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Integrative Analysis of Cell Line and Tissue Proteomics Data for Suptyping Ovarian Cancer
Ovarian cancer remains a significant challenge in oncology, with current treatments having a high recurrence rate making further investigations into treatment targets and the heterogeneity of cancers necessary. As findings from cell lines models are hard to transfer to in vivo cancers, we wanted to explore possibilities to better integrate cell line and tissue omics data. To do so, this study leve
Spatial Analysis of the Tumour Immune Microenvironment in Triple-Negative Breast Cancer
The composition of the tumour microenvironment has been reported as a meaningful predictor in triple-negative breast cancer’s (TNBC) prognosis and response to treatment and has allowed for implementation of new therapeutic approaches such as immunotherapy. Therefore, new spatially resolved approaches have arisen recently to unravel the properties of the microenvironment, ranging from spatial trans
Automated workflow for optimization of data independent acquisition mass spectrometry settings
Over recent years, mass spectrometry has become essential for advancing proteomics. A typical approach in proteomics involves digesting proteins into peptides, analyzing these peptides using liquid chromatography and mass spectrometry (LC-MS), and identifying them via tandem mass spectrometry (MS/MS). In Data-Dependent Acquisition (DDA), quantification is often achieved by counting MS/MS spectra o
A comprehensive framework for detecting copy number signatures of high-grade serous carcinoma using shallow whole-genome sequencing
High-grade serous carcinoma (HGSC) accounts for most ovarian cancer deaths, due to it often being diagnosed at late stages (III and IV). However, there is currently no early screening method sufficient for improving survival rates. HGSC primarily harbors structural variants, typically copy number (CN) aberrations caused by homologous recombination deficiency (HRD). CN can be calculated based on re
A systematic bioinformatics approach to characterise antibody properties
Antibodies are crucial components of the humoral immune responses, and their therapeutic potential is gaining attention. For antibodies to be effective, it is essential that they exhibit specificity towards antigens, mediate biological functions and are administered at the correct dosage. Given the numerous parameters influencing specificity, function, and optimal concentration, assessing what con
Change in spider communities over two decades in an environment with a constant management regime in southern Sweden
Spindelsamhällens förändring över 20 år Vilka spindelarter som finns inom ett område kan bero på många olika faktorer, som till exempel geografisk plats, habitattyp, temperatur och diversitet av fysiska strukturer i området. En torr äng i Skåne kommer till stor del att ha en annan uppsättning av arter än en skuggig granskog i Jämtland. Detta beror på att olika arter har anpassat sig till olika miRecent studies have documented large declines in the abundance and diversity of a few well-studied groups of organisms. However, it is unclear how representative the results are for other, less studied groups such as spiders and other ground-dwelling arthropods. A few recent studies have reported large declines in spider abundance, but these have been performed in highly disturbed settings, and ma
Food or food? Mitigating the invasive round goby (Neogobius melanostomus) in the Baltic Sea through biotic resistance or targeted fishing
Svartmunnad smörbult: En besvärlig middag Svartmunnad smörbult (Neogobius melanostomus) är en bottenlevande fisk som har tagit sig till Östersjön och är klassad som en invasiv art. Det vill säga att den inte borde finnas här i Östersjön och bidrar till ett försämrat ekosystem! Några av sakerna som den ställer till med är att den ändrar näringsväven i områden där den kommit till, genom att bland aThe Baltic Sea is heavily affected by invasive alien species (IAS). One of them is the round goby (Neogobius melanostomus) derived from the Ponto-Caspian Seas and is currently affecting the Baltic Sea coastal ecosystem by altering food webs and competing with native benthic fish. The round goby has become a regular part of the diet in predatory fish such as Eurasian perch (Perca fluviatilis) and P
Post-breeding traits and disturbance ecology of Kentish Plovers Charadrius alexandrinus at a moulting site in the German Wadden Sea
Like many waterfowl and wader species, Kentish Plovers Charadrius alexandrinus of both the north-west European and Wadden Sea populations perform a post-breeding moult before migrating to their southerly wintering grounds. They make use of specific moulting sites, e.g. in the Dutch Delta area, on Fanø in the Danish Wadden Sea and on the sandbars off St. Peter-Ording in the German Wadden Sea. In or
Evaluation and Design Development of an Advanced Alarm Management System for Submarine Applications
This thesis aims to compare the user experience of an alarm system, which in- cludes a conventional alarm list, with newly developed graphical ways to display alarms. In addition to these visual enhancements, new features requested by users, such as the ability to park alarms to minimise the overwhelming feelings during an alarm flood were integrated. Three iterations with usability tests were con
