| 1. |
- Colomé, Núria, et al.
(författare)
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Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis
- 2022
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Ingår i: Journal of Proteomics. - : Elsevier. - 1874-3919 .- 1876-7737. ; 251
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Tidskriftsartikel (refereegranskat)abstract
- Global analysis of protein phosphorylation by mass spectrometry proteomic techniques has emerged in the last decades as a powerful tool in biological and biomedical research. However, there are several factors that make the global study of the phosphoproteome more challenging than measuring non-modified proteins. The low stoichiometry of the phosphorylated species and the need to retrieve residue specific information require particular attention on sample preparation, data acquisition and processing to ensure reproducibility, qualitative and quantitative robustness and ample phosphoproteome coverage in phosphoproteomic workflows. Aiming to investigate the effect of different variables in the performance of proteome wide phosphoprotein analysis protocols, ProteoRed-ISCIII and EuPA launched the Proteomics Multicentric Experiment 11 (PME11). A reference sample consisting of a yeast protein extract spiked in with different amounts of a phosphomix standard (Sigma/Merck) was distributed to 31 laboratories around the globe. Thirty-six datasets from 23 laboratories were analyzed. Our results indicate the suitability of the PME11 reference sample to benchmark and optimize phosphoproteomics strategies, weighing the influence of different factors, as well as to rank intra and inter laboratory performance.
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| 2. |
- Galvez, Antonio, et al.
(författare)
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Fault Detection and RUL Estimation for Railway HVAC Systems Using a Hybrid Model-Based Approach
- 2021
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Ingår i: Sustainability. - : MDPI. - 2071-1050. ; 13:12
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Tidskriftsartikel (refereegranskat)abstract
- Heating, ventilation, and air conditioning (HVAC) systems installed in a passenger train carriage are critical systems, whose failures can affect people or the environment. This, together with restrictive regulations, results in the replacement of critical components in initial stages of degradation, as well as a lack of data on advanced stages of degradation. This paper proposes a hybrid model-based approach (HyMA) to overcome the lack of failure data on a HVAC system installed in a passenger train carriage. The proposed HyMA combines physics-based models with data-driven models to deploy diagnostic and prognostic processes for a complex and critical system. The physics-based model generates data on healthy and faulty working conditions; the faults are generated in different levels of degradation and can appear individually or together. A fusion of synthetic data and measured data is used to train, validate, and test the proposed hybrid model (HyM) for fault detection and diagnostics (FDD) of the HVAC system. The model obtains an accuracy of 92.60%. In addition, the physics-based model generates run-to-failure data for the HVAC air filter to develop a remaining useful life (RUL) prediction model, the RUL estimations performed obtained an accuracy in the range of 95.21–97.80% Both models obtain a remarkable accuracy. The development presented will result in a tool which provides relevant information on the health state of the HVAC system, extends its useful life, reduces its life cycle cost, and improves its reliability and availability; thus enhancing the sustainability of the system.
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| 3. |
- Gálvez, Antonio, et al.
(författare)
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Hybrid Models and Digital Twins for Condition Monitoring : HVAC System for Railway
- 2019
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Ingår i: EUROSIM 2019. - : ARGESIM Publisher. ; , s. 52-52
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Konferensbidrag (övrigt vetenskapligt/konstnärligt)abstract
- The passenger transportation,safety is more important than efficiency or reliability. Therefore, it is vital to maintain the proper condition of the equipment related to the passengers’ comfort and safety.This manuscriptexplainsthe methodology ofcomplete development and implementation of both hybrid model and digital twin3.0for a HVAC inrailways. The objective of this is to monitor the condition of the HVAC where it matters to the comfort and safety of the passengers in the trains. The level3.0of digital twinwill be develop for the diagnosis and prognosis of HVAC by using the hybrid modeling.The descriptionillustratedin this paper is focused on the methodology used to implement the hybrid model approach and both the need and advantages to use a hybrid model approach instead of thedata-based approach.One of the particularitiesconsidered doing the developmentwas the importanceof the safety and environmental risk whichwere included in the risk quantification of the failure modes. In train companies the maintainers replace critical components in early stages of degradation, thus, using a data-based model might loses important information and does not givegood support to manage the maintenance instructions.Developing a physicsbased-model will be able to generate synthetic data for the behavior of the components in advanced stages of degradation and combiningitwith the data-based modellead to formhybrid model with a large number of failure modes that were unpredictable. Finally,the outcome is beneficialfor the proper functioning of the systems, hence, the safety of the passengers.
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| 4. |
- Gálvez, Antonio, et al.
