Institute of Psychiatry, Psychology & Neuroscience

2025

Machine-learning for photoplethysmography analysis: Benchmarking feature, image, and signal-based approaches

Moulaeifard, M., Coquelin, L., Rinkevičius, M., Sološenko, A., Pfeffer, O., Bench, C., Hegemann, N., Vardanega, S., Nandi, M., Alastruey, J., Heiss, C., Marozas, V., Thompson, A., Aston, P. J., Charlton, P. H. & Strodthoff, N., 27 Feb 2025.

Research output: Working paper/Preprint › Preprint

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7 Downloads (Pure)

RelCAT: Advancing Extraction of Clinical Inter-Entity Relationships from Unstructured Electronic Health Records

Agarwal, S., Dinu, V., Searle, T., Ratas, M., Shek, A., Stein, D. F., Teo, J. & Dobson, R., 27 Jan 2025.

Research output: Working paper/Preprint › Preprint

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8 Downloads (Pure)

Zero-phase-delay connectivity increases the reliability, concordance with structure, and prognostic ability of functional connectivity metrics

Mehra, C., Beyh, A., Laiou, P., Garces, P., Murphy, D., Loth, E., Dell' Acqua, F., Ewen, J. B., Richardson, M. & O'Muircheartaigh, J., 4 Jan 2025.

Research output: Working paper/Preprint › Preprint

Open Access

2024

Adverse Mental Health Outcomes and Alcohol Misuse Among UK Armed Forces Personnel: A 20-Year Cohort Study of Military Personnel Who Served During the Iraq and Afghanistan Conflicts

Sharp, M.-L., Stone, J., Greenberg, N., Murphy, D., MacManus, D., Wessely, S., Stevelink, S. A. M., Fear, N. T., Jones, M., Franchini, S., Leal, R., Hull, L., Molloy, N., Burdett, H., Leightley, D. & Simms, A., 13 Dec 2024, (THELANCETPUBLICHEALTH-D-24-01983).

Research output: Working paper/Preprint › Preprint

A methodological framework and exemplar protocol for the collection and analysis of repeated speech samples

Cummins, N., White, L. L., Rahman, Z., Lucas, C., Pan, T., Carr, E., Matcham, F., Downs, J., Dobson, R. J., Quatieri, T. F. & Dineley, J., 11 Jun 2024, 37 p.

Research output: Working paper/Preprint › Preprint

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80 Downloads (Pure)

Cross-ancestry genetic investigation of schizophrenia, cannabis use disorder, and tobacco smoking

Johnson, E. C., Austin-Zimmerman, I., Thorpe, H. H., Levey, D. F., Baranger, D. A., Colbert, S. M., Demontis, D., Khokhar, J. Y., Davis, L. K., Edenberg, H. J., Forti, M. D., Sanchez-Roige, S., Gelernter, J. & Agrawal, A., 18 Jan 2024, MedRxiv.

Research output: Working paper/Preprint › Preprint

Deciphering seasonal depression variations and interplays between weather changes, physical activity, and depression severity in real-world settings: Learnings from RADAR-MDD longitudinal mobile health study

Zhang, Y., Folarin, A. A., Ranjan, Y., Cummins, N., Rashid, Z., Conde, P., Stewart, C., Sun, S., Vairavan, S., Matcham, F., Oetzmann, C., Siddi, S., Lamers, F., Simblett, S., Wykes, T., Mohr, D. C., Haro, J. M., Penninx, B. W. J. H., Narayan, V. A. & Hotopf, M. & 3 others, Dobson, R. J. B., Pratap, A. & consortium, R.-C., 17 Apr 2024.

Research output: Working paper/Preprint › Preprint

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98 Downloads (Pure)

Framework to generate perfusion map from CT and CTA images in patients with acute ischemic stroke: A longitudinal and cross-sectional study

Tangwiriyasakul, C., Borges, P., Moriconi, S., Wright, P., Mah, Y.-H., Teo, J., Nachev, P., Ourselin, S. & Cardoso, M. J., 5 Apr 2024.

Research output: Working paper/Preprint › Preprint

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25 Downloads (Pure)

Human cortex development is shaped by molecular and cellular brain systems

IMAGEN Consortium, 10 Aug 2024, (E-pub ahead of print) bioRxiv.

