| 1. |
- Abdellah, Tebani, et al.
(författare)
-
Integration of molecular profiles in a longitudinal wellness profiling cohort.
- 2020
-
Ingår i: Nature communications. - : Springer Science and Business Media LLC. - 2041-1723. ; 11:1
-
Tidskriftsartikel (refereegranskat)abstract
- An important aspect of precision medicine is to probe the stability in molecular profiles among healthy individuals over time. Here, we sample a longitudinal wellness cohort with 100 healthy individuals and analyze blood molecular profiles including proteomics, transcriptomics, lipidomics, metabolomics, autoantibodies andimmune cell profiling, complementedwith gut microbiota composition and routine clinical chemistry. Overall, our results show high variation between individuals across different molecular readouts, while the intra-individual baseline variation is low. The analyses show that each individual has a unique and stable plasma protein profile throughout the study period and that many individuals also show distinct profiles with regards to the other omics datasets, with strong underlying connections between the blood proteome and the clinical chemistry parameters. In conclusion, the results support an individual-based definition of health and show that comprehensive omics profiling in a longitudinal manner is a path forward for precision medicine.
|
|
| 2. |
- Ericsson, Olle, et al.
(författare)
-
Clinical validation of a novel automated cell-free DNA screening assay for trisomies 21, 13, and 18 in maternal plasma.
- 2019
-
Ingår i: Prenatal diagnosis. - : Wiley. - 1097-0223 .- 0197-3851. ; 39:11, s. 1011-1015
-
Tidskriftsartikel (refereegranskat)abstract
- To evaluate clinical performance of a new automated cell-free (cf)DNA assay in maternal plasma screening for trisomies 21, 18, and 13, and to determine fetal sex.Maternal plasma samples from 1200 singleton pregnancies were analyzed with a new non-sequencing cfDNA method, which is based on imaging and counting specific chromosome targets. Reference outcomes were determined by either cytogenetic testing, of amniotic fluid or chorionic villi, or clinical examination of neonates.The samples examined included 158 fetal aneuploidies. Sensitivity was 100% (112/112) for trisomy 21, 89% (32/36) for trisomy 18, and 100% (10/10) for trisomy 13. The respective specificities were 100%, 99.5%, and 99.9%. There were five first pass failures (0.4%), all in unaffected pregnancies. Sex classification was performed on 979 of the samples and 99.6% (975/979) provided a concordant result.The new automated cfDNA assay has high sensitivity and specificity for trisomies 21, 18, and 13 and accurate classification of fetal sex, while maintaining a low failure rate. The study demonstrated that cfDNA testing can be simplified and automated to reduce cost and thereby enabling wider population-based screening.
|
|
| 3. |
- Karlsson, Fredrik, et al.
(författare)
-
Sensor Fused Indoor Positioning Using Dual Band WiFi Signal Measurements
- 2015
-
Ingår i: 2015 European Control Conference (ECC). - 9783952426937 ; , s. 1669-1672
-
Konferensbidrag (refereegranskat)abstract
- In this paper, signal strengths from known WiFi access points are used together with a particle filter to perform indoor navigation. It is shown that more information is obtained by using signals of both 2.4 and 5.0 GHz, compared to using only one frequency. Thus, using both frequencies provides a more accurate positioning. The second contribution is an algorithm where WiFi measurements are combined with pedestrian dead reckoning (PDR), which is based on step counting using an accelerometer and hypotheses of the heading using a gyroscope. This was found to provide further accuracy compared to more conventional methods.
|
|
| 4. |
- Magnusson, Peter S., et al.
(författare)
-
SimICS/sun4m : A virtual workstation
- 2019
-
Ingår i: USENIX 1998 Annual Technical Conference. - New Orleans, LA, USA : USENIX Association.
