Alexander Holmes

ORCID: 0009-0009-7012-6753
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About
Contact & Profiles
Research Areas
  • Functional Brain Connectivity Studies
  • Advanced Neuroimaging Techniques and Applications
  • Mental Health Research Topics
  • Health, Environment, Cognitive Aging
  • Energy, Environment, and Transportation Policies
  • Neural dynamics and brain function
  • Advanced Statistical Methods and Models
  • Bioinformatics and Genomic Networks
  • Cancer Genomics and Diagnostics
  • Energy, Environment, Economic Growth
  • Diet and metabolism studies
  • Advanced Causal Inference Techniques
  • Schizophrenia research and treatment
  • Economics of Agriculture and Food Markets
  • Statistical Distribution Estimation and Applications
  • Statistical Methods in Clinical Trials
  • Statistical Methods and Bayesian Inference
  • Neurobiology and Insect Physiology Research
  • Market Dynamics and Volatility
  • Economic theories and models
  • Multiple Sclerosis Research Studies
  • Advanced MRI Techniques and Applications
  • Multidisciplinary Science and Engineering Research
  • Bayesian Modeling and Causal Inference
  • Health and Conflict Studies

Australian Regenerative Medicine Institute
2024-2025

Monash University
2022-2025

Rutgers, The State University of New Jersey
2024-2025

Wellcome Sanger Institute
2023-2024

Rutgers Sexual and Reproductive Health and Rights
2024

Bridge University
2023

University of Cambridge
2023

Yale University
2014-2023

Allen Institute for Brain Science
2023

The University of Adelaide
2017-2019

Abstract The Catalogue Of Somatic Mutations In Cancer (COSMIC), https://cancer.sanger.ac.uk/cosmic, is an expert-curated knowledgebase providing data on somatic variants in cancer, supported by a comprehensive suite of tools for interpreting genomic data, discerning the impact alterations disease, and facilitating translational research. catalogue accessed used thousands cancer researchers clinicians daily, allowing them to quickly access information from immense pool curated over 29...

10.1093/nar/gkad986 article EN cc-by Nucleic Acids Research 2023-11-01

Reading involves dual streams of sensory propagation that lie within a broader sensory-to-transmodal hierarchy. This study explores whether individual differences in this functional organization can be explained by cortical geometry. Through modified connectome predictive modeling approach, we identified distances (CD) measured along the surface predict reading performance. We found interindividual variation CD robustly predicts performance comparably to connectivity (FC). Moreover,...

10.1101/2025.03.10.641861 preprint EN cc-by-nc bioRxiv (Cold Spring Harbor Laboratory) 2025-03-11

Abstract With increasing globalisation and interactions between cultures, countries are converging in many ways, including their consumption patterns. The extent to which this has been the case alcohol subject of previous studies, but those studies have limited scope a specific region or group high-income just one two types alcohol. present study updates earlier findings, covers all world since 1961, introduces new summary indicators capture additional dimensions convergence total its mix...

10.1017/jwe.2017.15 article EN Journal of Wine Economics 2017-05-01

A primary aim of computational psychiatry is to establish predictive models linking individual differences in brain functioning with symptoms. In particular, cognitive impairments are transdiagnostic, treatment resistant, and associated poor outcomes. Recent work suggests that thousands participants may be necessary for the accurate reliable prediction cognition, questioning utility most patient collection efforts. Here, using a transfer learning framework, we train model on functional...

10.1126/sciadv.adn1862 article EN cc-by-nc Science Advances 2024-11-06

The mammalian brain is comprised of anatomically and functionally distinct regions. Substantial work over the past century has pursued generation ever-more accurate maps regional boundaries, using either expert judgement or data-driven clustering functional, connectional, and/or architectonic properties. However, these approaches are often purely descriptive, have limited generalizability, do not elucidate underlying generative mechanisms that shape organization brain. Here, we develop a...

