Relevant bibliographies by topics / TurboID

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Academic literature on the topic 'TurboID'

Author: Grafiati
Published: 9 November 2024

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Journal articles on the topic "TurboID"

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Cho, Kelvin F., Tess C. Branon, Sanjana Rajeev, Tanya Svinkina, Namrata D. Udeshi, Themis Thoudam, Chulhwan Kwak, et al. "Split-TurboID enables contact-dependent proximity labeling in cells." Proceedings of the National Academy of Sciences 117, no. 22 (May 18, 2020): 12143–54. http://dx.doi.org/10.1073/pnas.1919528117.

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Proximity labeling catalyzed by promiscuous enzymes, such as TurboID, have enabled the proteomic analysis of subcellular regions difficult or impossible to access by conventional fractionation-based approaches. Yet some cellular regions, such as organelle contact sites, remain out of reach for current PL methods. To address this limitation, we split the enzyme TurboID into two inactive fragments that recombine when driven together by a protein–protein interaction or membrane–membrane apposition. At endoplasmic reticulum–mitochondria contact sites, reconstituted TurboID catalyzed spatially restricted biotinylation, enabling the enrichment and identification of >100 endogenous proteins, including many not previously linked to endoplasmic reticulum–mitochondria contacts. We validated eight candidates by biochemical fractionation and overexpression imaging. Overall, split-TurboID is a versatile tool for conditional and spatially specific proximity labeling in cells.
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Cho, Kelvin F., Tess C. Branon, Namrata D. Udeshi, Samuel A. Myers, Steven A. Carr, and Alice Y. Ting. "Proximity labeling in mammalian cells with TurboID and split-TurboID." Nature Protocols 15, no. 12 (November 2, 2020): 3971–99. http://dx.doi.org/10.1038/s41596-020-0399-0.

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May, Danielle G., Kelsey L. Scott, Alexandre R. Campos, and Kyle J. Roux. "Comparative Application of BioID and TurboID for Protein-Proximity Biotinylation." Cells 9, no. 5 (April 25, 2020): 1070. http://dx.doi.org/10.3390/cells9051070.

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BioID is a well-established method for identifying protein–protein interactions and has been utilized within live cells and several animal models. However, the conventional labeling period requires 15–18 h for robust biotinylation which may not be ideal for some applications. Recently, two new ligases termed TurboID and miniTurbo were developed using directed evolution of the BioID ligase and were able to produce robust biotinylation following a 10 min incubation with excess biotin. However, there is reported concern about inducibility of biotinylation, cellular toxicity, and ligase stability. To further investigate the practical applications of TurboID and ascertain strengths and weaknesses compared to BioID, we developed several stable cell lines expressing BioID and TurboID fusion proteins and analyzed them via immunoblot, immunofluorescence, and biotin-affinity purification-based proteomics. For TurboID we observed signs of protein instability, persistent biotinylation in the absence of exogenous biotin, and an increase in the practical labeling radius. However, TurboID enabled robust biotinylation in the endoplasmic reticulum lumen compared to BioID. Induction of biotinylation could be achieved by combining doxycycline-inducible expression with growth in biotin depleted culture media. These studies should help inform investigators utilizing BioID-based methods as to the appropriate ligase and experimental protocol for their particular needs.
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Doerr, Allison. "Proximity labeling with TurboID." Nature Methods 15, no. 10 (October 2018): 764. http://dx.doi.org/10.1038/s41592-018-0158-0.

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Garloff, Vera, and Ignacio Rubio. "Schneller, weiter, TurboID – Modulation einer übereifrigen Biotin-Ligase." BIOspektrum 29, no. 3 (May 2023): 273–75. http://dx.doi.org/10.1007/s12268-023-1943-6.

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AbstractProtein-protein interactions are key elements of intracellular signalling and metabolic pathways. These interactions can be revealed with the help of proximity ligation screens, prominently biotinylation screens. This approach has profited from the recent development of the highly active biotin ligase TurboID, which however also led to problems of toxicity related to its high basal activity. We have established a simple protocol to improve TurboID performance and enhance protein functionality.
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Makhsatova, S. A., A. B. Kurmanbay, I. A. Akhmetollayev, and A. T. Kulyyassov. "ASSEMBLING THE TURBOID-CONTAINING PLASMID CONSTRUCT FOR INVESTIGATING THE IN VIVO PROTEIN-PROTEIN INTERACTIONS." Eurasian Journal of Applied Biotechnology, no. 3S (September 12, 2024): 47. http://dx.doi.org/10.11134/btp.3s.2024.35.

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In vivo interactions between biomolecules (Proteins, RNA, and DNA) are the basis of cellular functionality including cell cycle, signaling pathways, cellular metabolism, and other biological processes. The traditional methods for detecting protein-protein interactions, such as affinity purification and two-hybrid analysis have limitations for the in-depth study of the cellular proteome. Besides, proteomics of the organelle protein components is still challenging to study, due to the spatial and temporal dynamics of proteins. To address these problems, proximity labeling technology was introduced. This technology not only surpasses all the limitations of traditional methods but also has unique advantages in the qualitative and quantitative analysis of the proteome of living cells. Proximity labeling is one of the most commonly used methods for detecting the functional features and protein composition of target proteins and neighboring ones, through biotin labeling (biotinylation). Biotin is employed due to its high affinity to streptavidin and avidin, which is an efficient procedure to purify and isolate fractions containing biotinylated proteins for further analysis. During the in vivo biotinylation study, we used the mutant biotin ligase TurboID which is the modified enzyme of BirA. BirA is an enzyme found in E. coli bacteria, capable of catalyzing the attachment of biotin to specific lysine residues on a single cellular protein. The development of TurboID involved introducing specific mutations into the BirA sequence to improve its performance. These mutations result in the inability of the TurboID biotin ligase to maintain biotinyl-5'-adenylate in its active form, causing its release from the active center into the surrounding environment. This released substance contains a reactive mixed anhydride bond, enabling it to readily modify lysine residues of nearby proteins within 10nm in the cell. So, the advantage of TurboID-X (X-any protein of interest (POI)) is that it has a high efficiency for in vivo proximity labeling. We use the PTF (pluripotency transcription factors) SOX2, OCT4, and NANOG for X as model systems. In our study, we used genetic engineering methods to obtain recombinant plasmid DNA containing the nucleotide sequence of TurboID and fused protein of interest X. DNA plasmid constructs have next key structural elements: Kozak sequence at the beginning of the fragment, His-Tag, and diglycine sequence at the end, BglII and XhoI restriction sites respectively to replace the wild-type biotin ligase BirA by TurboID. Two rounds of PCR amplification were performed, the first one using terminal primers that amplify only the TurboID ORF. The resulting amplicon of TurboID was applied as a matrix in the second PCR round by using long primers that contain the structural elements mentioned above. Expression of recombinant proteins from the resulting plasmid constructs will be demonstrated in HEK293T (Human embryonic kidney) cells using transient transfection with calcium phosphate method or Lipofectamine 2000. In conclusion, further research will consist of affinity purification, detection of labeled proteins by Western blotting, and their identification by the LC-MS/MS. We hope that our research work will help us to better understand the mechanisms of the early stages of the reprogramming process.
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Takano, Tetsuya. "Comprehensive identification of molecules at synapses and non-synaptic cell-adhesion structure." Impact 2023, no. 3 (September 21, 2023): 46–48. http://dx.doi.org/10.21820/23987073.2023.3.46.