Research output: Working paper/Preprint › Preprint

Improving Extraction of Clinical Event Contextual Properties from Electronic Health Records: A Comparative Study

Agarwal, S., Searle, T., Ratas, M., Shek, A., Teo, J. & Dobson, R., 30 Aug 2024.

Research output: Working paper/Preprint › Preprint

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34 Downloads (Pure)

Localising the Seizure Onset Zone from Single-Pulse Electrical Stimulation Responses with a CNN Transformer

Norris, J., Chari, A., Blooijs, D. V., Cooray, G., Friston, K., Tisdall, M. & Rosch, R., 29 Dec 2024.

Research output: Working paper/Preprint › Preprint

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Multiscale characterization of cortical signatures in positive and negative schizotypy: A worldwide ENIGMA study

Kirschner, M., Hodzic-Santor, B., Kennedy, L., Hansen, J. Y., Antoniades, M., Nenadic, I., Kircher, T., Krug, A., Meller, T., Dannlowski, U., Grotegerd, D., Flinkenfluegel, K., Meinert, S., Borgers, T., Goltermann, J., Hahn, T., Boehnlein, J., Leehr, E. J., Barkhau, C. & Fornito, A. & 24 others, Arnatkeviciute, A., Bellgrove, M., Tiego, J., DeRosse, P., Green, M., Quide, Y., Pantelis, C., Chan, R. C. K., Wang, Y., Ettinger, U., Debbane, M., Derome, M., Gaser, C., Besteher, B., Diederen, K., Spencer, T. J., Houenou, J., Pomarol-Clotet, E., Salvador, R., Roessler, W., Smigielski, L., Kumari, V., Premkumar, P. & Kirschner, M., 2024.

Research output: Working paper/Preprint › Preprint

predicTTE: An accessible and optimal tool for time-to-event prediction in neurological diseases

Weinreich, M., McDonough, H., Yacovzada, N., Magen, I., Cohen, Y., Harvey, C., Gornall, S., Boddy, S., Alix, J., Mohseni, N., Kurz, J. M., Kenna, K. P., Zhang, S., Iacoangeli, A., Al-Khleifat, A., Snyder, M. P., Hobson, E., Al-Chalabi, A., Hornstein, E. & Elhaik, E. & 3 others, Shaw, P. J., McDermott, C. & Cooper-Knock, J., 23 Jul 2024, (bioRxiv : the preprint server for biology).

Research output: Working paper/Preprint › Preprint

Sex-specific DNA methylation differences in Amyotrophic lateral sclerosis

Grant, O. A., Iacoangeli, A., Zwamborn, R. A. J., van Rheenen, W., Byrne, R., Van Eijk, K. R., Kenna, K., van Vugt, J. J. F. A., Cooper-Knock, J., Kenna, B., Vural, A., Topp, S., Campos, Y., Weber, M., Smith, B., Dobson, R., van Es, M. A., Vourc’h, P., Corcia, P. & de Carvalho, M. & 19 others, Gotkine, M., Panades, M. P., Mora, J. S., Mill, J., Garton, F., McRae, A., Wray, N. R., Shaw, P. J., Landers, J. E., Glass, J. D., Shaw, C. E., Basak, N., Hardiman, O., Van Damme, P., McLaughlin, R. L., van den Berg, L. H., Veldink, J. H., Al-Chalabi, A. & Al Khleifat, A., 25 Nov 2024, (Unpublished).

Research output: Working paper/Preprint › Preprint

Sex-specific risk loci and modified MEF2C expression in ALS

Byrne, R. P., van Rheenen, W., Gomes, T., Al Khleifat, A., Iacoangeli, A., Al-Chalabi, A., Veldink, J. & Maclaughlin, R., 27 May 2024.

Research output: Working paper/Preprint › Preprint

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Strikingly different neurotransmitter release strategies in dopaminergic subclasses

Dorrego-Rivas, A., Byrne, D., Liu, Y., Cheah, M., Arslan, C., Lipovsek, M., Ford, M. & Grubb, M., 21 Nov 2024, bioRxiv.

