News:
Three papers have been accepted to OHBM2024.
One paper has been accepted to ASENT2024.
1. Nha Nguyen, Jesus Gomar, Jack Nhat Truong, Janos Barbero, Patrick Phuoc Do, Andrea Rommal, David Eidelberg, Jeremy Koppel, An Vo, Alzheimer’s Disease Neuroimaging Initiative. Alzheimer’s Disease Psychosis-related Brain Network: A Deep Learning and Explainable AI Framework. Accepted to the 2024 Organization for Human Brain Mapping Annual Meeting (OHBM 2024).
Paper: https://www.dropbox.com/scl/fi/kf5qmnl2ij0revffcksaj/ADPN_abstract_arxiv.pdf?rlkey=8nhlq5g85g4pdnbw2x82s1u3d&dl=0
2. János Barbero, Ana Franceschi, Luca Giliberto, Patrick Phuoc Do, David Petrover, Jack Nhat Truong, Sean Clouston, Nha Nguyen, Marc Gordon, An Vo. Bridging Machine Learning and Clinical Diagnosis: An Explainable Biomarker for ß-Amyloid PET Imaging. Accepted to the 2024 Organization for Human Brain Mapping Annual Meeting (OHBM 2024).
Paper: https://arxiv.org/abs/2401.04110
3. Nakano Y, Tang C, Vo A, Nguyen N, Eidelberg D. Longitudinal changes in Parkinson's disease-related network organization in REM sleep disorder. Accepted to the 2024 OHBM.
Paper: https://www.dropbox.com/scl/fi/rwnajp9ldw2j2h9z2ujja/OHBM2024-Abstract-Yoshi-ver1.pdf?rlkey=rwgda7ftrg1p4cfdcpbq8clwr&dl=0
4. Barbero, János A., An Vo, Nha Nguyen, Yilong Ma, Shichun Peng, Chris C. Tang, Charalampos Tzoulis, and David Eidelberg. “Baseline network predictor of the placebo response: Can susceptible individuals be identified before randomization?” Accepted for oral presentation at American Society for Experimental Neurotherapeutics (ASENT) Annual Meeting 2024.
Journals:
- Niethammer M, Tang CC, Jamora RDG, Vo A, Nguyen N, Ma Y, Peng S, Waugh JL, Westenberger A, Eidelberg D. A Network Imaging Biomarker of X-Linked Dystonia-Parkinsonism. Ann Neurol. 2023 Oct;94(4):684-695. doi: 10.1002/ana.26732. Epub 2023 Jul 11. PMID: 37376770.
- Tomaž Rus, Jernej Mlakar, Luka Ležaić, An Vo, Nha Nguyen, Chris Tang, Michele Fiorini, Elena Prieto, Gloria Marti‐Andres, Javier Arbizu, David Eidelberg, Maja Trošt. Sporadic Creutzfeldt–Jakob disease is associated with reorganization of metabolic connectivity in a pathological brain network. European journal of neurology 30 (4), 1035-1047, 2023.
- JR Lin, Y Zhao, MR Jabalameli, N Nguyen et al. Rare coding variants as risk modifiers of the 22q11.2 deletion implicate postnatal cortical development in syndromic schizophrenia. Mol Psychiatry (2023). https://doi.org/10.1038/s41380-023-02009-y
- An Vo*, Nha Nguyen*, Koji Fujita, Katharina A Schindlbeck, Andrea Rommal, Susan B Bressman, Martin Niethammer, David Eidelberg, Disordered network structure and function in dystonia: pathological connectivity vs. adaptive responses, Cerebral Cortex, 2023;, bhad012, https://doi.org/10.1093/cercor/bhad012" (Oup - Quoted on February 15, 2023)
- Rus T, Perovnik M, Vo A, Nguyen N, Tang C, Jamšek J, Šurlan Popović K, Grimmer T, Yakushev I, Diehl-Schmid J, Eidelberg D, Trošt M. Disease specific and nonspecific metabolic brain networks in behavioral variant of frontotemporal dementia. Hum Brain Mapp. 2022 Nov 5. doi: https://doi.org/10.1002/hbm.26140
- Perovnik, M., Vo, A., Nguyen, N., Jamšek, J., Rus, T., Tang, C. C., Trošt, M., & Eidelberg, D. (2021). Automated differential diagnosis of dementia syndromes using FDG PET and machine learning. Frontiers in Aging Neuroscience, 14. https://doi.org/10.3389/fnagi.2022.1005731
- Vo A, Schindlbeck KA, Nguyen N, Rommal A, Spetsieris PG, Tang CC, Choi YY, Niethammer M, Dhawan V, Eidelberg D. Adaptive and pathological connectivity responses in Parkinson's disease brain networks. Cereb Cortex. 2022 Mar 25:bhac110. doi: 10.1093/cercor/bhac110.