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The brain is incredibly complex and there is so much we don't know about this organ and its mechanisms. Assistant Professor Tetsuya Takano, School of Medicine, Keio University, Japan, is working to better understand neuroscience. One area of interest is neurons and astrocytes; specifically elucidating the protein component functions in each neural circuit. He and his team are working to shed light on the pathological mechanism of psychiatric and neurological disorders and, in doing so, enabling improved treatments and benefiting patients across the globe. The team has developed spatio-temporal proteome technologies: TurboID-surface and Split-TurboID, that can not only explain the formation and operation principle of neural networks, but also provide essential knowledge for research into psychiatric and neurological diseases. To overcome limitations associated with conventional proteome analysis, Takano and the team recently developed a new in vivo proximal-dependent biotin labelling (BioID) method. Using this, the researchers can label and analyse adjacent proteins with biotin, which enables them to comprehensively analyse local protein components within cells with extremely high spatial resolution. The team has used the BioID method to develop the Split-TurboID method and an innovative spatial proteome technique for searching for molecular groups among heterogeneous cells that makes it possible to comprehensively analyse the protein components in the vicinity of the adhesion site. Using the Split-TurboID method, the team has comprehensively searched for functional molecules between astrocytes and neurons and revealed that astrocytes directly control the formation of inhibitory synapses and neuronal activity in neurons via a novel tripartite synaptic molecule known as NRCAM.
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Rabinovich-Ernst, Orna, Clinton Bradfield, SungHwan Yoon, Anthony Armstrong, Samuel Katz, Aleksandra Nita-Lazar, and Iain Fraser. "TurboID biotin-tagging mass spectrometry identifies specific caspase-11-associated proteins regulating non-canonical inflammasome activation." Journal of Immunology 206, no. 1_Supplement (May 1, 2021): 15.06. http://dx.doi.org/10.4049/jimmunol.206.supp.15.06.

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Abstract While it has been demonstrated that cytosolic LPS can directly activate caspase11, the cellular processes regulating the non-canonical inflammasome response remain poorly defined. Caspase11 and caspase1 show substantial structural similarity, however, unlike the activation of caspase1 by NLR inflammasomes, there are no sensor or adaptor proteins known to be involved in transmitting cytosolic LPS signal to caspase11. Also, while caspase11 has been shown to associate with LPS, it lacks a characteristic LPS binding domain as observed in many other LPS binding proteins such as MD2 and LBP. Thus, we hypothesized that other effectors may be required to facilitate cytosolic LPS recognition. Moreover, the pathway is likely to be tightly regulated as caspase11 activation leads to highly inflammatory cell death. To identify novel regulators of caspase11, we generated immortalized macrophages expressing a caspase11-TurboID-DHFR chimeric protein. The destabilizing domain was included to avoid cell death induced by caspase11 over-expression. We used a TurboID biotin-tagging MS assay to detect proteins in close proximity to caspase11 pre and post cytosolic LPS introduction. Importantly, the TurboID assay permits recognition of transient interactions, typically missed by traditional IP. To validate relevance of putative hits, we used siRNA knockdown in BMDM. We’ve identified novel regulators specific for cytosolic LPS triggering. Several proteins interact with caspase11 only in the resting state, suggesting negative regulation to prevent pyroptosis. Among the identified regulators are kinases and proteins with pyrin and LRR domains, both common NLR features. This work was supported by the Intramural Research Program of NIAID, NIH.
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Kim, Han Byeol, and Kwang-eun Kim. "Precision proteomics with TurboID: mapping the suborganelle landscape." Korean Journal of Physiology & Pharmacology 28, no. 6 (November 1, 2024): 495–501. http://dx.doi.org/10.4196/kjpp.2024.28.6.495.

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Gurung, Sadeechya. "Abstract 998: Extracellular proximity labeling (ePL) as a tool to identify protein-protein interactions in the tumor microenvironment." Cancer Research 82, no. 12_Supplement (June 15, 2022): 998. http://dx.doi.org/10.1158/1538-7445.am2022-998.

