Verfügbarkeit: Evolutionary and ontogenetic features of gene expression in the primate brain

Evolutionary and ontogenetic features of gene expression in the primate brain:

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1. Verfasser:	Bammann, Hindrike 1986- (VerfasserIn)
Format:	Abschlussarbeit Elektronisch Software E-Book
Sprache:	English
Veröffentlicht:	Leipzig [2018]
Schlagworte:	Hochschulschrift CD-ROM
Online-Zugang:	Inhaltsverzeichnis Inhaltsverzeichnis
Beschreibung:	1 CD-ROM (XX, 138 Seiten) Illustrationen

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adam_text	CONTENTS Z USAM M ENFASSUNG III A B STRACT X C ONTENTS X V I LIST O F FIGURES X IX 1 IN TROD U CTION 1 1.1 PRINCIPLES OF TRANSCRIPTOME EV O LU TIO N ......................................... 2 1.2 PRIMATE BRAIN E V O LU TIO N ............................................................. 3 1.3 MEASURING ONTOGENETIC TRANSCRIPTOME CHANGES IN PRIMATE BRAINS 3 1.4 RNA E D I TIN G ................................................................................ 5 1.5 L IN C R N A ...................................................................................... 7 1.6 THE BRAIN METABOLOME ............................................................. 9 2 E VOLU TION ARY AND ON TO G EN ETIC CHANGES IN R N A ED ITIN G IN HU M AN, CH IM PANZEE, AND M ACAQUE BRAINS 11 2.1 MATERIALS AND METHODS ................................................................ 11 2.1.1 SAMPLE COLLECTION AND RNA SEQUENCING ..................... 11 2.1.2 READ MAPPING ................................................................. 12 2.1.3 DE-NOVO IDENTIFICATION OF A-TO-I EDITING SITES ............ 12 2.1.4 DARNED SITES AND A-TO-I EDITING ............................... 14 2.1.5 CONSERVATION OF A-TO-I EDITING LEVELS AMONG SPECIES AND BRAIN REGIONS ..................................* ...................... 15 2.1.6 EDITING LEVEL VARIATION A N A LY S IS ..................................... 17 2.1.7 STATISTICAL ANALYSIS OF EDITING LEVEL V A RIA TIO N ............... 20 2.1.8 EXPERIMENTAL VERIFICATION BY SANGER SEQUENCING .... 23 2.2 RESULTS ......................................................................................... 24 2.2.1 TRANSCRIPTOME DATA AND RNA EDITING SITES ............... 24 2.2.2 EDITING LEVEL VARIATION AMONG SPECIES .......................... 28 2.2.3 EVOLUTIONARY AND TISSUE CONSERVATION OF RNA EDITING IN THE BRAIN .................................................................... 31 2.2.4 RNA EDITING CHANGES WITH AGE IN THE HUMAN BRAIN . . 35 2.3 DISCUSSION ................................................................................... 36 3 C ONSERVED EXP RESSION O F LIN CR N A DURING HUM AN AND M ACAQUE PREFRONTAL CORTEX DEVELOPM EN T AND M ATU RATION 38 3.1 MATERIALS AND METHODS ............................................................. 38 3.1.1 RNASEQ DATA SETS .......................................................... 38 3.1.2 HUMAN-MACAQUE CONSENSUS REFERENCE GENOME CONSTRUC TION ................................................................................... 39 3.1.3 READ MAPPING ................................................................ 39 3.1.4 DE NOVO DISCOVERY OF NOVEL LINCRN A CANDIDATES .... 39 3.1.5 LINCRNA ANNOTATION AND GENE EXPRESSION LEVEL ESTI MATION ............................................................................... 40 3.1.6 MAPPING OF HUMAN TRANSCRIPT ANNOTATION TO THE MACAQUE GENOME USING LIF TO V E R .................................................... 41 3.1.7 LINCRNA WITH AGE-RELATED EXPRESSION AND THEIR EXPRES SION CATEGORIES ................................................................ 41 3.1.8 EXPRESSION PROFILE COMPARISON BETWEEN SPECIES AND DATA SETS ................................................................................... 42 3.1.9 LINCRNA TRANSFECTION EX P ERIM EN TS............................... 42 3.2 RESULTS ......................................................................................... 43 3.2.1 LINCRNA IDENTIFICATION AND CHARACTERIZATION ............ 43 3.2.2 LINCRNA EXPRESSION CHANGES WITH A G E ........................ 49 3.2.3 LINCRNA TRA N S FE C TIO N .................................................... 57 3.3 DISCUSSION...................................................................................... 