| 21. |
- Ried, Janina S., et al.
(författare)
-
A principal component meta-analysis on multiple anthropometric traits identifies novel loci for body shape
- 2016
-
Ingår i: Nature Communications. - : Springer Science and Business Media LLC. - 2041-1723. ; 7
-
Tidskriftsartikel (refereegranskat)abstract
- Large consortia have revealed hundreds of genetic loci associated with anthropometric traits, one trait at a time. We examined whether genetic variants affect body shape as a composite phenotype that is represented by a combination of anthropometric traits. We developed an approach that calculates averaged PCs (AvPCs) representing body shape derived from six anthropometric traits (body mass index, height, weight, waist and hip circumference, waist-to-hip ratio). The first four AvPCs explain >99% of the variability, are heritable, and associate with cardiometabolic outcomes. We performed genome-wide association analyses for each body shape composite phenotype across 65 studies and meta-analysed summary statistics. We identify six novel loci: LEMD2 and CD47 for AvPC1, RPS6KA5/C14orf159 and GANAB for AvPC3, and ARL15 and ANP32 for AvPC4. Our findings highlight the value of using multiple traits to define complex phenotypes for discovery, which are not captured by single-trait analyses, and may shed light onto new pathways.
|
|
| 22. |
- van Setten, Jessica, et al.
(författare)
-
PR interval genome-wide association meta-analysis identifies 50 loci associated with atrial and atrioventricular electrical activity
- 2018
-
Ingår i: Nature Communications. - : NATURE PUBLISHING GROUP. - 2041-1723. ; 9
-
Tidskriftsartikel (refereegranskat)abstract
- Electrocardiographic PR interval measures atrio-ventricular depolarization and conduction, and abnormal PR interval is a risk factor for atrial fibrillation and heart block. Our genomewide association study of over 92,000 European-descent individuals identifies 44 PR interval loci (34 novel). Examination of these loci reveals known and previously not-yet-reported biological processes involved in cardiac atrial electrical activity. Genes in these loci are overrepresented in cardiac disease processes including heart block and atrial fibrillation. Variants in over half of the 44 loci were associated with atrial or blood transcript expression levels, or were in high linkage disequilibrium with missense variants. Six additional loci were identified either by meta-analysis of similar to 105,000 African and European-descent individuals and/or by pleiotropic analyses combining PR interval with heart rate, QRS interval, and atrial fibrillation. These findings implicate developmental pathways, and identify transcription factors, ionchannel genes, and cell-junction/cell-signaling proteins in atrio-ventricular conduction, identifying potential targets for drug development.
|
|
| 23. |
- Willer, Cristen J., et al.
(författare)
-
Discovery and refinement of loci associated with lipid levels
- 2013
-
Ingår i: Nature Genetics. - : Springer Science and Business Media LLC. - 1061-4036 .- 1546-1718. ; 45:11, s. 1274-1283
-
Tidskriftsartikel (refereegranskat)abstract
- Levels of low-density lipoprotein (LDL) cholesterol, high-density lipoprotein (HDL) cholesterol, triglycerides and total cholesterol are heritable, modifiable risk factors for coronary artery disease. To identify new loci and refine known loci influencing these lipids, we examined 188,577 individuals using genome-wide and custom genotyping arrays. We identify and annotate 157 loci associated with lipid levels at P < 5 x 10(-8), including 62 loci not previously associated with lipid levels in humans. Using dense genotyping in individuals of European, East Asian, South Asian and African ancestry, we narrow association signals in 12 loci. We find that loci associated with blood lipid levels are often associated with cardiovascular and metabolic traits, including coronary artery disease, type 2 diabetes, blood pressure, waist-hip ratio and body mass index. Our results demonstrate the value of using genetic data from individuals of diverse ancestry and provide insights into the biological mechanisms regulating blood lipids to guide future genetic, biological and therapeutic research.
|
|
| 24. |
- Wuttke, Matthias, et al.