(författare)
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Hybrid Models and Digital Twins for Condition Monitoring: HVAC System for Railway
- 2021
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Ingår i: Simulation Notes Europe. - : ARGESIM Publisher. - 2306-0271 .- 2305-9974. ; 31:3, s. 121-126
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Tidskriftsartikel (refereegranskat)abstract
- Safety passenger transportation is more important than efficiency or reliability. Therefore, it is vital to maintain the proper condition of the equipment related to the passengers’ comfort and safety. This manuscript presents the methodology of complete development and implementation of both hybrid model and digital twin 3.0 for an HVAC in railways. The objective of this is to monitor the condition of the HVAC where it matters to the comfort and safety of the passengers in the trains. The level 3.0 of digital twin will be developed for the diagnosis and prognosis of HVAC by using hybrid modeling. The description illustrated in this paper is focused on the methodology used to implement a hybrid model-based approach, and both the need and advantages of using hybrid model approaches instead of data-based approaches. The development considers the importance of safety and environmental risks, which are included in the risk quantification of failure modes. Railway’s maintainers replace critical components in early stages of degradation; thus, the use of a data-driven model loses essential information related to advanced stages of degradation which might decrease the accuracy of the maintenance instructions provided. Physics-based model can be used to generate synthetic data to overcome the lack of data in advanced stages of degradation, and then, the synthetic data can be combined with the real data, which is collected by sensor located in the real system, to build the data-driven model. The combination leads to form hybrid-model based approach with a large number of failure modes that were unpredictable. Finally, the outcome is beneficial for the proper functioning of systems; hence, safety of the passengers.
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| 5. |
- Gálvez, Antonio, et al.
(författare)
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Synthetic Data Generation in Hybrid Modelling of Railway HVAC System
- 2020
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Ingår i: 17th IMEKO TC 10 and EUROLAB Virtual Conference. - : International Measurement Confederation (IMEKO). ; , s. 79-84
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Konferensbidrag (refereegranskat)abstract
- This paper proposes a hybrid model (HyM)for a heating, ventilation and air conditioning (HVAC) system installed in a passenger train. This HyM fuses data from two sources: data taken from the real system and synthetic data generated using a physics-based model of the HVAC.The physical model of the HVAC was developed to include the sensors located in the real system and new virtual sensors reproducing the behaviour of the system while a failure mode (FM) is simulated.Statistical features are calculated from the selected signals. These features are labelled according to the related FMs and are merged with the features calculated from the data from the real system. This data fusion allows us to classify the condition indicators of the system according to the FMs. The merged features are used to train a neural network (NN), which achieves a remarkable accuracy.Accuracy is a key concern of future research on the detection and diagnosis of a multiple faults and the estimation of the remaining useful life (RUL) through prognosis. The outcome is beneficial for the proper functioning of the system and the safety of the passengers.
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| 6. |
- Galvez-Ruiz, Alberto, et al.
(författare)
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Genetic Testing for Wolfram Syndrome Mutations in a Sample of 71 Patients with Hereditary Optic Neuropathy and Negative Genetic Test Results for OPA1/OPA3/LHON
- 2018
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Ingår i: Neuro-Ophthalmology. - : Informa UK Limited. - 0165-8107 .- 1744-506X. ; 42:2, s. 73-82
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Tidskriftsartikel (refereegranskat)abstract
- In this study, the authors present a sample of 71 patients with hereditary optic neuropathy and negative genetic test results for OPA1/OPA3/LHON. All of these patients later underwent genetic testing to rule out WFS. As a result, 53 patients (74.7%) were negative and 18 patients (25.3%) were positive for some type of mutation or variation in the WFS gene. The authors believe that this study is interesting because it shows that a sizeable percentage (25.3%) of patients with hereditary optic 25 neuropathy and negative genetic test results for OPA1/OPA3/LHON had WFS mutations or variants.
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| 7. |
- Gálvez-Ruiz, Alberto, et al.
(författare)
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Prevalence of diabetic retinopathy in a population of diabetics from the middle east with microvascular ocular motor palsies
- 2016
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Ingår i: Journal of Neuro-Ophthalmology. - 1070-8022. ; 36:2, s. 131-133
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Tidskriftsartikel (refereegranskat)abstract
- Background: Vascular risk factors are increasing rapidly in the Middle East. Growing inactivity and obesity have contributed to an epidemic of Type 2 diabetes mellitus (DM) in the Arab population. Microvascular palsies of the third, fourth, and sixth cranial nerves, which occur in an isolated manner, are relatively common in patients with DM, hypertension, or other vascular risk factors. Methods: In this retrospective analysis, patients with diabetes with microvascular palsies were assessed for the prevalence of diabetic retinopathy (DR). We compared these data with the prevalence of DR in the general population of diabetics in Saudi Arabia and to a similar published study done in an American population. Results: In total, 126 patients with diabetes were included in the study. The sixth nerve was most frequently involved in 67 patients (53%). Seventy-seven patients (61%) had DR, compared with 49 (39%) without DR. The prevalence of DR in the general population of Saudi patients with diabetes ranged from 30% to 36.1%. Conclusions: Our study demonstrated a higher prevalence of DR in patients with microvascular palsies compared with the general population of patients with diabetes in the Arab population. This is in contrast to a previous study in an American population. Our results might be secondary to differences between the 2 populations, in particular, the continued increase in the prevalence of vascular risk factors (mainly diabetes) and poor control of these risk factors in the Middle East.
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| 8. |
- Galvez-Ruiz, Alberto, et al.
