A Tutorial on Markov Renewal and Semi-Markov Proportional Hazards Model

Authors: Cuicizion, Eliuvish, Ri, Itsugo, Holmes, Elaine, Chern, Jawad

Subject Terms: Statistics - Applications, Statistics - Computation

Access URL: http://arxiv.org/abs/2502.03479

1H Nuclear Magnetic Resonance Spectroscopy Reveals Changes in Metabolic Phenotype Associated with Disease Stage in Patients with Chronic Venous Disease

Authors: Onida, Sarah ^{a, ∗}, Lees, Hannah J. ^{b, c}, Bergner, Richmond ^b, Shalhoub, Joseph ^a, Holmes, Elaine ^{b, d}, Davies, Alun H. ^a

Source: In European Journal of Vascular & Endovascular Surgery February 2025 69(2):325-333

Clinical prediction of wound re-epithelisation outcomes in non-severe burn injury using the plasma lipidome

Authors: Ryan, Monique J. ^{a, b}, Raby, Edward ^{c, d, e}, Masuda, Reika ^a, Lodge, Samantha ^{a, b}, Nitschke, Philipp ^a, Maker, Garth L. ^a, Wist, Julien ^{a, b, f}, Fear, Mark W. ^{g, h}, Holmes, Elaine ^{b, i}, Nicholson, Jeremy K. ^{a, j}, Gray, Nicola ^{a, b}, Whiley, Luke ^{a, b, ⁎}, Wood, Fiona M. ^{c, g, h, ⁎⁎}

Source: In Burns February 2025 51(1)

A Metabolome Wide Association Study of Fruit and Vegetable Consumption and Associations with Cardiovascular Disease Risk Factors: The International Study of Macro-/Micronutrients and Blood Pressure (INTERMAP) Study

Authors: Oude Griep, Linda M ^{1, 2, ⁎}, Chekmeneva, Elena ³, Van Horn, Linda ⁴, Chan, Queenie ², Daviglus, Martha L ⁵, Frost, Gary ³, Holmes, Elaine ^{3, 6}, Ebbels, Timothy MD ³, Elliott, Paul ^{2, 7}

Source: In The Journal of Nutrition January 2025 155(1):122-131

Dried blood spot microsampling: A semi-quantitative 4D-lipidomics approach using ultrahigh-performance liquid chromatography - high-resolution mass spectrometry (UHPLC - HRMS)

Authors: Roberts, Jayden Lee ^{a, b, ⁎⁎}, Ryan, Monique J. ^{a, b}, Whiley, Luke ^{a, b}, Gay, Melvin ^c, Nambiar, Vimalnath ^{a, b}, Holmes, Elaine ^{a, b, d}, Nicholson, Jeremy K. ^{a, b, e, f}, Wist, Julien ^{a, b, g}, Gray, Nicola ^{a, b, ⁎⁎⁎}, Lawler, Nathan G. ^{a, b, ⁎}

Source: In Talanta 15 May 2025 287

Evaluation of tissue-specific extraction protocols for comprehensive lipid profiling

Authors: Hicks, Dana ^{a, b}, Ryan, Monique J. ^{a, b}, Allahham, Amira ^{c, d}, Barrett, Lucy W. ^c, Lee, Silvia ^e, Bartlett, Benjamin ^{e, f}, Ludewick, Herbert ^{g, h}, Ward, Natalie C. ⁱ, Loo, Ruey Leng ^{a, b}, Dwivedi, Girish ^{f, j, k}, Nicholson, Jeremy K. ^{a, b, f, l}, Wist, Julien ^{a, b, m}, Holmes, Elaine ^{a, b, n}, Gray, Nicola ^{a, b, ⁎}

Source: In Analytica Chimica Acta 15 April 2025 1347

Unravelling inulin molecules in food sources using a matrix-assisted laser desorption/ionization magnetic resonance mass spectrometry (MALDI-MRMS) pipeline

Authors: Chin, Sung-Tong, Boughton, Berin A., Gay, Melvin C.L., Russell, Alyce C., Wang, Yimin, Nambiar, Vimalnath, McHenry, Mark P., Holmes, Elaine, Nicholson, Jeremy K., Loo, Ruey Leng

Source: In Food Research International May 2024 184

Metabolome-wide association study on ABCA7 indicates a role of ceramide metabolism in Alzheimer’s disease