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Abstract The extracellular matrix (ECM) is a dynamic niche that is extensively reshaped in the development of the tumor microenvironment (TME). Our current understanding of ECM function and dynamics is largely informed by identification of protein-protein interactions (PPIs) using co-immunoprecipitation (co-IP) techniques that may miss transient and weak/unstable interactions. Recent advances in proximity labeling techniques have greatly expanded the interactome networks of numerous intracellular proteins, however these tools have yet to be extended to study PPIs in the ECM. We have recently optimized a systematic approach to identify PPIs in the ECM using fusion constructs of the biotinylating enzymes, BioID2 and TurboID, with the widely expressed matrix regulator TIMP2. BioID2 and TurboID offer differing reaction kinetics that may provide complimentary information on extracellular PPIs (ePPIs). Matrix metalloproteinases (MMPs) and their endogenous inhibitors, tissue inhibitors of metalloproteinases (TIMPs) are crucial regulators of ECM structure and composition. TIMPs are widely expressed multifunctional proteins that serve to promote ECM homeostasis that is often perturbed in many cancers and chronic disorders. Although biochemical data suggests that TIMPs are promiscuous proteins, the TIMP interactome is poorly defined. We have optimized a protocol for the identification of ePPIs for the TIMP family of proteins. Fusion constructs equipped with a promiscuous biotin ligase (BioID2/TurboID) fused to the N- or C-terminal of full length TIMP2 were packaged into retroviral vectors for cellular delivery. Cells were exposed to the extracellular proximity labelling (ePL) fusion proteins and processed in our optimized analysis pipeline. ePPIs were identified via streptavidin pulldown and proteomic techniques. We present our optimized ePL pipeline and show that this technique is an effective tool for the identification of novel ePPIs for multiple extracellular targets. Citation Format: Sadeechya Gurung. Extracellular proximity labeling (ePL) as a tool to identify protein-protein interactions in the tumor microenvironment [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2022; 2022 Apr 8-13. Philadelphia (PA): AACR; Cancer Res 2022;82(12_Suppl):Abstract nr 998.
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Dissertations / Theses on the topic "TurboID"

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Branon, Tess C. "Directed evolution of TurboID for efficient proximity labeling in living cells and organisms." Thesis, Massachusetts Institute of Technology, 2018. http://hdl.handle.net/1721.1/120909.

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Thesis: Ph. D., Massachusetts Institute of Technology, Department of Chemistry, 2018.
Cataloged from PDF version of thesis.
Includes bibliographical references.
Protein interaction networks and protein compartmentalization underlie all signaling and regulatory processes in cells. Traditional approaches to proteomics employ mass spectrometry (MS) coupled to biochemical fractionation or affinity purification but require cell lysis prior to analysis which often results in false-negatives from missed interactions or incomplete purification and false-positives from contaminants. Enzyme-catalyzed proximity labeling (PL) has emerged as a new approach to study the spatial and interaction characteristics of proteins in which a PL enzyme can be genetically targeted to a subcellular region and used to tag surrounding endogenous proteins with a chemical handle that allows their identification by MS. Tagging is carried out in living cells in a distance-dependent manner, allowing data collection from a physiologically relevant environment with preservation of spatial information. Current PL methods are limited by poor catalytic efficiency or toxic substrates that limit their application in vivo. Therefore, we have developed a new proximity labeling method, called TurboID, that uses non-toxic labeling conditions and has high catalytic efficiency that allows its use in a wide variety of biological contexts. Here, we describe our use of yeast display-based directed evolution to engineer two promiscuous mutants of biotin ligase, TurbolD and miniTurbo. We describe our characterization of the evolved PL enzymes in microbes, cultured cells, in vitro, and in vivo in flies and worms, and show that TurbolD and miniTurbo have much greater catalytic efficiency than any other biotin ligase-based PL method currently available. Lastly, we demonstrate that TurbolD and miniTurbo can be used to obtain proteomes with the same size, specificity, and depth-of-coverage as existing biotin-ligase based PL techniques with over 100- fold shorter labeling times. In the Appendix, we discuss two separate projects. In Part I, we describe how fusion of the PL enzyme APEX2 to various mitochondrial proteins could be used to map the proteomes of mitochondrial subdomains and be used to visualize the localization of mitochondrial proteins in mitochondrial subdomains using APEX2 to generate contrast for electron microscopy imaging. In Part II, we discuss the development of two platforms that could be used to temporally control genome editing using light.
by Tess C. Branon.
Ph. D.
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Hajj, Sleiman Nawal. "Approche par nanobody pour capturer les interactomes de complexes protéiques dimériques en contexte cellulaire vivant." Electronic Thesis or Diss., Lyon, École normale supérieure, 2024. http://www.theses.fr/2024ENSL0041.