(författare)
-
A catalog of genetic loci associated with kidney function from analyses of a million individuals
- 2019
-
Ingår i: Nature Genetics. - : NATURE PUBLISHING GROUP. - 1061-4036 .- 1546-1718. ; 51:6, s. 957-972
-
Tidskriftsartikel (refereegranskat)abstract
- Chronic kidney disease (CKD) is responsible for a public health burden with multi-systemic complications. Through transancestry meta-analysis of genome-wide association studies of estimated glomerular filtration rate (eGFR) and independent replication (n = 1,046,070), we identified 264 associated loci (166 new). Of these,147 were likely to be relevant for kidney function on the basis of associations with the alternative kidney function marker blood urea nitrogen (n = 416,178). Pathway and enrichment analyses, including mouse models with renal phenotypes, support the kidney as the main target organ. A genetic risk score for lower eGFR was associated with clinically diagnosed CKD in 452,264 independent individuals. Colocalization analyses of associations with eGFR among 783,978 European-ancestry individuals and gene expression across 46 human tissues, including tubulo-interstitial and glomerular kidney compartments, identified 17 genes differentially expressed in kidney. Fine-mapping highlighted missense driver variants in 11 genes and kidney-specific regulatory variants. These results provide a comprehensive priority list of molecular targets for translational research.
|
|
| 25. |
- Abdullah, Syed Md Jakaria, et al.
(författare)
-
Towards Implementation of Virtual-Clustered Multiprocessor Scheduling in Linux
- 2013
-
Ingår i: Proceedings of the 8th IEEE International Symposium on Industrial Embedded Systems, SIES 2013. - 9781479906581 ; , s. 97-100
-
Konferensbidrag (refereegranskat)abstract
- Cluster based multiprocessor scheduling can be seen as a hybrid approach combining benefits of both partitioned and global scheduling. Virtual clustering further enhances it by providing dynamic cluster resource allocation and applying hierarchical scheduling techniques. Over the years, the study of virtual cluster scheduling has been limited to theoretical analysis. In this paper, we present our initial ideas about implementing virtual cluster scheduling in Linux. The purpose of this implementation is twofold: (i) we would like to demonstrate the feasibility of its implementation in an operating system, without modifying the kernel source code, (ii) we present practical insights on the overhead of implementing this framework.
|
|
| 26. |
- Afshar, Sara, et al.
(författare)
-
Flexible spin-lock model for resource sharing in multiprocessor real-time systems
- 2014
-
Ingår i: Proc. IEEE Int. Symp. Ind. Embedded Syst., SIES. - 9781479940233 ; , s. 41-51
-
Konferensbidrag (refereegranskat)abstract
- Various approaches can be utilized upon resource locking for mutually exclusive resource access in multiprocessor platforms. So far two conventional approaches exist for dealing with tasks that are blocked on a global resource in a multi-processor platform. Either the blocked task performs a busy wait, i.e. spins, at the highest priority level until the resource is released, or it is suspended. Although both approaches provide mutually exclusive access to resources, they can introduce long blocking delays to tasks, which may be unacceptable for many industrial applications. In this paper, we propose a general spin-based model for resource sharing in multiprocessor platforms in which the priority of the blocked tasks during spinning can be selected arbitrarily. Moreover, we provide the analysis for two selected spin-lock priorities and we show by means of a general comparison as well as specific examples that these solutions may provide a better performance for higher priority tasks.
|
|
| 27. |
- Afshar, Sara, et al.
(författare)
-
Integrating independently developed real-time applications on a shared multi-core architecture
- 2013
-
Ingår i: ACM SIGBED Review, v. 10, n. 3. - : Association for Computing Machinery (ACM). ; , s. 49-56
-
Konferensbidrag (refereegranskat)abstract
- The shift towards multi-core platforms has become inevitable from an industry perspective, therefore proper techniques are needed to deal with challenges related to this migration from single core architectures to a multi-core architecture. One of the main concerns for the system developers in this context is the migration of legacy real-time systems to multi-core architectures. To address this concern and to simplify migration, independently developed subsystems are abstracted with an interface, such that when working with multiple independently-developed subsystems to be integrated on a shared platform, one does not need to be aware of information or policies used in other subsystems in order to determine subsystem-level schedulability. Instead schedulability can be checked through their interfaces at the time of integration on a shared multi-core architecture. In this paper we propose a solution for the case where some of the independently-developed subsystems are distributed over more than one processor and we propose an approach to generate interfaces of subsystems that may share mutually exclusive resources.
|
|
| 28. |
- Afshar, Sara, et al.
