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  1. 1. Technologies for Single Cell Genome Analysis

    Författare :Erik Borgström; Afshin Ahmadian; Sten Linnarsson; KTH; []
    Nyckelord :NATURVETENSKAP; NATURAL SCIENCES; DNA; sequencing; single molecule; single cell; whole genome amplification; exome sequencing; emulsions; barcoding; phasin; Biotechnology; Bioteknologi;

    Sammanfattning : During the last decade high throughput DNA sequencing of single cells has evolved from an idea to one of the most high profile fields of research. Much of this development has been possible due to the dramatic reduction in costs for massively parallel sequencing. LÄS MER

  3. 2. On Transcriptome Sequencing

    Författare :Daniel Klevebring; Joakim Lundeberg; Ulf Gyllensten; KTH; []
    Nyckelord :NATURVETENSKAP; NATURAL SCIENCES; NATURVETENSKAP; NATURAL SCIENCES; NATURVETENSKAP; NATURAL SCIENCES; NATURVETENSKAP; NATURAL SCIENCES; MEDICIN OCH HÄLSOVETENSKAP; MEDICAL AND HEALTH SCIENCES; Transcriptome; RNA-seq; DNA sequencing; gene expression profiling; non-coding RNA; small RNA; Functional genomics; Funktionsgenomik; Bioinformatics; Bioinformatik; Genetics; Genetik; Molecular biology; Molekylärbiologi; Cell biology; Cellbiologi;

    Sammanfattning : This thesis is about the use of massive DNA sequencing to investigate the transcriptome. During recent decades, several studies have made it clear that the transcriptome comprises a more complex set of biochemical machinery than was previously believed. LÄS MER

  4. 3. Tagging systems for sequencing large cohorts

    Författare :Mårten Neiman; Afshin Ahmadian; Peter Savolainen; KTH; []
    Nyckelord :NATURVETENSKAP; NATURAL SCIENCES; next generation sequencing; genotyping; massive parallel sequencing; 454; Pyrosequencing; amplicon sequencing; enrichment; DNA barcodes; Genetics; Genetik;

    Sammanfattning : Advances in sequencing technologies constantly improves the throughput andaccuracy of sequencing instruments. Together with this development comes newdemands and opportunities to fully take advantage of the massive amounts of dataproduced within a sequence run. LÄS MER

  5. 4. In situ Sequencing : Methods for spatially-resolved transcriptome analysis

    Författare :Marco Mignardi; Mats Nilsson; Xiaoliang Sunney Xie; Stockholms universitet; []
    Nyckelord :MEDICIN OCH HÄLSOVETENSKAP; MEDICAL AND HEALTH SCIENCES; Padlock probes; rolling circle amplification; in situ sequencing; spatially-resolved transcriptomics; molecular diagnostics; Biochemistry; biokemi;

    Sammanfattning : It is well known that cells in tissues display a large heterogeneity in gene expression due to differences in cell lineage origin and variation in the local environment at different sites in the tissue, a heterogeneity that is difficult to study by analyzing bulk RNA extracts from tissue. Recently, genome-wide transcriptome analysis technologies have enabled the analysis of this variation with single-cell resolution. LÄS MER

  7. 5. Analysis of RNA and DNA sequencing data : Improved bioinformatics applications

    Författare :Benjamín Sigurgeirsson; Joakim Lundeberg; Simon Anders; KTH; []
    Nyckelord :NATURVETENSKAP; NATURAL SCIENCES; RNA sequencing; exome sequencing; bioinformatics; gene expression; differential expression; variant calling; Bioteknologi; Biotechnology;

    Sammanfattning : Massively parallel sequencing has rapidly revolutionized DNA and RNA research. Sample preparations are steadfastly advancing, sequencing costs have plummeted and throughput is ever growing. This progress has resulted in exponential growth in data generation with a corresponding demand for bioinformatic solutions. LÄS MER