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12 results on '"Sigurgeirsson, Benjamín"'

4. Genetic association of gemcitabine/carboplatin-induced leukopenia and neutropenia in non-small cell lung cancer patients using whole-exome sequencing

Author

Svedberg, Anna, primary, Björn, Niclas, additional, Sigurgeirsson, Benjamín, additional, Pradhananga, Sailendra, additional, Brandén, Eva, additional, Koyi, Hirsh, additional, Lewensohn, Rolf, additional, De Petris, Luigi, additional, Apellániz-Ruiz, María, additional, Rodríguez-Antona, Cristina, additional, Lundeberg, Joakim, additional, and Gréen, Henrik, additional

Published
2020
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5. Genes and variants in hematopoiesis-related pathways are associated with gemcitabine/carboplatin-induced thrombocytopenia

Author

Björn, Niclas, primary, Sigurgeirsson, Benjamín, additional, Svedberg, Anna, additional, Pradhananga, Sailendra, additional, Brandén, Eva, additional, Koyi, Hirsh, additional, Lewensohn, Rolf, additional, de Petris, Luigi, additional, Apellániz-Ruiz, Maria, additional, Rodríguez-Antona, Cristina, additional, Lundeberg, Joakim, additional, and Gréen, Henrik, additional

Published
2019
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6. Analysis of RNA and DNA sequencing data : Improved bioinformatics applications

Author

Sigurgeirsson, Benjamín

Subjects
Bioinformatics and Systems Biology, variant calling, gene expression, RNA sequencing, bioinformatics, Bioinformatik och systembiologi, exome sequencing, differential expression
Abstract

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. This thesis addresses methodological aspects of this sequencing revolution and applies it to selected biological topics. Papers I and II are technical in nature and concern sample preparation and data anal- ysis of RNA sequencing data. Paper I is focused on RNA degradation and paper II on generating strand specific RNA-seq libraries. Paper III and IV deal with current biological issues. In paper III, whole exomes of cancer patients undergoing chemotherapy are sequenced and their genetic variants associ- ated to their toxicity induced adverse drug reactions. In paper IV a comprehensive view of the gene expression of the endometrium is assessed from two time points of the menstrual cycle. Together these papers show relevant aspects of contemporary sequencing technologies and how it can be applied to diverse biological topics. QC 20160329

Published
2016

7. Abstract 5026: Association to drug-induced leukopenia using whole-exome sequencing of non-small cell lung cancer patients on gemcitabine/carboplatin regimen

Author

Svedberg, Anna, primary, Sigurgeirsson, Benjamín, additional, Björn, Niclas, additional, Pradhananga, Sailendra, additional, Brandén, Eva, additional, Koyi, Hirsh, additional, Lewensohn, Rolf, additional, Petris, Luigi De, additional, Rodríguez-Antona, Cristina, additional, Apellániz-Ruiz, María, additional, Lundeberg, Joakim, additional, and Gréen, Henrik, additional

Published
2017
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8. Abstract 5028: Whole exome sequencing and genetic association of gemcitabine/carboplatin induced thrombocytopenia in non-small cell lung cancer patients

Author

Björn, Niclas, primary, Svedberg, Anna, additional, Sigurgeirsson, Benjamín, additional, Pradhananga, Sailendra, additional, Brandén, Eva, additional, Koyi, Hirsh, additional, Lewensohn, Rolf, additional, Petris, Luigi De, additional, Rodríguez-Antona, Cristina, additional, Apellániz-Ruiz, María, additional, Lundeberg, Joakim, additional, and Gréen, Henrik, additional

Published
2017
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12. The ontogeny of sleep-wake cycles in zebrafish: a comparison to humans.

Author

Sorribes A, Thornorsteinsson H, Arnardóttir H, Jóhannesdóttir IÞ, Sigurgeirsson B, de Polavieja GG, and Karlsson KÆ

Subjects
Adolescent, Adult, Aged, Animals, Female, Humans, Male, Middle Aged, Models, Theoretical, Surveys and Questionnaires, Zebrafish, Aging physiology, Circadian Rhythm physiology, Sleep physiology, Wakefulness physiology
Abstract

Zebrafish (Danio rerio) are used extensively in sleep research; both to further understanding of sleep in general and also as a model of human sleep. To date, sleep studies have been performed in larval and adult zebrafish but no efforts have been made to document the ontogeny of zebrafish sleep-wake cycles. Because sleep differs across phylogeny and ontogeny it is important to validate the use of zebrafish in elucidating the neural substrates of sleep. Here we describe the development of sleep and wake across the zebrafish lifespan and how it compares to humans. We find power-law distributions to best fit wake bout data but demonstrate that exponential distributions, previously used to describe sleep bout distributions, fail to adequately account for the data in either species. Regardless, the data reveal remarkable similarities in the ontogeny of sleep cycles in zebrafish and humans. Moreover, as seen in other organisms, zebrafish sleep levels are highest early in ontogeny and sleep and wake bouts gradually consolidate to form the adult sleep pattern. Finally, sleep percentage, bout duration, bout number, and sleep fragmentation are shown to allow for meaningful comparisons between zebrafish and human sleep.

Published
2013
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