- Zhen Wang, Quanwei Zhang, Jhih-Rong Lin, M Reza Jabalameli, Joydeep Mitra, Nha Nguyen, Zhengdong D Zhang. Deep post-GWAS analysis identifies potential risk genes and risk variants for Alzheimer’s disease, providing new insights into its disease mechanisms. Scientific reports, 2021.
- Quanwei Zhang, Gregory Tombline, Julia Ablaeva, Lei Zhang, Xuming Zhou, Zachary Smith, Yang Zhao, Alus M Xiaoli, Zhen Wang, Jhih-Rong Lin, M Reza Jabalameli, Joydeep Mitra, Nha Nguyen, Jan Vijg, Andrei Seluanov, Vadim N Gladyshev, Vera Gorbunova, Zhengdong D Zhang. Genomic expansion of Aldh1a1 protects beavers against high metabolic aldehydes from lipid oxidation. Cell reports, 2021.
- Jhih-Rong Lin, Patrick Sin-Chan, Valerio Napolioni, Guillermo G Torres, Joydeep Mitra, Quanwei Zhang, M Reza Jabalameli, Zhen Wang, Nha Nguyen, …, Zhengdong D Zhang. Rare genetic coding variants associated with human longevity and protection against age-related diseases. Nature Aging, 2021.
- Katharina A Schindlbeck, An Vo, Nha Nguyen, Chris C Tang, Martin Niethammer, Vijay Dhawan, Vicky Brandt, Rachel Saunders-Pullman, Susan B Bressman, David Eidelberg. LRRK2 and GBA Variants Exert Distinct Influences on Parkinson’s Disease-Specific Metabolic Networks. Cerebral Cortex, 2020.
- Martin Niethammer, Chris C Tang, An Vo, Nha Nguyen, Phoebe Spetsieris, Vijay Dhawan, Yilong Ma, Michael Small, Andrew Feigin, Matthew J During, Michael G Kaplitt, David Eidelberg. Gene therapy reduces Parkinson’s disease symptoms by reorganizing functional brain connectivity. Science translational medicine. 2018
- Pau Pascual-Garcia, Brian Debo, Jennifer Aleman, Jessica A. Talamas, Yemin Lan, Nha H. Nguyen, Kyoung J. Won, Maya Capelson, Metazoan nuclear pores provide a scaffold for poised genes and mediate induced enhancer-promoter contacts, Molecular Cell, in press, 2017.
- Nha Nguyen, An Vo, and Heng Huang. Heavy-Tailed Noise Suppression and Derivative Wavelet Scalogram for Detecting DNA Copy Number Aberrations. IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB), in press, 2016.
- DM Cohen, KJ Won, N Nguyen, MA Lazar, CS Chen, DJ Steger. ATF4 licenses C/EBPβ activity in human mesenchymal stem cells primed for adipogenesis, eLife 4, e06821, 2015.
- Nha Nguyen, An Vo and Kyoung-Jae Won. A stationary wavelet entropy based clustering approach accurately predicts gene expression, Journal of Computational Biology, 22 (3), 236-249, 2015.
- Nha Nguyen, An Vo and Kyoung-Jae Won. A wavelet approach to detect enriched regions and explore epigenomic landscapes, Journal of Computational Biology, 21 (11), 846-854, 2014.
- Nha Nguyen, An Vo and Kyoung-Jae Won. A wavelet-based method to exploit epigenomic language in the regulatory region, Bioinformatics , 30 (7): 908-914, 2014.
- Nha Nguyen, Heng Huang, Soontorn Oraintara, An Vo. Mass Spectrometry Data Processing Using Zero-Crossing Lines in Multi-Scale of Gaussian Derivative Wavelet (Modified Version), Bioinformatics, 26 (18): i659-i665, 2010.
- Nha Nguyen, An Vo, Heng Huang (Nha Nguyen and An Vo are joint first authors ). Solenoid and Non-solenoid Protein Recognition, Bioinformatics, 26 (18): i467-i473, 2010.
- An Vo, Soontorn Oraintara, Nha Nguyen. Vonn distribution of relative phase for statistical image modeling in complex wavelet domain, Signal Processing (Elsevier), 2010.
- Nha Nguyen, Heng Huang, Soontorn Oraintara, An Vo. Stationary Wavelet Packet Transform and Dependent Laplacian Bivariate Shrinkage Estimator for Array-CGH Data Smoothing, Journal of Computational Biology, 17(2): 139-152, February, 2010.
- Nha Nguyen, Heng Huang, Soontorn Oraintara, An Vo. Peak Detection in Mass Spectrometry by Gabor Filters and Envelope Analysis, Journal of Bioinformatics and Computational Biology, Vol. 7, No. 3, pp. 547-569, 2009.
- Heng Huang, Nha Nguyen, Soontorn Oraintara, An Vo. Array CGH Data Modeling and Smoothing in Stationary Wavelet Packet Transform Domain, BMC Genomics, Vol. 9 (S2:S17), 2008.
- Heng Huang, Li Shen, Nha Nguyen. Three Dimensional Models for Cardiac Bioelectricity Simulation: Cell to Organ, Simulation: Transactions of The Society for Modeling and Simulation International, Vol. 83, No. 4, pp. 321-327, 2007.
