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Sökning: WFRF:(Jacobsen Soren) > Kungliga Tekniska Högskolan

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1.
  • Allesøe, Rosa Lundbye, et al. (författare)
  • Discovery of drug–omics associations in type 2 diabetes with generative deep-learning models
  • 2023
  • Ingår i: Nature Biotechnology. - : Springer Nature. - 1087-0156 .- 1546-1696. ; 41:3, s. 399-408
  • Tidskriftsartikel (refereegranskat)abstract
    • The application of multiple omics technologies in biomedical cohorts has the potential to reveal patient-level disease characteristics and individualized response to treatment. However, the scale and heterogeneous nature of multi-modal data makes integration and inference a non-trivial task. We developed a deep-learning-based framework, multi-omics variational autoencoders (MOVE), to integrate such data and applied it to a cohort of 789 people with newly diagnosed type 2 diabetes with deep multi-omics phenotyping from the DIRECT consortium. Using in silico perturbations, we identified drug–omics associations across the multi-modal datasets for the 20 most prevalent drugs given to people with type 2 diabetes with substantially higher sensitivity than univariate statistical tests. From these, we among others, identified novel associations between metformin and the gut microbiota as well as opposite molecular responses for the two statins, simvastatin and atorvastatin. We used the associations to quantify drug–drug similarities, assess the degree of polypharmacy and conclude that drug effects are distributed across the multi-omics modalities.
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2.
  • Leong, Miu Yoong (författare)
  • DSP-based Coherent Optical Systems : Receiver Sensitivity and Coding Aspects
  • 2015
  • Licentiatavhandling (övrigt vetenskapligt/konstnärligt)abstract
    • User demand for faster access to more data is at a historic high and rising. One of the enabling technologies that makes the information age possible is fiber-optic communications, where light is used to carry information from one place to another over optical fiber. Since the technology was first shown to be feasible in the 1970s, it has been constantly evolving with each new generation of fiber-optic systems achieving higher data rates than its predecessor.Today, the most promising approach for further increasing data rates is digital signal processing (DSP)-based coherent optical transmission with multi-level modulation. As multi-level modulation formats are very susceptible to noise and distortions, forward error correction (FEC) is typically used in such systems. However, FEC has traditionally been designed for additive white Gaussian noise (AWGN) channels, whereas fiber-optic systems also have other impairments. For example, there is relatively high phase noise (PN) from the transmitter and local oscillator (LO) lasers.The contributions of this thesis are in two areas. First, we use a unified approach to analyze theoretical performance limits of coherent optical receivers and microwave receivers, in terms of signal-to-noise ratio (SNR) and bit error rate (BER). By using our general framework, we directly compare the performance of ten coherent optical receiver architectures and five microwave receiver architectures. In addition, we put previous publications into context, and identify areas of agreement and disagreement between them. Second, we propose straightforward methods to select codes for systems with PN. We focus on Bose-Chaudhuri-Hocquenghem (BCH) codes with simple implementations, which correct pre-FEC BERs around 10−3. Our methods are semi-analytical, and need only short pre-FEC simulations to estimate error statistics. We propose statistical models that can be parameterized based on those estimates. Codes can be selected analytically based on our models.
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