Research output: Working paper/Preprint › Preprint

Open Access

Transcriptional and neurochemical signatures of cerebral blood flow alterations in schizophrenia and the clinical high-risk state for psychosis

Knight, S., Abbasova, L., Zeighami, Y., Hansen, J. Y., Martins, D., Zelaya, F., Dipasquale, O., Liu, T., Shin, D., Bossong, M., Azis, M., Antoniades, M., Howes, O., Bonoldi, I., Egerton, A., Allen, P., O'Daly, O., McGuire, P. & Modinos, G., 14 Mar 2024.

Research output: Working paper/Preprint › Preprint

Open Access

Understanding the experiences of family, friends and carers attending Recovery Colleges: a focus group study

Bowness, B., Henderson, C., Lawrence, V., Kellermann, V., B , S. & Samuels, L., Dec 2024, (In preparation) BJPsychOpen: Cambridge: Cambridge University Press.

Research output: Working paper/Preprint › Preprint

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Understanding ‘Pathological Demand Avoidance’ in children and adults: A scoping review protocol.

Lack, O., Griffin, A., Simonoff, E. & Happe, F., 2024, PsyArXiv, 27 p.

Research output: Working paper/Preprint › Preprint

2023

Cohort profile: working age adults accessing secondary mental healthcare services in South London (UK) and benefits – a data linkage of electronic mental healthcare records and benefits data

Phillips, A., 19 Oct 2023.

Research output: Working paper/Preprint › Preprint

Ethnic inequalities among NHS staff in England - workplace experiences during the COVID-19 pandemic

Rhead, R., Harber-Aschan, L., Onwumere, J., Polling, C., Dorrington, S., Ehsan, A., Stevelink, S. A. M., Khunti, K., Mir, G., Morriss, R., Wessely, S., Woodhead, C. & Hatch, S. L., 15 Apr 2023, MedRxiv.

Research output: Working paper/Preprint › Preprint

Home-based transcranial direct current stimulation RCT in major depression

Woodham, R. D., Selvaraj, S., Lajmi, N., Hobday, H., Sheehan, G., Ghazi-Noori, A.-R., Lagerberg, P. J., Rizvi, M., Kwon, S. S., Orhii, P., Maislin, D., Hernandez, L., Machado-Vieira, R., Soares, J. C., Young, A. H., Fu, C. H. & Fu, C. H., 2023.

Research output: Working paper/Preprint › Preprint

Longitudinal Assessment of Seasonal Impacts and Depression Associations on Circadian Rhythm Using Multimodal Wearable Sensing

Zhang, Y., Folarin, A. A., Sun, S., Cummins, N., Ranjan, Y., Rashid, Z., Stewart, C., Conde, P., Sankesara, H., Laiou, P., Matcham, F., White, K. M., Oetzmann, C., Lamers, F., Siddi, S., Simblett, S., Vairavan, S., Myin-Germeys, I., Mohr, D. C. & Wykes, T. & 7 others, Haro, J. M., Annas, P., Penninx, B. W., Narayan, V. A., Hotopf, M., Dobson, R. J. & consortium, R.-C., 5 Dec 2023.

Research output: Working paper/Preprint › Preprint

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Maternal Depressive Symptoms and Risk for Childhood Depression: Role of Executive Functions

Han, M. X., Wang, N., Kee, M. Z. L., Nadarajan, R., Lim, S., Sagar, Y. K., Chow, B., Tan, A. P., Cheon, B. K., Ang, Y.-S., Zhou, J. H., Chen, H., Chong, Y. S., Gluckman, P. D., Meaney, M. J. & Law, E., 8 May 2023, SSRN, 22 p.

Research output: Working paper/Preprint › Preprint

The IceCube-Gen2 Collaboration -- Contributions to the 38th International Cosmic Ray Conference (ICRC2023)

The IceCube Gen2 Collaboration, Adams, J., Amin, N. M., Bai, X., Bishop, A., Chattopadhyay, S., Chen, C., Chen, Z., Choi, S., Clark, B. A., Clark, R., Coleman, A., Dasgupta, B., Deng, S., Desai, A., Evans, J., Evans, J., Fischer, L., Fritz, A. & Gallagher, J. & 37 others, Gray, S. J., Griffin, S., Hill, C., Hughes, K., Hussain, R., Jones, B. J. P., Katori, T., Klein, S. R., Kumar, A., Lee, J. W., Liu, Q. R., Lu, L., Mahn, K. B. M., Meagher, K., Mitchell, J., Moore, R. W., Peterson, J., Roberts, E. J., Robertson, S., Sarkar, S., Sarkar, S., Schmidt, T., Schumacher, L., Sharma, A., Smith, D., Thompson, W. G., Torres, J., Tung, C. F., Upadhyay, A. K., Williams, D. R., Wolf, A., Xu, X. W., Yoshida, S., Young, R., Yu, F., Yu, S. & Zhang, Z., 24 Jul 2023.

