
| dc.date.issued | 2016-02 | - |
| dc.identifier.other | 21583 | - |
| dc.identifier.uri | https://dspace.ajou.ac.kr/handle/2018.oak/18797 | - |
| dc.description | 학위논문(석사)--아주대학교 일반대학원 :의생명과학과,2016. 2 | - |
| dc.description.tableofcontents | Ⅰ. INTRODUCTION 1 Ⅱ. MATERIALS AND METHODS 6 A. MATERIALS 6 1. RNA-seq library preparation and sequencing 6 B. METHODS 6 1. Processing of sequence reads 6 2. Identification of novel transcripts 7 3. Differential expression transcripts 7 4. Calculate coding potential of novel transcripts 8 5. Measure sequence analysis 8 6. Estimate binding potential of novel transcripts for MFE score 9 7. Analysis of gene ontology 9 Ⅲ. RESULT 10 A. Identification of novel transcripts in HCCs. 10 B. Classification of 20 significant novel transcripts by coding potential 16 C. Function prediction by sequence similarity 19 D. Function prediction by RNA-RNA interaction 24 Ⅳ. DISCUSSION 29 Ⅴ. CONCLUSION 32 REFERENCES 33 국문요약 43 | - |
| dc.language.iso | eng | - |
| dc.publisher | The Graduate School, Ajou University | - |
| dc.rights | 아주대학교 논문은 저작권에 의해 보호받습니다. | - |
| dc.title | RNA-seq을 이용한 간암의 신규 전사체 발굴 | - |
| dc.title.alternative | Identification of novel transcripts in hepatocellular carcinoma using RNA-seq | - |
| dc.type | Thesis | - |
| dc.contributor.affiliation | 아주대학교 일반대학원 | - |
| dc.contributor.alternativeName | YoonHee Kim | - |
| dc.contributor.department | 일반대학원 의생명과학과 | - |
| dc.date.awarded | 2016. 2 | - |
| dc.description.degree | Master | - |
| dc.identifier.localId | 739442 | - |
| dc.identifier.url | http://dcoll.ajou.ac.kr:9080/dcollection/jsp/common/DcLoOrgPer.jsp?sItemId=000000021583 | - |
| dc.subject.keyword | RNA-Sequencing | - |
| dc.subject.keyword | novel transcripts | - |
| dc.subject.keyword | HCC | - |
| dc.description.alternativeAbstract | Recent advances in sequencing technologies have helped the finding of novel transcripts by deep RNA sequencing (RNA-Seq). The approach to identify novel transcripts using RNA-Seq has been studied, however, prediction of their functional roles in cancers are not studied thoroughly. Here, I constructed new pipeline to identify putative novel transcripts which might play functional roles in hepatocellular carcinoma (HCC) using reference based assembly method, which revealed 20 novel candidate transcripts. With those candidate transcripts, I predicted whether they have functions involved in cancer progression. Firstly, I identified function ontology for high sequence similarity gene sets of each novel transcript. Similarity genes had significant enriched function in regulation of transcription and regulation of RNA metabolic process. And I confirmed that the expressions of the candidate genes were correlated with those of the genes with sequence similarity. Secondly, putative binding proteins were identified by applying a prediction algorithm for RNA-RNA interaction. Collectively, I found the putative transcripts which might have functional roles in cancer progression by showing the functional enrichment of their putative targets genes with correlated expression, binding potential, and sequence similarity. In this study, new pipeline detected novel transcripts in HCC that may have functional roles. This approach will apply to further study to predict functional role of novel transcript in cancer. | - |
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- Graduate School of Ajou University > Department of Biomedical Sciences > 3. Theses(Master)
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