Conferences:
- Nakano Y, Tang C, Vo A, Nguyen N, Eidelberg D. Longitudinal changes in Parkinson's disease-related network organization in REM sleep disorder. Accepted to the 2024 OHBM.
- Nguyen N, Gomar J, Truong JN, Barbero J, Do P, Rommal A, Eidelberg E, Koppel J, Vo A, Alzheimer’s Disease Neuroimaging Initiative. Alzheimer’s disease Psychosis-related brain network: A deep learning and explainable AI framework. Accepted to the OHBM 2024.
- Barbero J, Franceschi A, Giliberto L, Do PP, Petrover D, Truong JN, Clouston S, Nguyen N, Gordon M, Vo A. Bridging machine learning and clinical diagnosis: An explainable biomarker for ß-Amyloid PET imaging. Accepted to the 2024 Organization for Human Brain Mapping Annual Meeting (OHBM 2024).
- 14. Perovnik M, Rus T, Vo A, Nguyen N, Tomse P, Jamsek J, Tang C, Trost M, Eidelberg D. Machine learning diagnosis of Parkinsonian syndromes: network approach with two different sites. Mov Disord. 2023; 38(suppl 1).
- A Vo, N Nguyen, D Eidelberg. Longitudinal study of Parkinson’s disease-related pattern with resting state functional MRI. Mov Disord, 2022. https://www.mdsabstracts.org/abstract/longitudinal-study-of-parkinsons-disease-related-pattern-with-resting-state-functional-mri/
- Eidelberg D Vo A, Schindlbeck K, Nguyen N, Rommal A, Niethammer M. Resting state functional MRI network assortativity is increased in Parkinson’s disease. Mov Disord, 2021.
- A Vo, K Schindlbeck, N Nguyen, A Rommal, M Niethammer, D Eidelberg. Distinct maladaptive and compensatory wiring patterns in penetrant and non-penetrant dystonia mutation carriers: 168. Movement Disorders, 2020.
- K Schindlbeck, A Vo, N Nguyen, A Rommal, C Tang, M Niethammer, V Dhawan, R Saunders-Pullman, S Bressman, D Eidelberg. Distinct compensatory and maladaptive wiring patterns in genotypic Parkinson's disease: 628. Movement Disorders, 2020.
- D. Eidelberg K. Schindlbeck, A. Vo, N. Nguyen, C. Tang, M. Niethammer, V. Dhawan, V. Brandt, R. Saunders-Pullman, S. Bressman. Genotype influences circuit compensation in Parkinson’s disease [abstract]. Mov Disord. 2019;34(Suppl 2), International Congress of Parkinson’s Disease and Movement Disorders, Nice, France, 2019.
- D. Eidelberg / A. Vo, N. Nguyen, K. Schindlbeck. Resting state functional connectivity changes in dystonia [abstract]. Mov Disord. 2019;34(Suppl 2), International Congress of Parkinson’s Disease and Movement Disorders,Nice, France, 2019.
- A Vo, N Nguyen, K Schindlbeck, D Eidelberg. Resting state functional connectivity changes in dystonia: 1355, Movement Disorders, 2019.
- K Schindlbeck, A Vo, N Nguyen, C Tang, M Niethammer, V Dhawan, V Brandt, R Saunders-Pullman, S Bressman, D Eidelberg. Genotype influences circuit compensation in Parkinson's disease: 1966, Movement Disorders, 2019.
- David Eidelberg An Vo, Koji Fujita, Nha Nguyen. Three-dimensional Network Architecture of Dystonia in Resting State Functional MRI, The 2018 OHBM Annual Meeting, Singapore, 2018.
- Nha Nguyen and Kyoung-Jae Won. Gaussian derivative wavelets identify dynamic changes in histone modification, IEEE CIBCB 2014.
- Nha Nguyen, Heng Huang, Soontorn Oraintara, An Vo. GABORLOCAL: Peak Detection In Mass Spectrum By Gabor Filters And Gaussian Local Maxima. Computational Systems Bioinformatics Conference (CSB 2008), pp. 85-96.
- Nha Nguyen, Heng Huang, Soontorn Oraintara, An Vo. Dependent Laplacian Bivariate Shrinkage Estimator For SWPT Based Array-CGH Data Smoothing. Computational Systems Bioinformatics Conference (CSB 2008), poster.
- Nha Nguyen, Heng Huang, Soontorn Oraintara, Yuhang Wang. Denoising of Array-Based DNA Copy Number Data Using The Dual-tree Complex Wavelet Transform. IEEE 7th International Symposium on Bioinformatics & Bioengineering (BIBE 2007), pp. 137-144.
- Nha Nguyen, Heng Huang, Soontorn Oraintara, An Vo. A New Smoothing Model for Analyzing Array CGH Data. IEEE 7th International Symposium on Bioinformatics & Bioengineering (BIBE 2007), pp. 1027-1034.