Research output: Working paper/Preprint › Preprint

Updated T2K measurements of muon neutrino and antineutrino disappearance using 3.6 $\times$ 10$^{21}$ protons on target

The T2K Collaboration, Ali, A., Barker, G. J., Blondel, A., Carter, A. J., Cartwright, S. L., Coleman, J., Cook, L., Dasgupta, P., Lodovico, F. D., Doyle, T. A., Finch, A. J., Harris, D. A., Jenkins, S. J., Jiang, J. J., Joshi, S., Katori, T., King, S., Kodama, S. & Latham, N. & 34 others, Lee, Y., Lin, C., Lin, S.-K., Liu, S. L., Li, W., Long, K. R., Moreno, A. L., Lu, X., Mahn, K., Martin, D. G. R., Martini, M., Martin, J. F., Mauger, C., Mehta, P., Miller, E., Morrison, P., Nguyen, V. Q., O'Sullivan, L., Payne, D., Ramírez, M. A., Scott, M., Suzuki, A., Thompson, L. F., Walsh, J. G., Wang, Y., Weber, A., Wilson, J. R., Xia, J., Yamamoto, K., Yamamoto, T., Yu, M., Zhao, X., Zhu, T. & Zsoldos, S., 17 May 2023, 7 ed., Physical Review D.

Research output: Working paper/Preprint › Preprint

Open Access

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2022

ASCL1 interacts with the mSWI/SNF at distal regulatory elements to regulate neural differentiation

Dias, C., Paun, O., Tan, Y. X., Patel, H., Cobolli-Gigli, C. & Guillemot, F., 9 Oct 2022, bioRxiv.

Research output: Working paper/Preprint › Preprint

A spatialised agent-based model of NOTCH signalling pathway in Endothelial Cells predicts emergent heterogeneity due to continual dynamic phenotypic adjustments

Engstler, E., Veschini, L., Chesnais, F., Battilocchi, M., Danovi, D., Sego, T. & Glazier, J., 2022.

Research output: Working paper/Preprint › Preprint

Associations between depression symptom severity and daily-life gait characteristics derived from long-term acceleration signals in real-world settings

Zhang, Y., Folarin, A. A., Sun, S., Cummins, N., Vairavan, S., Qian, L., Ranjan, Y., Rashid, Z., Conde, P., Stewart, C., Laiou, P., Sankesara, H., Matcham, F., White, K. M., Oetzmann, C., Ivan, A., Lamers, F., Siddi, S., Simblett, S. & Rintala, A. & 10 others, Mohr, D. C., Myin-Germeys, I., Wykes, T., Haro, J. M., Penninx, B. W., Narayan, V. A., Annas, P., Hotopf, M., Dobson, R. J. & consortium, R.-C., 29 Jan 2022.

Research output: Working paper/Preprint › Preprint

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A systematic review and meta-analysis of structural and functional brain alterations in individuals with genetic and clinical high-risk for psychosis and bipolar disorder.

Fusar-Poli, P., 19 Feb 2022, (Accepted/In press) Progress in Neuropsychopharmacology & Biological Psychiatry.

Research output: Working paper/Preprint › Preprint

Automatic Detection of Expressed Emotion from Five-Minute Speech Samples: Challenges and Opportunities

Mirheidari, B., Bittar, A., Cummins, N., Downs, J., Fisher, H. L. & Christensen, H., 30 Mar 2022.

Research output: Working paper/Preprint › Preprint

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Completeness and consistency of ethnicity categorisations in administrative data: A comparison between linked health and education datasets

Wickersham, A., Das-Munshi, J., Ford, T., Stewart, R. & Downs, J., 2022.

Research output: Working paper/Preprint › Preprint

Exploring the use of synthetic placebo populations in ALS randomized clinical trials

Bowles, H., Opie-Martina, S., Shojaiea, A., Libonatib, L., Iacoangelia, A. & Al Khleifat, A., 2022.