-
Konferensbidrag (refereegranskat)abstract
- System level simulators allow computer architects and system software designers to recreate an accurate and complete replica of the program behavior of a target system, regardless of the availability, existence, or instrumentation support of such a system. Applications include evaluation of architectural design alternatives as well as software engineering tasks such as traditional debugging and performance tuning. We present an implementation of a simulator acting as a virtual workstation fully compatible with the sun4m architecture from Sun Microsystems. Built using the system-level SPARC V8 simulator SimICS, SimICS/sun4m models one or more SPARC V8 processors, supports user-developed modules for data cache and instruction cache simulation and execution profiling of all code, and provides a symbolic and performance debugging environment for operating systems. SimICS/sun4m can boot unmodified operating systems, including Linux 2.0.30 and Solaris 2.6, directly from snapshots of disk partitions. To support essentially arbitrary code, we implemented binary-compatible simulators for several devices, including SCSI, console, interrupt, timers, EEPROM, and Ethernet. The Ethernet simulation hooks into the host and allows the virtual workstation to appear on the local network with full services available (NFS, NIS, rsh, etc). Ethernet and console traffic can be recorded for future playback. The performance of SimICS/sun4m is sufficient to run realistic workloads, such as the database benchmark TPC-D, scaling factor 1/100, or an interactive network application such as Mozilla. The slowdown in relation to native hardware is in the range of 25 to 75 (measured using SPECint95). We also demonstrate some applications, including modeling an 8-processor sun4m version (which does not exist), modeling future memory hierarchies, and debugging an operating system.
|
|
| 5. |
- Alexeyev, Oleg, et al.
(författare)
-
Association between the presence of bacterial 16S RNA in prostate specimens taken during transurethral resection of prostate and subsequent risk of prostate cancer (Sweden)
- 2006
-
Ingår i: Cancer Causes and Control. - Dordrecht : Kluwer Academic Publishers. - 0957-5243 .- 1573-7225. ; 17:9, s. 1127-1133
-
Tidskriftsartikel (refereegranskat)abstract
- Objective: To study bacterial 16S RNA in archival prostate samples from 352 patients with benign prostate hyperplasia (BPH) and evaluate whether the presence of bacterial DNA was different in those who later developed prostate cancer (n = 171) and in the matched controls that did not progress to cancer (n = 181).Methods: 16S DNA PCR followed by cloning and sequencing the positive samples.Results: In 96/352 (27%) of the prostate tissue specimens 16S RNA were detected. Sequence analysis revealed Propionibacterium acnes as the predominant microorganism (23% of 16S RNA positive patients). The second most frequent isolate—Escherichia coli was found in 12 (12%) patients. The other isolates included Pseudomonas sp. (3 patients), Actinomyces sp. (2), Streptococcus mutans (1), Corynebacterium sp. (2),Nocardioides sp. (1), Rhodococcus sp. (1) Veillonella sp. (2). In P. acnes positive samples 62% exhibited severe histological inflammation versus 50% in the bacteria-negative group (p = 0.602). The presence of P. acnes in the prostate was associated with prostate cancer development (OR 2.17, 95% CI 0.77–6.95).Conclusions: This study has revealed P. acnes as the most common bacteria in the prostate in BPH. Further studies are needed to clarify its role in contributing to the development of prostatic inflammation and prostate cancer.
|
|
| 6. |
- Alvez, Maria Bueno, et al.
(författare)
-
Next generation pan-cancer blood proteome profiling using proximity extension assay
- 2023
-
Ingår i: Nature Communications. - : Springer Nature. - 2041-1723. ; 14:1
-
Tidskriftsartikel (refereegranskat)abstract
- A comprehensive characterization of blood proteome profiles in cancer patients can contribute to a better understanding of the disease etiology, resulting in earlier diagnosis, risk stratification and better monitoring of the different cancer subtypes. Here, we describe the use of next generation protein profiling to explore the proteome signature in blood across patients representing many of the major cancer types. Plasma profiles of 1463 proteins from more than 1400 cancer patients are measured in minute amounts of blood collected at the time of diagnosis and before treatment. An open access Disease Blood Atlas resource allows the exploration of the individual protein profiles in blood collected from the individual cancer patients. We also present studies in which classification models based on machine learning have been used for the identification of a set of proteins associated with each of the analyzed cancers. The implication for cancer precision medicine of next generation plasma profiling is discussed.
|
|
| 7. |
- Bengtsson, Erik L, et al.
