Alternative polyadenylation events estimation from single-cell RNA sequencing data in Schizophrenia
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Perustieteiden korkeakoulu |
Master's thesis
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Authors
Date
2023-08-21
Department
Major/Subject
Bioinformatics and Digital Health
Mcode
SCI3092
Degree programme
Master’s Programme in Life Science Technologies
Language
en
Pages
62
Series
Abstract
Alternative polyadenylation (APA) in 3’ untranslated region (3UTR) is a post- transcriptional modification mechanism, which is shown to play important roles in the development of Schizophrenia. However, current studies mainly study APA in Schizophrenia on the bulk RNA-seq level. This thesis aim to chart APA events in different cell types from a previously published scRNA-seq dataset, which is generated from organdies derived from Schizophrenia patients. The analysis is based on a published method called SCAPE. Our results illustrate that 3UTR of APA genes tend to be shorter in the Schizophrenia group compared with the control. Through various analysis, we identified several marker genes that exhibit differential APA isoform usage between Schizophrenia and control, including TGFB1, SHANK2, GRB2, THOC3, NDUFAF4, FLVCR1-DT, OXAND1, SAP30L, HSBP1, ELP5. Many of these genes have been reported to be associated with Nervous System Diseases and Mental Disorders, which worth further investigation.Description
Supervisor
Vehtari, AkiThesis advisor
Cheng, LuKeywords
Schizophrenia, alternative polyadenylation, 3’ untranslated region, single-cell RNA sequencing, SCAPE