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L’identité et le devenir de chaque cellule dépend du contenu en protéines et, en particulier, des réseaux d'interactions protéine-protéine (IPP, également appelés interactomes). Les protéines ont la propriété générale de s'engager dans des assemblages macromoléculaires très variés, chacun ayant des fonctions bien distinctes. Par conséquent, identifier les IPP et les lier à des complexes particuliers est un enjeu crucial mais difficile en biologie. Cette problématique a été au cœur de mon travail de doctorat. Une première partie de mon travail est dédiée à l'amélioration d'une méthode existante pour capturer de nouvelles IPP dans le contexte de fonctions biologiques définies. Ce travail a été réalisé avec ERK1, un régulateur clé en aval de plusieurs voies de signalisation impliquées dans de nombreux cancers. Les nouveaux outils ont été testés dans le contexte de fonctions de ERK1 sensibles à deux molécules inhibitrices dans les cellules humaines HEK293T. Une interaction a été confirmée aux niveaux fonctionnel et moléculaire, ainsi qu’en utilisant une stratégie d'imagerie originale pour accéder à la dynamique des IPP dans les cellules vivantes. La deuxième partie de mon travail de doctorat est dédiée à l'établissement d'une méthodologie pionnière pour capturer les IPP endogènes établies par un complexe protéique dimérique spécifique dans les cellules humaines vivantes. Cette méthodologie couple la Complémentation de Fluorescence Bimoléculaire (BiFC) et les technologies démarquage par la biotine de proximité. Plus précisément, elle repose sur l’utilisation d’un petit anticorps (appelé aussi « nanobody ») dirigé contre le complexe BiFC et fusionné à la ligase biotine TurboID. Ces outils ont été établis avec les complexes TAZ/14-3-3e et TAZ/TEAD2, qui traduisent respectivement l'activité de la voie de signalisation Hippo dans le cytoplasme et le noyau. Notre approche a permis de capturer les interactomes spécifiques de ces deux complexes protéiques et d'identifier un nouveau régulateur clé du complexe TAZ/14-3-3e pour contrôler ses fonctions de prolifération cellulaire. Dans son ensemble, mon travail de doctorat a introduit deux méthodologies complémentaires pour déchiffrer les réseaux d'IPP au niveau de fonctions biologiques spécifiques ou pour un complexe protéique spécifique en contexte cellulaire vivant. Ces approches offrent une nouvelle dimension pour comprendre les fonctions des protéines et les interactomes sous-jacents dans des contextes cellulaires normaux ou pathologiques
Cell fate and fitness depend on the protein content, and in particular on the interaction networks (also called interactomes) connecting the different proteins. Proteins have the general property to engage in diverse and occasionally overlapping macromolecular assemblies, each serving distinct purposes. Therefore, identifying protein-protein interactions (PPIs) and linking them to complexes is a crucial yet challenging issue in biology. This issue was at the core of my PhD work. The first part of my work was dedicated to the improvement of an existing method for capturing novel PPIs in the context of defined biological functions. This work was established with ERK1, which is a key downstream regulator of several signaling pathways involved in many different cancers. The new tools were tested in the context of two different inhibitory molecules to capture drug-sensitive interactions of ERK1 in human HEK293T cells. One such interaction was confirmed at the functional and molecular levels, by using an original imaging strategy to access the PPI dynamics in live cells. The second part of my PhD work was dedicated to the establishment of a pioneer methodology to capture endogenous PPIs established by a specific dimeric protein complex in human live cells. This methodology couples Bimolecular Fluorescence Complementation (BiFC) and proximity biotin labelling technologies. More specifically, it is based on a GFP-nanobody directed toward the BiFC complex and fused to the TurboID biotin ligase. Tools were established to map TAZ/14-3-3 and TAZ/TEAD complexes interactome, which translate the activity of the Hippo signaling pathway in the cytoplasm and nucleus, respectively. Our approach allowed capturing specific interactomes of the two dimeric protein complexes and identifying a novel key regulator of TAZ/14-3-3 complexes in a cancer cell context. Collectively, my PhD work introduced two complementary methodologies for deciphering PPI networks in the context of specific biological functions or in the context of a specific protein complex in human live cells. These approaches provide a novel dimension for understanding protein functions and the underlying interactomes in normal or pathological cell contexts
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Lilliesköld, Anders. "Genomgång av Turbomin 100 : Förstudie och föreslagna förbättringar av undervisningsjetmotor Turbomin 100." Thesis, Mälardalens högskola, Akademin för innovation, design och teknik, 2010. http://urn.kb.se/resolve?urn=urn:nbn:se:mdh:diva-11195.

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ABSTRACT This project thesis has been written at the request of Mälardalens University, Västerås. The aeronautical engineering students at Mälardalens University and the pupils of Hässlö upper secondary school, all gets the opportunity to perform a computation lab with a real turbojet engine during their study. The goal of the lab from the University is that it should give the students applied experience from the theory part of which has been tought in the course “Aircraft Engine Technology”.                       The pupils of the Hässlö upper secondary school are performing simpler calculations from the measured values of the equipment. This turbojet engine is located at Hässlö airport in the premises of Hässlö upper seconday school. Since the installation 1989, the engine has lost both thrust and reliability. This makes the theoretical computations made by the students inaccurate. Computations don’t match up with measured values. Also if the engine is inoperational, that would affect the education adversely. The purpose of this project thesis is to find a suitable upgrade solution both economically and practically. The thesis was divided into three different bullet points: Find the costings to renovate the existing Turbomin 100 turbojet engine. Also to find a suitable upgrade of the presentation of the measuring instruments to better clarify the lab. Motivate the disadvantages and the benefints respectively. Find the costings to source new lab equipment matching the Turbomin 100 equipment and motivate why this would improve the lab. This purchase doesn’t need to be a purchase of an off-the-shelf solution, but can also imply the development of an inhouse solution. Motivate the disadvantages and the benefints respectively. Develop a new lab instruction which matching one of the choosen alternatives above. This study results in several solutions: Proposal 1: The existing Turbomin 100 has such a solid construction that only a few spare parts needs to be replaced to get its original characteristics back. The use of measure equipment from Campbell Scientific consisting of a datalogger and associated software makes the presentation possible on a computer, from which printing easily can be done. This type of presentation would improve the understanding amongst the students for where and why the measurements are being made in certain areas of the engine. Estimated price for this solution is: 46.060 kr Proposal 2: New lab equipment could consist of two different solutions. The first solution is to invest in two turbojet engines from JetCat with a thrust of 80N each. Having two engines would ensure the operations by having one operational and the other one as a spare when its time for the compulsory service after 50 hours of run time. This solution together with the above mentioned solution for measure equipment including pressure and temperature probes would cost around 104.300 kr.Another solution would be to invest in a complete engine and measure equipment from Turbine Technologies. Their turbojet engine comes in a test cabinet with all probes and instrument installed. Even a computer can be connected to get readings digitally. This makes it possible to print or even save the measured values. Quoted price for this solution is between 412.700 and 766.700 kr depending on solution. Recommended solution from above is Proposal 1 will the new lab instructions look like attachment H.
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Peiponen, K. E. (Kai-Erik). "Optical spectra analysis of turbid liquids." Doctoral thesis, University of Oulu, 2009. http://urn.fi/urn:isbn:9789514291685.

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Abstract This thesis is devoted to methods of analyzing optical spectra obtained from turbid liquids, i.e., liquids that are optically very thick and/or scatter light. Data for spectral analysis were obtained with a new, multifunction spectrophotometer developed for industrial liquid samples. One characteristic of the spectrophotometer is that spectral analysis methods can be implemented into the software. Here, the emphasis was on data inversion methods, particularly the Kramers-Kronig analysis and the maximum entropy method, which can be used to gain information on the wavelength-dependent complex refractive index of liquid samples. Relating to such characteristics as density and colour, the complex refractive index also helps to identify the species that form a liquid. The methods were applied to study the internal reflection of light from the prism-liquid interface of the probe and to analyze surface plasmon resonance spectra. This study provided new methods of investigating the optical properties of relatively difficult objects, like offset inks, and of assessing adhesion forces between ink and the substrate system. Another important part of the thesis was the exploration of spectral analysis methods to obtain optical properties of nanoparticles in a liquid matrix. Bounds for the optical properties of multi-component structures in a liquid were considered with the aid of Wiener bounds.
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Esmonde-White, Francis. "Robust spectroscopic quantification in turbid media." Thesis, McGill University, 2009. http://digitool.Library.McGill.CA:80/R/?func=dbin-jump-full&object_id=32512.