Authors: Dehghan, Abbas, Pinto, Rui Climaco, Karaman, Ibrahim, Huang, Jian, Durainayagam, Brenan R., Ghanbari, Mohsen, Nazeer, Areesha, Zhong, Qi, Liggi, Sonia, Whiley, Luke, Mustafa, Rima, Kivipelto, Miia, Solomon, Alina, Ngandu, Tiia, Kanekiyo, Takahisa, Aikawa, Tomonori, Radulescu, Carola I., Barnes, Samuel J., Graça, Gonçalo, Chekmeneva, Elena, Camuzeaux, Stephane, Lewis, Matthew R., Kaluarachchi, Manuja R., Ikram, M. Arfan, Holmes, Elaine, Tzoulaki, Ioanna, Matthews, Paul M., Griffin, Julian L., Elliott, Paul

Source: Proceedings of the National Academy of Sciences of the United States of America, 2022 Oct . 119(43), 1-12.

Access URL: https://www.jstor.org/stable/27208907

Metabolic Profiling Reveals Changes in Serum Predictive of Venous Ulcer Healing

Authors: Bergner, Richmond T., Onida, Sarah, Velineni, Rahul, Spagou, Konstantina, Gohel, Manjit S., Bouschbacher, Marielle, Bohbot, Serge, Shalhoub, Joseph, Holmes, Elaine, Davies, Alun H.

Source: Annals of surgery. 277(2):e467-e474

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100186826374.0x000001&indx=1&recIds=ETOCvdc_100186826374.0x000001

Effect of Operational Parameters on the Cultivation of the Gut Microbiome in Continuous Bioreactors Inoculated with Feces: A Systematic Review

Authors: Mendez, David Felipe García, Sanabria, Janeth, Wist, Julien, Holmes, Elaine

Source: Journal of agricultural and food chemistry. 71(16):6213-6225

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN632534508&indx=1&recIds=ETOCRN632534508

Comprehensive Lipidomic Workflow for Multicohort Population Phenotyping Using Stable Isotope Dilution Targeted Liquid Chromatography-Mass Spectrometry

Authors: Ryan, Monique J., James, Alanah Grant-St, Lawler, Nathan G., Fear, Mark W., Raby, Edward, Wood, Fiona M., Maker, Garth L., Wist, Julien, Holmes, Elaine, Nicholson, Jeremy K.

Source: Journal of proteome research. 22(5):1419-1433

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN632515283&indx=1&recIds=ETOCRN632515283

Urinary Metabolic Profiling of Liver Fluke-Induced Cholangiocarcinoma—A Follow-Up Study

Authors: Alsaleh, Munirah, Sithithaworn, Paiboon, Khuntikeo, Narong, Loilome, Watcharin, Yongvanit, Puangrat, Hughes, Thomas, O'Connor, Thomas, Andrews, Ross H., Wadsworth, Christopher A., Williams, Roger, Koomson, Larry, Cox, Isobel Jane, Holmes, Elaine, Taylor-Robinson, Simon D.

Source: Journal of clinical and experimental hepatology. 13(2):203-217

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100184914321.0x000001&indx=1&recIds=ETOCvdc_100184914321.0x000001

Lysophosphatidylcholines modulate immunoregulatory checkpoints in peripheral monocytes and are associated with mortality in people with acute liver failure

Authors: Trovato, Francesca M., Zia, Rabiya, Artru, Florent, Mujib, Salma, Jerome, Ellen, Cavazza, Anna, Coen, Muireann, Wilson, Ian, Holmes, Elaine, Morgan, Phillip, Singanayagam, Arjuna, Bernsmeier, Christine, Napoli, Salvatore, Bernal, William, Wendon, Julia, Miquel, Rosa, Menon, Krishna, Patel, Vishal C., Smith, John, Atkinson, Stephen R., Triantafyllou, Evangelos, McPhail, Mark J.W.