(författare)
-
A Case Study on the Influence of Multiple Users on the Effective Channel in a Massive MIMO System
- 2019
-
Ingår i: IEEE Wireless Communications Letters. - 2162-2337. ; , s. 1-6
-
Tidskriftsartikel (refereegranskat)abstract
- We investigate the importance of weak clusters when modeling a wireless massive MIMO channel. We do this by studying the influence of densely spaced terminals and the number of base-station antennas for a zero-forcing precoded massive MIMO system. In particular, we focus on the influence on the correlation and imbalance between the signals at the terminal antennas, the effective channel-gain, the eigenvalue distributions and the number of clusters.The study is based on measured radio-channels from terminal prototypes with integrated antennas connected to a massive MIMO testbed.We further evaluate the advantage of using block-diagonalized zero-forcing compared to conventional zero-forcing in a massive MIMO system. Unexpectedly, terminals with low antenna envelope correlation coefficient may benefit significantly from block-diagonal zero-forcing in a massive MIMO system.The main conclusion is that weaker clusters are important when modeling multi-user scenarios.
|
|
| 8. |
- Bengtsson, Erik L., et al.
(författare)
-
A Simulation Framework for Multiple-Antenna Terminals in 5G Massive MIMO Systems
- 2017
-
Ingår i: IEEE Access. - 2169-3536. ; 5, s. 26819-26831
-
Tidskriftsartikel (refereegranskat)abstract
- The recent interest in massive MIMO has spurred intensive work on massive MIMO channel modeling in contemporary literature. However, current models fail to take the characteristics of terminal antennas into account. There is no massive MIMO channel model available that can be used for evaluation of the influence of different antenna characteristics at the terminal side. In this paper, we provide a simulation framework that fills this gap. We evaluate the framework with antennas integrated into Sony Xperia handsets operating at 3.7 GHz as this spectrum is identified for the 5G new radio standard by 3GPP. The simulation results are compared with measured terminal performance when communicating with the Lund University’s massive MIMO testbed under the same loading conditions. Expressions are derived for comparison of the gain obtained from different diversity schemes computed from measured far-field antenna patterns. We conclude that the simulation framework yields results close to the measured ones and that the framework can be used for antenna evaluation for terminals in a practical precoded massive MIMO system.
|
|
| 9. |
- Bengtsson, Erik L., et al.
(författare)
-
Analysis of Transmission Schemes for Dual-Antenna Terminals in Massive MIMO Systems
- 2018
-
Ingår i: 2018 25th International Conference on Telecommunications, ICT 2018. - 9781538623213 ; , s. 76-82
-
Konferensbidrag (refereegranskat)abstract
- The overall system performance of massive MIMO is improved by equipping user terminals with multiple antennas. In this paper, we investigate transceiver designs for the case of a single downlink stream and in particular, we study the uplink pilot design. Moreover, we study the consequences of channel estimation errors at the base-station, and to what extent a dual-antenna terminal can get access to relevant channel statistics for optimization of the pilot signal. Gain expressions for comparison of different designs are derived. We verify the analytic results based on antennas integrated into Sony-Xperia handsets measured with the Lund University massive MIMO testbed. The measurements are performed at frequencies <6GHz since this part of the spectrum is a candidate for NR standard according to 3GPP.
|
|
| 10. |
- Bengtsson, Erik L, et al.
(författare)
-
Simulation of Multiple-Antenna Terminal Performance in Massive MIMO Systems based on Indoor Measurements
- 2020
-
Ingår i: IEEE Transactions on Vehicular Technology. - 0018-9545. ; 69:1, s. 418-427
-
Tidskriftsartikel (refereegranskat)abstract
- In massive MIMO systems the uplink pilot signalstransmitted by a terminal define the channel seen by the basestation. This gives the terminal some degree of freedom selectingan uplink pilot transmission strategy. In this paper, we investigatethe benefit of different pilot transmission strategies when increasingthe number of antennas in the terminal. Building on previouswork on a simulation framework for Multiple-antenna terminalsin 5G massive MIMO systems, this paper presents simulatedperformance results for various transmission schemes. The resultsare calibrated to reflect a real communication situation in a largeauditorium. Emulating the measurement set-up, we show that theframework can be tuned to generate channel distributions thatmatch measured data. Under generalized conditions, we performsimulations for different terminal transmission-strategies, bothrelated to single stream and multiple streams. All evaluations arebased on terminals with four antennas integrated into real SonyXperia smartphone-chassis, tuned to 3.7 GHz. The measurementsare conducted by using the Lund University Massive MIMOtestbed with its 100 antennas. The results clearly show theadvantage of increasing the antenna-count also at the terminalside in massive MIMO systems.
|
|