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This thesis explores four methods for improving quantitative diffuse reflectance spectroscopy in light scattering media. In the introduction theories of light propagation in scattering media, relevant instrumentation for measuring light scattering properties, spectral data processing methods, and spectroscopically active bioanalytes are outlined. Next, two novel instruments for practical scattering measurements, and two novel data processing techniques are presented. Finally, directions for future research into diffuse reflectance spectroscopy are suggested. A novel photon time-of-flight instrument is used to measure scattering coefficients in tandem with a portable diode spectrometer. Measured scattering coefficients are used to correct co-measured near infrared spectra for scattering and for improving quantification. Reduced scattering coefficients were measured with coefficients of variation of 11.6% at 850 nm and 14.1% at 905 nm. This allows practical correction of light scattering in point-spectra. Using scattering-correction, estimates of dye concentration were improved by 35%. A novel device imaging annular patterns is presented. This imaging instrument is used to measure reduced scattering coefficients and absorption coefficients. Reduced scattering coefficients were measured with a coefficient of variation of 12.6%, and absorption coefficients were measured with a coefficient of variation 50% lower than using traditional imaging methods. A novel method for using parsimony in the development of data processing methods using genetic algorithms is presented. Genetic algorithms have been used to identify spectroscopic data processing methods for complex samples. A
Cette thèse explore quatre méthodes pour l'amélioration de la spectroscopie de réflectance diffuse quantitative dans des milieux qui diffusent la lumière. En introduction, une description des théories de la propagation de la lumière dans des médias qui diffusent celle-ci, des instruments pour mesurer les propriétés de diffusion, des méthodes de traitement des données spectrales, et des bioanalytes avec activité optique est donné. Un nouvel appareil à «temps de vol de photon» est présenté. Cet instrument portatif est utilisé pour mesurer le coefficient de dispersion en tandem avec un spectromètre à diode portable. Les coefficients de diffusion mesurés sont ensuite utilisés pour corriger la dispersion dans les spectres infrarouges co-mesurée, ainsi que l'amélioration de la quantification. Les coefficients de dispersion ont été mesurés avec une variation de 11,6% à 850 nm et 14,1% à 905 nm. En prenant en compte la dispersion, les estimations de la concentration de teinture ont été améliorées de 35%. Un nouvel appareil utilisant les modes d'imagerie annulaire pour mesurer les coefficients de dispersion et d'absorption est présenté. Les coefficients de dispersion ont été mesurés avec un coefficient de variation de 12,6%, et les coefficients d'absorption ont été mesurés avec un coefficient de variation amélioré de 50% par rapport aux méthodes d'imagerie traditionnelle. Une nouvelle méthode pour améliorer l'utilisation des mesures de simplicité dans le développement de méthodes de traitement des données via des algorithmes génétiques est présentée. Les algorithmes génétiques ont été utilisés pour identifier les mét
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Doan, Thuy Kim Phuong. "Fonctionnement biogéochimique d'un barrage tropical : application au système turbide de Cointzio (Mexique)." Thesis, Grenoble, 2014. http://www.theses.fr/2014GRENU011/document.

