Search for dissertations about: "data-independent acquisition"

Showing result 1 - 5 of 7 swedish dissertations containing the words data-independent acquisition.

2. 1. DNA adductomics: Method development and integration in biological effect monitoring

   Author : Giulia Martella; Elena Gorokhova; Hitesh V. Motwani; Brita Sundelin; Gunnar Boysen; Stockholms universitet; []
   Keywords : NATURVETENSKAP; NATURAL SCIENCES; NATURVETENSKAP; NATURAL SCIENCES; DNA adducts; Nucleic acids; High-resolution mass spectrometry; Data-independent acquisition; Biological effect monitoring; Environmental contaminants; Biomarkers; Amphipods as sentinel species; Environmental Sciences; miljövetenskap;

   Abstract : Environmental omics can provide informative biomarkers for identifying pathologies or physiological responses to environmental change. Nucleic acid adductomics, one of the newest omics techniques, is particularly well suited for assessing exposure and effects of environmental contaminants because the technique can capture modifications at the (epi)genome level. READ MORE

4. 2. Mapping the proteome with data-driven methods: A cycle of measurement, modeling, hypothesis generation, and engineering

   Author : Filip Buric; Chalmers tekniska högskola; []
   Keywords : NATURVETENSKAP; NATURAL SCIENCES; NATURVETENSKAP; NATURAL SCIENCES; tensor factorization; mass spectrometry; model interpretation; sequence feature engineering; deep learning; proteomics; machine learning; data-independent acquisition; feature learning;

   Abstract : The living cell exhibits emergence of complex behavior and its modeling requires a systemic, integrative approach if we are to thoroughly understand and harness it. The work in this thesis has had the more narrow aim of quantitatively characterizing and mapping the proteome using data-driven methods, as proteins perform most functional and structural roles within the cell. READ MORE

5. 3. Intelligent data acquisition for drug design through combinatorial library design

   Author : Simon Johansson; Chalmers tekniska högskola; []
   Keywords : HUMANIORA; HUMANITIES; NATURVETENSKAP; NATURAL SCIENCES; NATURVETENSKAP; NATURAL SCIENCES; determinantal point processes; generative models; machine learning; drug discovery; active learning; Cheminformatics;

   Abstract : A problem that occurs in machine learning methods for drug discovery is a need for standardized data. Methods and interest exist for producing new data but due to material and budget constraints it is desirable that each iteration of producing data is as efficient as possible. READ MORE

6. 4. Machine Learning methods in shotgun proteomics

   Author : Patrick Truong; Lukas Käll; Peter Nilsson; KTH; []
   Keywords : NATURVETENSKAP; NATURAL SCIENCES; mass spectrometry protein summarization Bayesian hierarchical modelling label-free quantification data-independent acquisition mass spectrometry; benchmark mathematical methods; transformers; computational proteomics; proteomics; bioinformatics; bert; ms2 intensity; probabilistic modelling; Biotechnology; Bioteknologi;

   Abstract : As high-throughput biology experiments generate increasing amounts of data, the field is naturally turning to data-driven methods for the analysis and extraction of novel insights. These insights into biological systems are crucial for understanding disease progression, drug targets, treatment development, and diagnostics methods, ultimately leading to improving human health and well-being, as well as, deeper insight into cellular biology. READ MORE

7. 5. Proteome-wide analysis of severe bacterial infections. The battle between host and pathogen

   Author : Anahita Bakochi; Infektionsmedicin; []
   Keywords : MEDICIN OCH HÄLSOVETENSKAP; MEDICAL AND HEALTH SCIENCES; Proteomics; Mass Spectrometry; Systems biology; Host adaptation; Meningitis; Streptococcus pneumoniae;

   Abstract : The pathogenesis of severe infectious diseases is a complex interplay between the host and the pathogen. The development and progression of a disease encompasses a multitude of processes, which balance between host-damage and host-protection. READ MORE