Research output: Working paper/Preprint › Preprint

Fast Unsupervised Brain Anomaly Detection and Segmentation with Diffusion Models

Pinaya, W. H. L., Graham, M. S., Gray, R., Costa, P. F. D., Tudosiu, P.-D., Wright, P., Mah, Y. H., MacKinnon, A. D., Teo, J. T., Jager, R., Werring, D., Rees, G., Nachev, P., Ourselin, S. & Cardoso, M. J., 7 Jun 2022.

Research output: Working paper/Preprint › Preprint

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206 Downloads (Pure)

Foresight -- Deep Generative Modelling of Patient Timelines using Electronic Health Records

Kraljevic, Z., Bean, D., Shek, A., Bendayan, R., Yeung, J. A., Deng, A., Baston, A., Ross, J., Idowu, E., Teo, J. T. & Dobson, R. J., 13 Dec 2022.

Research output: Working paper/Preprint › Preprint

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258 Downloads (Pure)

Hospital-wide Natural Language Processing summarising the health data of 1 million patients

Bean, D., Kraljevic, Z., Shek, A., Teo, J. T., Dobson, R. & Bean, D., 16 Sept 2022.

Research output: Working paper/Preprint › Preprint

m6A reader Pho92 is recruited co-transcriptionally and couples translation efficacy to mRNA decay to promote meiotic fitness in yeast

Ule, J., Varier, R. A., Sideri, T., Capitanchik, C., Manova, Z., Calvani, E., Rossi, A., Edupuganti, R., Ensinck, I., Chan, V. W. C., Patel, H., Kirkpatrick, J., Faull, P. A., Snijders, A. P., Vermeulen, M., Ralser, M., Luscombe, N. M. & van Werven, F. J., 1 Jan 2022, Cold Spring Harbor Laboratory Press.

Research output: Working paper/Preprint › Preprint

Monai: An open-source framework for deep learning in healthcare

Cardoso, M. J., Li, W., Brown, R., Ma, N., Kerfoot, E., Wang, Y., Murrey, B., Myronenko, A., Zhao, C., Yang, D., Nath, V., He, Y., Xu, Z., Hatamizadeh, A., Myronenko, A., Zhu, W., Liu, Y., Zheng, M., Tang, Y. & Yang, I. & 37 others, Zephyr, M., Hashemian, B., Alle, S., Darestani, M. Z., Budd, C., Modat, M., Vercauteren, T., Wang, G., Li, Y., Hu, Y., Fu, Y., Gorman, B., Johnson, H., Genereaux, B., Erdal, B. S., Gupta, V., Diaz-Pinto, A., Dourson, A., Maier-Hein, L., Jaeger, P. F., Baumgartner, M., Kalpathy-Cramer, J., Flores, M., Kirby, J., Cooper, L. A. D., Roth, H. R., Xu, D., Bericat, D., Floca, R., Zhou, S. K., Shuaib, H., Farahani, K., Maier-Hein, K. H., Aylward, S., Dogra, P., Ourselin, S. & Feng, A., 4 Nov 2022.

Research output: Working paper/Preprint › Preprint

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Scintillator ageing of the T2K near detectors from 2010 to 2021

T2K Collaboration, Collaboration, T. T., Abe, K., Akhlaq, N., Akutsu, R., Ali, A., Alt, C., Andreopoulos, C., Barker, G. J., Blondel, A., Carter, A. J., Cartwright, S. L., Coleman, J., Cook, L., Lodovico, F. D., Doyle, T. A., Finch, A. J., Harris, D. A., Jenkins, S. J. & Jiang, J. J. & 31 others, Katori, T., King, S., Knight, A., Latham, N., Lee, Y., Lin, C., Lin, S.-K., Liu, S. L., Long, K. R., Lu, X., Mahn, K., Martin, D. G. R., Martini, M., Martin, J. F., Mauger, C., Nguyen, V. Q., O'Sullivan, L., Payne, D., Scott, M., Suzuki, A., Thompson, L. F., Walsh, J. G., Wang, Y., Weber, A., Wilson, J. R., Xia, J., Yamamoto, K., Yu, M., Zhao, X., Zhu, T. & Zsoldos, S., 26 Jul 2022.