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La qualité globale des eaux continentales (lacs et réservoirs) continue à se détériorer dans de nombreuses régions du Mexique. Le réservoir Cointzio, situé dans la partie sud du Plateau Central Mexicain, sur la ceinture “Trans-Mexicain Volcanique Belt » (TMVB), ne fait pas exception. Ce réservoir tropical turbide est un système monomictique chaud (surface = 6 km2, capacité = 66 Mm3, temps de séjour ~ 1 an). Il est stratégique pour l'approvisionnement en eau potable de la ville de Morelia, capitale de l'état du Michoacán, et pour l'irrigation en aval pendant la saison sèche. Le réservoir est menacé par l'accumulation des sédiments et des nutriments provenant d'eaux non traitées dans le bassin versant amont. La haute teneur en particules d'argile très fines et le manque d'installations de traitement de l'eau conduisent à de graves épisodes d'eutrophisation (jusqu'à 70 µg chl. a L-1) ainsi qu'à des périodes saisonnières de forte turbidité (profondeur de Secchi < 30 cm) et d'anoxie (de Mai à Octobre). Sur la base de mesures intensives de terrain réalisées en 2009 (échantillonnage dans le bassin versant, sédiments déposés, profils verticaux de l'eau, bilan entrées et sorties) nous avons présenté une étude intégrée du fonctionnement hydrodynamique et biogéochimique du réservoir Cointzio. Les profils verticaux de température (T), de concentration en sédiment en suspension (TSS), d'oxygène dissous (DO), de chlorophylle a, de carbone et de nutriments ont été utilisés pour évaluer les cycles internes au réservoir. Pour compléter l'analyse des données de terrain, nous avons examiné la capacité de différents modèles numériques 1DV (Aquasim modèle biogéochimique couplé avec le modèle de mélange k-ε) à (i) reproduire les principaux cycles biogéochimiques dans le réservoir Cointzio et (ii) préciser les scénarios de réduction des éléments nutritifs (P and N) pour limiter l'eutrophisation dans les prochaines décennies. Le modèle k-ε s'est avéré le plus robuste pour reproduire les conditions hydrodynamiques, en particulier la stratification modérée liée à la très grande turbidité et au régime soutenu de vent thermique. Le modèle Aquasim s'est avéré pertinent pour reproduire les principaux cycles de l'oxygène dissous DO, des nutriments et de la chlorophylle a au cours de l'année 2009. Les différentes simulations ont souligné l'impact négatif à long terme du réchauffement climatique. A la fin du siècle (2090), une augmentation de la température de l'air atteignant 4.4° C a été prédite à partir de modèles de circulation mondiale. Couplé avec une année hydrologique sèche, une telle situation pourrait conduire à des conditions anoxiques sévères et à des blooms importants de chlorophylle a (jusqu'à de 94 µg L-1). Diverses simulations ont montré que la réduction drastique de l'apport de nutriments (à 90%) serait nécessaire pour réduire de façon significative les teneurs en chlorophylle a. Si de telles mesures d'atténuation sont adoptées, le pic maximal de chlorophylle a se stabiliserait à 40 µg L-1, au lieu de 94 mg L-1, après une période de cinq ans d'efforts. À notre connaissance, cette étude fournit la première application numérique de modèles k-ε et AQUASIM pour simuler les niveaux d'eutrophisation élevés dans un réservoir tropical très turbide
La qualité globale des eaux continentales (lacs et réservoirs) continue à se détériorer dans de nombreuses régions du Mexique. Le réservoir Cointzio, situé dans la partie sud du Plateau Central Mexicain, sur la ceinture “Trans-Mexicain Volcanique Belt » (TMVB), ne fait pas exception. Ce réservoir tropical turbide est un système monomictique chaud (surface = 6 km2, capacité = 66 Mm3, temps de séjour ~ 1 an). Il est stratégique pour l'approvisionnement en eau potable de la ville de Morelia, capitale de l'état du Michoacán, et pour l'irrigation en aval pendant la saison sèche. Le réservoir est menacé par l'accumulation des sédiments et des nutriments provenant d'eaux non traitées dans le bassin versant amont. La haute teneur en particules d'argile très fines et le manque d'installations de traitement de l'eau conduisent à de graves épisodes d'eutrophisation (jusqu'à 70 µg chl. a L-1) ainsi qu'à des périodes saisonnières de forte turbidité (profondeur de Secchi < 30 cm) et d'anoxie (de Mai à Octobre). Sur la base de mesures intensives de terrain réalisées en 2009 (échantillonnage dans le bassin versant, sédiments déposés, profils verticaux de l'eau, bilan entrées et sorties) nous avons présenté une étude intégrée du fonctionnement hydrodynamique et biogéochimique du réservoir Cointzio. Les profils verticaux de température (T), de concentration en sédiment en suspension (TSS), d'oxygène dissous (DO), de chlorophylle a, de carbone et de nutriments ont été utilisés pour évaluer les cycles internes au réservoir. Pour compléter l'analyse des données de terrain, nous avons examiné la capacité de différents modèles numériques 1DV (Aquasim modèle biogéochimique couplé avec le modèle de mélange k-ε) à (i) reproduire les principaux cycles biogéochimiques dans le réservoir Cointzio et (ii) préciser les scénarios de réduction des éléments nutritifs (P and N) pour limiter l'eutrophisation dans les prochaines décennies. Le modèle k-ε s'est avéré le plus robuste pour reproduire les conditions hydrodynamiques, en particulier la stratification modérée liée à la très grande turbidité et au régime soutenu de vent thermique. Le modèle Aquasim s'est avéré pertinent pour reproduire les principaux cycles de l'oxygène dissous DO, des nutriments et de la chlorophylle a au cours de l'année 2009. Les différentes simulations ont souligné l'impact négatif à long terme du réchauffement climatique. A la fin du siècle (2090), une augmentation de la température de l'air atteignant 4.4° C a été prédite à partir de modèles de circulation mondiale. Couplé avec une année hydrologique sèche, une telle situation pourrait conduire à des conditions anoxiques sévères et à des blooms importants de chlorophylle a (jusqu'à de 94 µg L-1). Diverses simulations ont montré que la réduction drastique de l'apport de nutriments (à 90%) serait nécessaire pour réduire de façon significative les teneurs en chlorophylle a. Si de telles mesures d'atténuation sont adoptées, le pic maximal de chlorophylle a se stabiliserait à 40 µg L-1, au lieu de 94 mg L-1, après une période de cinq ans d'efforts. À notre connaissance, cette étude fournit la première application numérique de modèles k-ε et AQUASIM pour simuler les niveaux d'eutrophisation élevés dans un réservoir tropical très turbide
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Pour, Moghadam Parsa, and Kiarash Khaksa. "Underhåll av Turbomin 100." Thesis, Mälardalens högskola, Akademin för innovation, design och teknik, 2013. http://urn.kb.se/resolve?urn=urn:nbn:se:mdh:diva-21643.

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Abstract Students at Mälardalen University have long performed their lab on a small turbojet engine in the course Aircraft Engine Technology. Since 2011, the engine has been dysfunctional. This was due to lack of maintenance. Since the lab has been an important element in teaching, the University had decided to get the engine functional again. This thesis project has been a request of Mälardalen University. The task we were assigned to was: 1. To make the engine functional. 2. Make the engine and the measuring equipment mobile. 3. Writing a brief maintenance program, such as what needs to be done before and after engine start. After we got the engine functional and mobile along with the measuring equipment, we have also developed a simple maintenance program which we strongly recommend in order to avoid similar accidents in the future. We also made suggestions on how to upgrade the engine and optimize it performance. Date: 29 Maj 2013 Utfört vid/Carried out at: Mälardalens Högskola Handledare vid MDH/Advisor at MDH: Mirko Senkovski Examinator: / Examinator: Tommy Nygren
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Ducay, Rey Nann Mark Abaque. "Direct Detection of Aggregates in Turbid Colloidal Suspensions." Miami University / OhioLINK, 2015. http://rave.ohiolink.edu/etdc/view?acc_num=miami1439434385.

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Šedý, Jakub. "Turbo konvoluční a turbo blokové kódy." Master's thesis, Vysoké učení technické v Brně. Fakulta elektrotechniky a komunikačních technologií, 2011. http://www.nusl.cz/ntk/nusl-219287.