The role of 30x30 MPAs in protecting endangered sharks in the Northwestern Atlantic and their associated habitats
Sharks are an ecologically important group of fishes important to maintaining ecosystem structure and function, yet the additive effects of climate change and anthropogenic activities threaten their survival. Northwestern Atlantic populations of shortfin mako sharks and white sharks are considered threatened species, with populations in decline since the 1950s. Previous conservation efforts have a
Patch Connectivity for Passively Dispersed Species in a Fragmented Landscape – A model comparison
I södra Sverige har den tempererade regionen, som domineras av ädellövskog, en lång historia av mänskliga störningar och idag finns bara fragment av gammal skog kvar. Dessa återstående områden är av särskild betydelse som livsmiljöer för ett stort antal hotade eller på annat sätt sällsynta arter. Fragmenterade landskap påverkar förutsättningarna för en arts långsiktiga överlevnad. Små populationeBroadleaved deciduous forests have endured a far-reaching process of fragmentation. This has resulted in different configurations of remaining habitats with many times unknown consequences for species persistence. To reduce the potential negative effect, frameworks such as the concept of green infrastructure have been implemented with a focus on increasing connectivity in urban and rural planning.
PACKAGING SCIENTIFIC RESULTS TO PROMOTE SOCIAL ACTION AGAINST DEGRADATION OF RIVER BUFFER ZONES AND WETLANDS THROUGH VALUE CO-CREATION: A case study of River Rwizi in Mbarara City, South-Western Uganda.
Uganda’s natural resource base is one of the richest and most diverse in Africa. People’s livelihoods are inextricably linked to sound natural resource management and both water and land are basic resources for virtually all socio-economic activities. Because of the significance of agriculture to rural livelihoods, water and land are the most important assets for many households. Located in a tran
Patriarchy and Sexual Health: A Feminist Analysis of STI Rates among Danish Youth
What does Gen Z (those born 1995-2010) and Denmark have in common? Chlamydia. Denmark reports the highest chlamydia rates in Europe among individuals aged 15–29, with the number increasing since 2012. Despite the availability of free sexually-transmitted infection (STI) testing and comprehensive sexual education, rates continue to rise. The underlying causes of this trend need investigation, part
Ethnic School Segregation and Reading Performance: A Comparative Study of Second-Generation Migrants and Natives in Denmark and Sweden
This study examines the relationship between ethnic school segregation and reading performance among second-generation migrant students compared to natives in Denmark and Sweden, using PISA 2015 data. The research explores how different integration policies influence educational outcomes in the context of ethnic segregation. Findings reveal that higher proportions of migrant students in schools ne
Rapid Prototyping of Control Panel with Touch Display for Sliding Doors
User interfaces to control machines are a critical part of any technology that requires user inputs. The user interface works as a link between human and machine, and it is vital that this link is understandable for both parts. Therefore, the design of the interface is of great importance in order to fully utilize the capabilities the technology provides. Assa Abloy is a company that offers soluti
Barriers for Inclusion in Swedish Jazz Culture: Subcultural Restraints and Possibilities in a Male Dominated Environment
Cultural values and beliefs within the jazz community have intrigued social scientists for a long time. Being one of the oldest recognised subcultures, jazz has been celebrated for its socio-political ambitions as well as the complexity and aesthetics of the music itself. Being recognised as an outlet for fighting social injustices throughout history, the notable exclusion of female jazz musicians
Exploring Factors Influencing On-Base Percentage in Modern Baseball
This report uses highly detailed data from Statcast from the 2015–2023 seasons to explore and identify the key factors influencing on-base percentage in the American top league, Major League Baseball. On-base percentage is simply the percentage of times a player gets on base, and can be achieved in multiple ways. It is an important metric in baseball, as without getting on base, you cannot score.
The Gentle Quiver of a Marked Ribbon Graph
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Leva mer med mindre - hur bor en vital minimalist?
This project combines the theory of vital materialism by Jane Bennett with a perspective of minimalist lifestyle. The aim is to explore whether this approach of ’vital minimalism’ may offer a new, potentially more sustainable, way of designing residential architecture. A brief overview of the concept of minimalism in architecture and some of the origins of an ascetic or minimalist lifestyle shows