(författare)
-
Intra-component Resource Sharing on a Virtual Multiprocessor Platform
- 2016
-
Ingår i: ACM SIGBED Review. - : Association for Computing Machinery (ACM). - 1551-3688. ; , s. 31-32
-
Konferensbidrag (refereegranskat)abstract
- Component-based software development facilitates the development process of large and complex software systems. By the advent of multiprocessors, the independently developed components can be integrated on a multi-core platform to achieve an efficient use of system hardware and a decrease in system power consumption and costs. In this paper, we consider a virtual multiprocessor platform where each component can be dynamically allocated to any set of processors of the platform with a maximum concurrency level. Global-EDF is used for intra-component scheduling. The existing analysis for such systems have assumed that tasks are independent. In this paper, we enable intra-component resource sharing for this platform. We investigate using a spin-based resource sharing protocol with the accompanying analysis that extends the existing analysis for independent tasks. We briefly illustrate and evaluate our initial results with an example.
|
|
| 29. |
- Afshar, Sara
(författare)
-
Lock-Based Resource Sharing for Real-Time Multiprocessors
- 2017
-
Doktorsavhandling (övrigt vetenskapligt/konstnärligt)abstract
- Embedded systems are widely used in the industry and are typically resource constrained, i.e., resources such as processors, I/O devices, shared buffers or shared memory might be limited in the system. Hence, techniques that can enable an efficient usage of processor bandwidths in such systems are of great importance. Locked-based resource sharing protocols are proposed as a solution to overcome resource limitation by allowing the available resources in the system to be safely shared. In recent years, due to a dramatic enhancement in the functionality of systems, a shift from single-core processors to multi-core processors has become inevitable from an industrial perspective to tackle the raised challenges due to increased system complexity. However, the resource sharing protocols are not fully mature for multi-core processors. The two classical multi-core processor resource sharing protocols, spin-based and suspension-based protocols, although providing mutually exclusive access to resources, can introduce long blocking delays to tasks, which may be unacceptable for many industrial applications. In this thesis we enhance the performance of resource sharing protocols for partitioned scheduling, which is the de-facto scheduling standard for industrial real-time multi-core processor systems such as in AUTOSAR, in terms of timing and memory requirements. A new scheduling approach uses a resource efficient hybrid approach combining both partitioned and global scheduling where the partitioned scheduling is used to schedule the major number of tasks in the system. In such a scheduling approach applications with critical task sets use partitioned scheduling to achieve higher level of predictability. Then the unused bandwidth on each core that is remained from partitioning is used to schedule less critical task sets using global scheduling to achieve higher system utilization. These scheduling schema however lacks a proper resource sharing protocol since the existing protocols designed for partitioned and global scheduling cannot be directly applied due to the complex hybrid structure of these scheduling frameworks. In this thesis we propose a resource sharing solution for such a complex structure. Further, we provide the blocking bounds incurred to tasks under the proposed protocols and enhance the schedulability analysis, which is an essential requirement for real-time systems, with the provided blocking bounds.
|
|
| 30. |
- Afshar, Sara
(författare)
-
Lock-Based Resource Sharing in Real-Time Multiprocessor Platforms
- 2014
-
Licentiatavhandling (övrigt vetenskapligt/konstnärligt)abstract
- Embedded systems are typically resource constrained, i.e., resources such as processors, I/O devices, shared buffers or shared memory can be limited for tasks in the system. Therefore, techniques that enable an efficient usage of such resources are of great importance.In the industry, typically large and complex software systems are divided into smaller parts (applications) where each part is developed independently. Migration towards multiprocessor platforms has become inevitable from an industrial perspective. Due to such migration and to efficient use of system resources, these applications eventually may be integrated on a shared multiprocessor platform. In order to facilitate the integration phase of the applications on a shared platform, the timing and resource requirements of each application can be provided in an interface when the application is developed. The system integrator can benefit from such provided information in the interface of each application to ease the integration process. In this thesis, we have provided the resource and timing requirements of each application in their interfaces for applications that may need several processors to be allocated on when they are developed.Although many scheduling techniques have been studied for multiprocessor systems, these techniques are usually based on the assumption that tasks are independent, i.e. do not share resources other than the processors. This assumption is typically not true. In this thesis, we provide an extension to such systems to handle sharing of resources other than processor among tasks. Two traditional approaches exist for multiprocessor systems to schedule tasks on processors. A recent scheduling approach for multiprocessors has combined the two traditional approaches and achieved a hybrid more efficient approach compared to the two previous one. Due to the complex nature of this scheduling approach the conventional approaches for resource sharing could not be used straight forwardly. In this thesis, we have modified resource sharing approaches such that they can be used in such hybrid scheduling systems. A second concern is that enabling resource sharing in the systems can cause unpredictable delays and variations in response time of tasks which can degrade system performance. Therefore, it is of great significance to improve the resource handling techniques to reduce the effect of imposed delays caused by resource sharing in a multiprocessor platform. In this thesis we have proposed alternative techniques for resource handling that can improve system performance for special setups.
|
|