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The aim is to explain the Turbo convolutional and block turbo codes and decoding the secure message. The practical part focuses on the design of a demonstration program in Matlab. The work is divided into four parts. The first two deal with theoretical analysis of coding and decoding. The third section contains a description created a demonstration program that allows you to navigate the process of encoding and decoding. The fourth is devoted to simulation and performance of turbo codes.
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Gareau, Daniel S. "In vivo confocal microsopy in turbid media : a thesis /." Restricted access until December 2007 at:, 2006. http://content.ohsu.edu/u?/etd,161.

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Books on the topic "TurboID"

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Turbide, Rachel. Répertoire des familles Turbide et Turbis: Descendantes de Dominique Dithurbide et Marie-Anne Boudrot. Baie-Comeau: Editions R. Turbide, 1996.

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Bermúdez, Iván Cerdán. Turbio. Madrid, España: Huerga & Fierro Editores, 2014.

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Plomer, William. Turbott Wolfe. New York: Modern Library, 2003.

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Plomer, William. Turbott Wolfe. Oxford [Oxfordshire]: Oxford University Press, 1985.

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Plomer, William. Turbott Wolfe. San Diego: Harcourt Brace Jovanovich, 1987.

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Kotli͡ar, M. M. Turboty ahronoma. Simferopolʹ: "Tavrii͡a", 1986.

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Livmar, Pabsi. Teoremas turbios. San Juan, P.R: EDP University of Puerto Rico, Inc., 2018.

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Gu, Min, Xiaosong Gan, and Xiaoyuan Deng. Microscopic Imaging Through Turbid Media. Berlin, Heidelberg: Springer Berlin Heidelberg, 2015. http://dx.doi.org/10.1007/978-3-662-46397-0.

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Rojas, Gonzalo. Río turbio. Madrid: Hiperión, 1996.

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Rojas, Gonzalo. Río turbio. Valdivia [Chile]: El Kultrún/Barba de Palo, 1996.

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Book chapters on the topic "TurboID"

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Gryffroy, Lore, Joren De Ryck, Veronique Jonckheere, Sofie Goormachtig, Alain Goossens, and Petra Van Damme. "Cataloguing Protein Complexes In Planta Using TurboID-Catalyzed Proximity Labeling." In Methods in Molecular Biology, 311–34. New York, NY: Springer US, 2023. http://dx.doi.org/10.1007/978-1-0716-3327-4_26.

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Artan, Murat, and Mario de Bono. "Proteomic Analysis of C. Elegans Neurons Using TurboID-Based Proximity Labeling." In Neuromethods, 277–94. New York, NY: Springer US, 2022. http://dx.doi.org/10.1007/978-1-0716-2321-3_15.

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Li, Yuanyuan, Yongliang Zhang, and Savithramma P. Dinesh-Kumar. "TurboID-Based Proximity Labeling: A Method to Decipher Protein–Protein Interactions in Plants." In Methods in Molecular Biology, 257–72. New York, NY: Springer US, 2023. http://dx.doi.org/10.1007/978-1-0716-3485-1_19.

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Lin, Danni, Jiayi Kuang, and Caiji Gao. "Identification of Neighboring Proteins of Endosomal Regulators by Using TurboID-Based Proximity Labeling." In Methods in Molecular Biology, 121–30. New York, NY: Springer US, 2024. http://dx.doi.org/10.1007/978-1-0716-4059-3_11.

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Gooch, Jan W. "Turbid." In Encyclopedic Dictionary of Polymers, 774. New York, NY: Springer New York, 2011. http://dx.doi.org/10.1007/978-1-4419-6247-8_12215.

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Person-Le Ruyet, Jeannine. "Turbot Culture." In Practical Flatfish Culture and Stock Enhancement, 123–39. Oxford, UK: Wiley-Blackwell, 2010. http://dx.doi.org/10.1002/9780813810997.ch7.

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Richards-Kortum, Rebecca. "Fluorescence Spectroscopy of Turbid Media." In Optical-Thermal Response of Laser-Irradiated Tissue, 667–707. Boston, MA: Springer US, 1995. http://dx.doi.org/10.1007/978-1-4757-6092-7_20.

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Wu, Zining. "Turbo Codes and Turbo Equalization." In Coding and Iterative Detection for Magnetic Recording Channels, 21–46. Boston, MA: Springer US, 2000. http://dx.doi.org/10.1007/978-1-4615-4565-1_2.

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King, B., and E. Wolanski. "Bottom friction reduction in turbid estuaries." In Mixing in Estuaries and Coastal Seas, 325–37. Washington, D. C.: American Geophysical Union, 1996. http://dx.doi.org/10.1029/ce050p0325.

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Matousek, Pavel. "Subsurface Raman Spectroscopy in Turbid Media." In Infrared and Raman Spectroscopic Imaging, 541–60. Weinheim, Germany: Wiley-VCH Verlag GmbH & Co. KGaA, 2014. http://dx.doi.org/10.1002/9783527678136.ch13.

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Conference papers on the topic "TurboID"

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Zubiaga Elordieta, Ana Mari, Jone Mitxelena Sánchez, James D. Sutherland, and Ekaitz Madariaga Carrero. "Gertuko biotinilazioa E2F7 transkripzio faktorearen interaktoma deskribatzeko estrategia gisa: TurboID sistemaren garapena." In V. Ikergazte. Nazioarteko ikerketa euskaraz. Bilbao: UEU arg, 2023. http://dx.doi.org/10.26876/ikergazte.v.04.15.

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Mair, Andrea. "Bringing the ‘PL’ to Plants - Proximity labeling with TurboID as a new tool to study protein complexes and cellular proteomes in plants." In ASPB PLANT BIOLOGY 2020. USA: ASPB, 2020. http://dx.doi.org/10.46678/pb.20.989688.

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Taylor, Alexander H., Pavan Naik, Simon Nibler, and Nisar Al-Hasan. "Optimization of Variable Geometry Turbine Electric Turbocharger for a Heavy-Duty, On-Highway Fuel Cell." In ASME Turbo Expo 2023: Turbomachinery Technical Conference and Exposition. American Society of Mechanical Engineers, 2023. http://dx.doi.org/10.1115/gt2023-101224.