Source: Journal of hepatology. 78(3):558-573

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100183742194.0x000001&indx=1&recIds=ETOCvdc_100183742194.0x000001

Anti–Cholestatic Therapy with Obeticholic Acid Improves Short-Term Memory in Bile Duct–Ligated Mice

Authors: Gee, Lucy M.V., Barron-Millar, Ben, Leslie, Jack, Richardson, Claire, Zaki, Marco Y.W., Luli, Saimir, Burgoyne, Rachel A., Cameron, Rainie I.T., Smith, Graham R., Brain, John G., Innes, Barbara, Jopson, Laura, Dyson, Jessica K., McKay, Katherine R.C., Pechlivanis, Alexandros, Holmes, Elaine, Berlinguer-Palmini, Rolando, Victorelli, Stella, Mells, George F., Sandford, Richard N., Palmer, Jeremy, Kirby, John A., Kiourtis, Christos, Mokochinski, Joao, Hall, Zoe, Bird, Thomas G., Borthwick, Lee A., Morris, Christopher M., Hanson, Peter S., Jurk, Diana, Stoll, Elizabeth A., LeBeau, Fiona E.N., Jones, David E.J., Oakley, Fiona

Source: American journal of pathology. 193(1):11-26

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100177888700.0x000001&indx=1&recIds=ETOCvdc_100177888700.0x000001

Plasma lipoprotein subclass variation in middle-aged and older adults: Sex-stratified distributions and associations with health status and cardiometabolic risk factors

Authors: Masuda, Reika, Wist, Julien, Lodge, Samantha, Kimhofer, Torben, Hunter, Michael, Hui, Jennie, Beilby, John P., Burnett, John R., Dwivedi, Girish, Schlaich, Markus P., Bong, Sze-How, Loo, Ruey Leng, Holmes, Elaine, Nicholson, Jeremy K., Yeap, Bu B.

Source: In Journal of Clinical Lipidology September-October 2023 17(5):677-687

Targeted lipidomics coupled with machine learning for authenticating the provenance of chicken eggs

Authors: Chin, Sung-Tong ^a, Hoerlendsberger, Gerhard ^b, Wong, Kok Wai ^b, Li, Sirui ^b, Bong, Sze How ^a, Whiley, Luke ^{a, c}, Wist, Julien ^{a, c}, Masuda, Reika ^{a, c}, Greeff, Johan ^d, Holmes, Elaine ^{a, c, e}, Nicholson, Jeremy K. ^{a, c}, Loo, Ruey Leng ^{a, c, ⁎}

Source: In Food Chemistry 1 June 2023 410

Enhancing the accuracy of surgical wound excision following burns trauma via application of Rapid Evaporative IonisationMass Spectrometry (REIMS)

Authors: Yau, Andrew, Fear, Mark W, Gray, Nicola, Ryan, Monique, Holmes, Elaine, Nicholson, Jeremy K, Whiley, Luke, Wood, Fiona M

Source: In Burns November 2022 48(7):1574-1583

Characterization of diet-dependent temporal changes in circulating short-chain fatty acid concentrations: A randomized crossover dietary trial

Authors: Brignardello, Jerusa, Fountana, Sofia, Posma, Joram Matthias, Chambers, Edward S, Nicholson, Jeremy K, Wist, Julien, Frost, Gary, Garcia-Perez, Isabel, Holmes, Elaine ^*

Source: In The American Journal of Clinical Nutrition November 2022 116(5):1368-1378

Tryptophan-metabolizing gut microbes regulate adult neurogenesis via the aryl hydrocarbon receptor

Authors: Wei, George Zhang, Martin, Katherine A., Xing, Peter Yuli, Agrawal, Ruchi, Whiley, Luke, Wood, Thomas K., Hejndorf, Sophia, Ng, Yong Zhi, Low, Jeremy Zhi Yan, Rossant, Janet, Nechanitzky, Robert, Holmes, Elaine, Nicholson, Jeremy K., Tan, Eng-King, Matthews, Paul M., Pettersson, Sven

Source: Proceedings of the National Academy of Sciences of the United States of America, 2021 Jul 01. 118(27), 1-10.

Access URL: https://www.jstor.org/stable/27052401

Overview of the Nomenclature and Network of Contributors to the Development of Bioreactors for Human Gut Simulation Using Bibliometric Tools: A Fragmented Landscape

Authors: Sanabria, Janeth, Egan, Siobhon, Masuda, Reika, Lee, Alex J., Gibson, Glenn R., Nicholson, Jeremy K., Wist, Julien, Holmes, Elaine

Source: Journal of agricultural and food chemistry. 70(37):11458-11467

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN630273832&indx=1&recIds=ETOCRN630273832