10.1101/2025.01.30.635820 preprint EN cc-by-nc-nd bioRxiv (Cold Spring Harbor Laboratory) 2025-02-01

The cerebral cortex is organized hierarchically along an axis that spans unimodal sensorimotor to transmodal association areas. This hierarchy often characterized using low-dimensional embeddings, termed gradients, of interregional functional coupling estimates measured with resting-state magnetic resonance imaging. Such analyses may offer insights into the pathophysiology schizophrenia, which has been frequently linked dysfunctional interactions between and

10.1016/j.bpsc.2023.08.008 article EN cc-by Biological Psychiatry Cognitive Neuroscience and Neuroimaging 2023-09-06

Parkinson's disease (PD), the second most prevalent neurodegenerative after Alzheimer's disease, is linked to gradual loss of dopaminergic neurons in substantia nigra. Disease loci causing hereditary forms PD are known, but cases attributable a combination genetic and environmental risk factors. Increased incidence associated with rural living pesticide exposure, neurodegeneration can be triggered by neurotoxins such as 6-hydroxydopamine (6-OHDA). In C. elegans, this drug taken up...

10.1371/journal.pgen.1004767 article EN cc-by PLoS Genetics 2014-12-04

Functional magnetic resonance imaging (fMRI) is widely used to investigate functional coupling (FC) disturbances in a range of clinical disorders. Most analyses performed date have group-based parcellations for defining regions interest (ROIs), which single parcellation applied each brain. This approach neglects individual differences brain organization and may inaccurately delineate the true borders regions. These inaccuracies could inflate or underestimate group case-control analyses. We...

10.1162/netn_a_00329 article EN cc-by Network Neuroscience 2023-01-01

Converging neuroimaging, genetic, and post-mortem evidence show a fundamental role of synaptic deficits in schizophrenia pathogenesis. However, the underlying molecular cellular mechanisms that drive onset progression pathology remain to be established. Here, we used density positron emission tomography (PET) imaging using [11C]UCB-J radiotracer reveal prominent widespread pattern (p_FWE<0.05) lower individuals with (n=29), compared large sample healthy controls (n=93). We found spatial is...

10.1101/2025.03.22.25324465 preprint EN cc-by-nc medRxiv (Cold Spring Harbor Laboratory) 2025-03-23

Background Clinical outcomes following a first episode of psychosis (FEP) are highly heterogeneous between patients. The identification prognostic biomarkers would greatly facilitate personalized treatments. Psychosis patients often display brain-wide disruptions inter-regional functional coupling (FC), with some being linked to symptom severity and remission. FC may thus hold potential for people experiencing psychosis. Methods Ninety antipsychotic-naive FEP (51% female, 15-25 years) were...

10.1101/2025.04.01.25325005 preprint EN cc-by-nc-nd 2025-04-03
Laura Waller Anna‐Lena Bröcker N Elbersgerd F Jaeck Renée Lipka and 90 more L Mograby Michel Neidhart R Puzicha Firuza Rahimova Peter Reinhardt Zala Reppmann N Schäfer Emin Serin Nilakshi Vaidya Bob O. Vogel Sarah A. Wellan Jochen Winterer D Göller G. Henze Fabrizio Pizzagalli Concetta Dagostino Zhimin Liao T. Paus Lars Nyberg Michael Andersson Marco Hermesdorf Klaus Berger Udo Dannlowski Tilo Kircher Dominik Grotegerd Andreas J. Forstner Fabian J. David Philip B. Mitchell Gloria Roberts David E.J. Linden Krish D. Singh T. Lancaster Xavier Caseras Annchen R. Knodt Ahmad R. Hariri María Ángeles García‐León Paola Fuentes‐Claramonte Edith Pomarol‐Clotet Alexander Holmes Sidhant Chopra Tanmoy Rana Alex Fornito Jeggan Tiego Mark A. Bellgrove Oliver Gruber Jens Treutlein Karolin E. Einenkel Robin Peretzke Manuel Fischer Ben J. Harrison Alec Jamieson Christopher G. Davey Yann Quidé Oliver J. Watkeys Melissa J. Green Pascal-M. Aggensteiner Maximillian Monninger Nathalie Holz Tobias Banaschewski Philipp G. Sämann Li-Ying Han Brenda W.J.H. Penninx Yuri Milaneschi Lachlan T. Strike Alessandro Bertolino Giulio Pergola Leonardo Fazio Giuseppe Stolfa Roberta Passiatore Annalisa Lella Nicola Sambuco Leonardo Sportelli Gianluca C. Kikidis Antonio Rampino Rosie Tatham Liana Romaniuk Heather C. Whalley H. Park Justine M. Gatt Peter R. Schofield Leanne M. Williams Felix Hoffstaedter Aihua Zhu Neda Jahanshad Thomas E. Nichols Paul M. Thompson Sarah E. Medland Ilya M. Veer Susanne Erk Henrik Walter