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Abstract An air compressor is a necessary component on fuel cell electric generators as fuel cells do not pull in air without an external intervention. There are many fuel cell air compression options, each with their own benefits and drawbacks, such as roots-style screw compressors, radial e-compressors, e-turbos with wastegate, and e-turbos with a variable geometry turbine (VTG). Turbocharger turbine wheels for internal combustion engine applications are optimized to maximize exhaust gas enthalpy extraction while limiting centrifugal forces in the blades. In the presence of high temperature exhaust gas, 950–1050° C for gasoline engines, material strength decreases, elasticity increases, and thus induced stresses must be reduced to prevent turbine failure or contact with the turbine housing. The proton exchange membrane fuel cell (PEMFC) exhaust gas temperature is significantly lower, in the range of 85–90° C, which enables more degrees of freedom in the design and thereby a higher thermodynamic efficiency of the turbine. This work proposes a variable geometry turbine specifically for the fuel cell environment, and compares system performance through 1-D simulations at a lower-power road load and rated power point, to i) baseline electric compressor (e-compressor), ii) electric turbo (e-turbo) with wastegate turbine, & iii) e-turbo with VTG designed for an IC engine environment. The VTG turbine optimized for fuel cell enthalpy harvesting has 13%-points higher efficiency at rated power compared to that of a typical ICE VTG, a relative increase of 23%. This study finds an optimized VTG e-turbo improves PEMFC efficiency at rated power by 3%, or 1.5%-points, compared to the e-compressor without a turbine.
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Jezequel, M. "Turbo4: a high bit-rate chip for turbo code encoding and decoding." In IEE Colloquium. Turbo Codes in Digital Broadcasting - Could it Double Capacity? IEE, 1999. http://dx.doi.org/10.1049/ic:19990784.

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Han, Wook-Shin, Jinsoo Lee, and Jeong-Hoon Lee. "Turboiso." In the 2013 international conference. New York, New York, USA: ACM Press, 2013. http://dx.doi.org/10.1145/2463676.2465300.

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Cizmar, Tomas. "Imaging through Turbid Media." In Computational Optical Sensing and Imaging. Washington, D.C.: OSA, 2014. http://dx.doi.org/10.1364/cosi.2014.cw1c.2.

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Wood, Michael F. G., Nirmalya Ghosh, Marika A. Wallenburg, Eduardo H. Moriyama, Shu-Hong Li, Richard D. Weisel, Brian C. Wilson, Ren-Ke Li, and I. Alex Vitkin. "Turbid polarimetry for tissue characterization." In European Conference on Biomedical Optics. Washington, D.C.: OSA, 2009. http://dx.doi.org/10.1364/ecbo.2009.7371_06.

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Wood, Michael F. G., Nirmalya Ghosh, Marika A. Wallenburg, Eduardo H. Moriyama, Shu-Hong Li, Richard D. Weisel, Brian C. Wilson, Ren-Ke Li, and I. Alex Vitkin. "Turbid polarimetry for tissue characterization." In European Conferences on Biomedical Optics, edited by Christian D. Depeursinge and I. Alex Vitkin. SPIE, 2009. http://dx.doi.org/10.1117/12.831744.

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Wang, Lihong V., and Qimin Shen. "Sonoluminescence tomography of turbid media." In BiOS '99 International Biomedical Optics Symposium, edited by Britton Chance, Robert R. Alfano, and Bruce J. Tromberg. SPIE, 1999. http://dx.doi.org/10.1117/12.356828.

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Dayton, A. L., and S. A. Prahl. "Turbid-polyurethane phantom for microscopy." In Biomedical Optics (BiOS) 2008, edited by Robert J. Nordstrom. SPIE, 2008. http://dx.doi.org/10.1117/12.764010.

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Reports on the topic "TurboID"

1

Jonkman, B. J., and M. L. ,. Jr Buhl. TurbSim User's Guide. Office of Scientific and Technical Information (OSTI), September 2006. http://dx.doi.org/10.2172/891594.

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Jonkman, B. J., and M. L. ,. Jr Buhl. TurbSim User's Guide. Office of Scientific and Technical Information (OSTI), September 2005. http://dx.doi.org/10.2172/15020326.

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Farr, Norman, Emmanuel Boss, Paul S. Hill, Brent Law, Timothy G. Milligan, John J. Trowbridge, and Chris R. Sherwood. Optical Data Transmission in a Turbid Environment. Fort Belvoir, VA: Defense Technical Information Center, September 2011. http://dx.doi.org/10.21236/ada557234.

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Milligan, Timothy G. Evolution of Particle Size in Turbid Discharge Plumes. Fort Belvoir, VA: Defense Technical Information Center, September 1999. http://dx.doi.org/10.21236/ada613280.

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Hill, Paul S., and Timothy G. Milligan. Evolution of Particle Size in Turbid Discharge Plumes. Fort Belvoir, VA: Defense Technical Information Center, September 1998. http://dx.doi.org/10.21236/ada537161.

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Hill, Paul S., and Timothy G. Milligan. Evolution of Particle Size in Turbid Discharge Plumes. Fort Belvoir, VA: Defense Technical Information Center, September 1997. http://dx.doi.org/10.21236/ada629421.

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Hill, Paul S. Evolution of particle size in turbid discharge plumes. Fort Belvoir, VA: Defense Technical Information Center, September 1999. http://dx.doi.org/10.21236/ada630881.

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Jonkman, B. J. Turbsim User's Guide: Version 1.50. Office of Scientific and Technical Information (OSTI), September 2009. http://dx.doi.org/10.2172/965520.

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Phillips, Lee, and David Fyfe. TURBID: A Routine for Generating Random Turbulent Inflow Data. Fort Belvoir, VA: Defense Technical Information Center, November 2011. http://dx.doi.org/10.21236/ada552556.

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Carder, Kendall L., and David K. Costello. Optical Variability and Bottom Classification in Turbid Waters: Phase II. Fort Belvoir, VA: Defense Technical Information Center, August 2002. http://dx.doi.org/10.21236/ada628344.

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