(författare)
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Three New PAX2 Gene Mutations in Patients with Papillorenal Syndrome
- 2017
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Ingår i: Neuro-Ophthalmology. - : Informa UK Limited. - 0165-8107 .- 1744-506X. ; 41:5, s. 271-278
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Tidskriftsartikel (refereegranskat)abstract
- Papillorenal syndrome (PAPRS; Mendelian Inheritance in Man [MIM] 120330) is an autosomal dominant disease characterised by the presence of congenital renal and optic nerve abnormalities associated with mutations of the PAX2 gene. In this article, the authors present four patients with PAPRS who are carriers of three new PAX2 mutations, as well as another patient with a possible non-pathogenic variant of the PAX2 gene. All patients were given a full neurophthalmological examination, and all patients underwent a genetic test for PAX2. Patients 1 and 2 presented with the classic signs of PAPRS: renal disease associated with a congenitally abnormal optic disc, whereas patients 3 and 4 only presented with a congenital optic nerve abnormality and no renal involvement. In patients 1 and 2, the optic nerves were affected by the presence of a central excavation within the optic disc, absence of the central retinal artery, as well as multiple cilioretinal arteries radiating from the periphery of the optic disc. Bilateral optic nerve pits were seen in patient 3, and lastly, in patient 4 there was the presence of superficial gliotic tissue on the left optic disc. All patients presented with a missense mutation in the PAX2 gene, where in patient 4 possibly being only a non-pathogenic variant of the gene. In conclusion, the authors present two patients with classic clinical signs of PAPRS, having two new PAX2 mutations, which until now have not been described in the current literature; another patient with a new PAX2 mutation showing only ocular manifestations of the disease, and lastly, a patient who is a carrier of a variant of the PAX2 gene has a congenitally abnormal optic disc, which is probably not related to PAPRS.
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| 9. |
- Petzold, Axel, et al.
(författare)
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Diagnosis and classification of optic neuritis
- 2022
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Ingår i: Lancet Neurology. - : ELSEVIER SCIENCE INC. - 1474-4422 .- 1474-4465. ; 21:12, s. 1120-1134
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Forskningsöversikt (refereegranskat)abstract
- There is no consensus regarding the classification of optic neuritis, and precise diagnostic criteria are not available. This reality means that the diagnosis of disorders that have optic neuritis as the first manifestation can be challenging. Accurate diagnosis of optic neuritis at presentation can facilitate the timely treatment of individuals with multiple sclerosis, neuromyelitis optica spectrum disorder, or myelin oligodendrocyte glycoprotein antibody-associated disease. Epidemiological data show that, cumulatively, optic neuritis is most frequently caused by many conditions other than multiple sclerosis. Worldwide, the cause and management of optic neuritis varies with geographical location, treatment availability, and ethnic background. We have developed diagnostic criteria for optic neuritis and a classification of optic neuritis subgroups. Our diagnostic criteria are based on clinical features that permit a diagnosis of possible optic neuritis; further paraclinical tests, utilising brain, orbital, and retinal imaging, together with antibody and other protein biomarker data, can lead to a diagnosis of definite optic neuritis. Paraclinical tests can also be applied retrospectively on stored samples and historical brain or retinal scans, which will be useful for future validation studies. Our criteria have the potential to reduce the risk of misdiagnosis, provide information on optic neuritis disease course that can guide future treatment trial design, and enable physicians to judge the likelihood of a need for long-term pharmacological management, which might differ according to optic neuritis subgroups.
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| 10. |
- Vialas, Vital, et al.
(författare)
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A multicentric study to evaluate the use of relative retention times in targeted proteomics
- 2017
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Ingår i: Journal of Proteomics. - : Elsevier BV. - 1874-3919. ; 152, s. 138-149
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Tidskriftsartikel (refereegranskat)abstract
- Despite the maturity reached by targeted proteomic strategies, reliable and standardized protocols are urgently needed to enhance reproducibility among different laboratories and analytical platforms, facilitating a more widespread use in biomedical research. To achieve this goal, the use of dimensionless relative retention times (iRT), defined on the basis of peptide standard retention times (RT), has lately emerged as a powerful tool. The robustness, reproducibility and utility of this strategy were examined for the first time in a multicentric setting, involving 28 laboratories that included 24 of the Spanish network of proteomics laboratories (ProteoRed-ISCIII). According to the results obtained in this study, dimensionless retention time values (iRTs) demonstrated to be a useful tool for transferring and sharing peptide retention times across different chromatographic set-ups both intra- and inter-laboratories. iRT values also showed very low variability over long time periods. Furthermore, parallel quantitative analyses showed a high reproducibility despite the variety of experimental strategies used, either MRM (multiple reaction monitoring) or pseudoMRM, and the diversity of analytical platforms employed. Biological significance From the very beginning of proteomics as an analytical science there has been a growing interest in developing standardized methods and experimental procedures in order to ensure the highest quality and reproducibility of the results. In this regard, the recent (2012) introduction of the dimensionless retention time concept has been a significant advance. In our multicentric (28 laboratories) study we explore the usefulness of this concept in the context of a targeted proteomics experiment, demonstrating that dimensionless retention time values is a useful tool for transferring and sharing peptide retention times across different chromatographic set-ups.
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| 11. |
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