Research output: Working paper/Preprint › Preprint

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SEN support from the start of school and its impact on unplanned hospital utilisation in children with cleft lip and palate: a demonstration target trial emulation protocol using ECHILD

Nguyen, V., Zylbersztejn, A., Harron, K., Ford, T., Black-Hawkins, K., Boddy, K., Downs, J., Doyle, M., Lilliman, M., Matthews, J., Logan, S., Rahi, J., Gilbert, R., Dearden, L. & De Stavola, B. L. L., 2022.

Research output: Working paper/Preprint › Preprint

Summarisation of Electronic Health Records with Clinical Concept Guidance

Searle, T., Ibrahim, Z., Teo, J. & Dobson, R., 14 Nov 2022.

Research output: Working paper/Preprint › Preprint

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2021

Distinct brainstem to spinal cord noradrenergic pathways differentially regulate spinal neuronal activity

Kucharczyk, M., Di Domenico, F. & Bannister, K., 26 Sept 2021, bioRxiv.

Research output: Working paper/Preprint › Preprint

Open Access

Estimating Redundancy in Clinical Text

Searle, T., Ibrahim, Z., Teo, J. & Dobson, R. J., 25 May 2021.

Research output: Working paper/Preprint › Preprint

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Framing causal questions in life course epidemiology

De Stavola, B. L., Herle, M. & Pickles, A., 17 May 2021, ( arXiv).

Research output: Working paper/Preprint › Preprint

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Imaging synaptic microstructure and synaptic loss in vivo in early Alzheimers Disease

Venkataraman, A. V., Bishop, C., Mansur, A., Rizzo, G., Lewis, Y., Kocagoncu, E., Lingford-Hughes, A., Huiban, M., Passchier, J., Rowe, J., Tsukada, H., Brooks, D., Martarello, L., Comley, R., Chen, L., Hargreaves, R., Schwarz, A., Gunn, R., Rabiner, E. A. & Matthews, P. M. & 1 others, Matthews, P. M., 2021.

Research output: Working paper/Preprint › Preprint

MedGPT: Medical Concept Prediction from Clinical Narratives

Kraljevic, Z., Shek, A., Bean, D., Bendayan, R., Teo, J. & Dobson, R., 7 Jul 2021.

Research output: Working paper/Preprint › Preprint

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Predicting Depressive Symptom Severity through Individuals' Nearby Bluetooth Devices Count Data Collected by Mobile Phones: A Preliminary Longitudinal Study

Zhang, Y., Folarin, A. A., Sun, S., Cummins, N., Ranjan, Y., Rashid, Z., Conde, P., Stewart, C., Laiou, P., Matcham, F., Oetzmann, C., Lamers, F., Siddi, S., Simblett, S., Rintala, A., Mohr, D. C., Myin-Germeys, I., Wykes, T., Haro, J. M. & Pennix, B. W. & 4 others, Narayan, V. A., Annas, P., Hotopf, M. & Dobson, R. J., 26 Apr 2021.

Research output: Working paper/Preprint › Preprint

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Refining the Analysis of Multidimensional Psychometric Data: A Geometric Distance Approach

Joyce, D. W. & Meyer, N., 8 Oct 2021.

Research output: Working paper/Preprint › Preprint

The developing brain structural and functional connectome fingerprint

Ciarrusta, J., Christiaens, D., Fitzgibbon, S. P., Dimitrova, R., Hutter, J., Hughes, E., Duff, E., Price, A. N., Cordero-Grande, L., Tournier, J.-D., Rueckert, D., Hajnal, J. V., Arichi, T., McAlonan, G., Edwards, A. D. & Batalle, D., 10 Mar 2021, bioRxiv, (bioRxiv).

Research output: Working paper/Preprint › Preprint

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Widespread cell stress and mitochondrial dysfunction in early Alzheimers Disease

Venkataraman, A., Mansur, A., Rizzo, G., Bishop, C., Lewis, Y., Kocagoncu, E., Lingford-Hughes, A., Huiban, M., Passchier, J., Rowe, J., Tsukada, H., Brooks, D., Martarello, L., Comley, R. A., Chen, L., Schwarz, A. J., Hargreaves, R., Gunn, R. N., Rabiner, E. A. I. & Matthews, P. M., 2021.

Research output: Working paper/Preprint › Preprint

Institute of Psychiatry, Psychology & Neuroscience

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