58 4 O N TOGEN ETIC M ETAB OLOM E AND TRAN SCRIP TOM E CHANGES IN HU M AN, RHESUS M ACAQUE AND M OUSE PREFRONTAL CORTEX 60 4.1 MATERIALS AND METHODS ............................................................. 61 4.1.1 SAMPLE COLLECTION .......................................................... 61 4.1.2 RNASEQ DATA SETS .......................................................... 61 4.1.3 CE-MS DATA S E T S ............................................................. 63 4.1.4 AGE T E S T ............................................................................ 66 4.1.5 TIME S H IF T ......................................................................... 67 4.1.6 WGCNA CLUSTERING AND CLUSTER A SS IG N M E N T ............... 67 4.1.7 SIMILAR C LU STE RS ................................................................ 69 4.1.8 CONNECTION BETWEEN GENES AND METABOLITES ............... 71 4.1.9 FUNCTIONAL ENRICHMENT A N A LY S IS ..................................... 71 4.2 R ESULTS............................................................................................ 72 4.2.1 TRANSCRIPTOME AND METABOLOME D A T A ............................ 72 4.2.2 EVOLUTION OF AGE-DEPENDENT PATTERN CH AN G ES ................. 73 4.2.3 FUNCTIONAL ENRICHMENT ANALYSIS OF THE AGE-DEPENDENT P A TTE R N S ............................................................................. 75 4.2.4 VALIDITY OF MODEL ORGANISM S ........................................... 76 4.2.5 GENE AND METABOLITE NETWORKS ...................................... 76 4.3 D ISCUSSION...................................................................................... 79 5 C ONCLUSIONS AND O U TLOOK 82 5.1 S U M M A RY ...................................................................................... 82 5.2 O U TLO O K ......................................................................................... 83 R EFEREN CES 85 S U P P LEM EN TARY M ATERIAL 100 SUPPLEMENTARY TABLE 1: SAMPLE INFORM ATION........................................101 SUPPLEMENTARY TABLE 2: GO TERM ENRICHMENT - C LUSTERS ........... 109 SUPPLEMENTARY TABLE 3: GO TERM ENRICHMENT - TRANSITIONS .... 125 SUPPLEMENTARY TABLE 4: GO TERM ENRICHMENT - T R IP LE TTS ........ 129 SUPPLEMENTARY TABLE 5: GO TERM ENRICHMENT A- LINEAGE SPECIFIC E N RIC H M E N T......................................................................................133 C URRICULUM V ITA E 136 D ECLARATION O F IN D EP EN D EN T WORK 138 A U TH OR CO N TRIB U TION STA TEM EN T 139 A CKNOW LEDGEM ENT 142
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spelling	Bammann, Hindrike 1986- Verfasser (DE-588)1164474006 aut Evolutionary and ontogenetic features of gene expression in the primate brain vorgelegt von M.Sc. Hindrike Bammann Leipzig [2018] 1 CD-ROM (XX, 138 Seiten) Illustrationen txt rdacontent c rdamedia cd rdacarrier Dissertation Universität Leipzig 2018 Deutsche Zusammenfassung (DE-588)4113937-9 Hochschulschrift gnd-content (DE-588)4139307-7 CD-ROM gnd-carrier B:DE-101 application/pdf http://d-nb.info/1166188620/04 Inhaltsverzeichnis DNB Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=031518775&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis Textdatei PDF
spellingShingle	Bammann, Hindrike 1986- Evolutionary and ontogenetic features of gene expression in the primate brain
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title	Evolutionary and ontogenetic features of gene expression in the primate brain
title_auth	Evolutionary and ontogenetic features of gene expression in the primate brain
title_exact_search	Evolutionary and ontogenetic features of gene expression in the primate brain
title_full	Evolutionary and ontogenetic features of gene expression in the primate brain vorgelegt von M.Sc. Hindrike Bammann
title_fullStr	Evolutionary and ontogenetic features of gene expression in the primate brain vorgelegt von M.Sc. Hindrike Bammann
title_full_unstemmed	Evolutionary and ontogenetic features of gene expression in the primate brain vorgelegt von M.Sc. Hindrike Bammann
title_short	Evolutionary and ontogenetic features of gene expression in the primate brain
title_sort	evolutionary and ontogenetic features of gene expression in the primate brain
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