10.1055/s-0045-1807310 article EN Pharmacopsychiatry 2025-04-30

Introduction: Cortical grey matter loss is a common finding in Magnetic Resonance Imaging (MRI) studies of people with psychosis and has been shown to progress ongoing illness. A major unresolved question concerns whether these changes are driven by the illness itself or represent iatrogenic effects antipsychotic medication. Methods: We report findings from triple-blind randomised placebo-controlled MRI study where 62 antipsychotic-naive first episode (FEP) received either an atypical...

10.1101/2025.05.08.25327204 preprint EN cc-by-nc-nd medRxiv (Cold Spring Harbor Laboratory) 2025-05-09

While the world is aware of America's history enslavement, ongoing impact anti-Black racism in United States remains underemphasized health intervention modeling. This Perspective argues that algorithmic bias—manifested worsened performance clinical algorithms for Black vs. white patients—is significantly driven by failure to model cumulative impacts racism-related stress, particularly racial heteroscedasticity. Racial heteroscedasticity refers unequal variance outcomes and predictions...

10.3389/fdgth.2025.1492736 article EN cc-by Frontiers in Digital Health 2025-05-15

The network organization of the human brain dynamically reconfigures in response to changing environmental demands, an adaptive process that may be disrupted a symptom-relevant manner across psychiatric illnesses. Here, transdiagnostic sample participants with (n=134) and without (n=85) diagnoses, functional connectomes from intrinsic (resting-state) task-evoked fMRI were decomposed identify constraints on dynamics six cognitive states. Hierarchical clustering 110 clinical, behavioral,...

10.1101/2025.05.23.655864 preprint EN cc-by-nd bioRxiv (Cold Spring Harbor Laboratory) 2025-05-28

Despite decades of research, we lack objective diagnostic or prognostic biomarkers mental health problems. A key reason for this limited progress is a reliance on the traditional case-control paradigm, which assumes that each disorder has single cause can be uncovered by comparing average phenotypic values cases and control samples. Here, discuss problematic assumptions paradigm based highlight recent efforts seek to characterize, rather than minimize, inherent clinical biological...

10.31219/osf.io/5mz46 preprint EN 2024-06-25

Trunk neural crest cells follow a common ventral migratory pathway but are distributed into two distinct locations to form discrete sympathetic and dorsal root ganglia along the vertebrate axis. Although fluorescent cell labeling time-lapse studies have recorded complex trunk behaviors, signals that underlie this dynamic patterning remain unclear. The absence of molecular information has led number mechanistic hypotheses for migration. Here, we review recent data in support three mechanisms...

10.1002/dvg.23239 article EN genesis 2018-08-21

Psychosis has often been linked to abnormal cortical asymmetry, but prior results have inconsistent. Here, we applied a novel spectral shape analysis characterize asymmetries in patients with early psychosis across different spatial scales. We used the Human Connectome Project for Early dataset (aged 16-35), comprising 56 healthy controls (37 males, 19 females) and 112 (68 44 females). quantified variations of each hemisphere over frequencies general linear model compare differences between...

10.1093/braincomms/fcae015 article EN cc-by Brain Communications 2023-12-28
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