Publications

1. Zhou G, Tward D, Lange K. A Majorization-Minimization Algorithm for Neuroimage Registration.. SIAM journal on imaging sciences, 2024.
2. Langlieb J, Sachdev NS, Balderrama KS, Nadaf NM, Raj M, Murray E, Webber JT, Vanderburg C, Gazestani V, Tward D, Mezias C, Li X, Flowers K, Cable DM, Norton T, Mitra P, Chen F, Macosko EZ. The molecular cytoarchitecture of the adult mouse brain.. Nature, 2023.
3. Clifton K, Anant M, Aihara G, Atta L, Aimiuwu OK, Kebschull JM, Miller MI, Tward D, Fan J. STalign: Alignment of spatial transcriptomics data using diffeomorphic metric mapping.. Nature communications, 2023.
4. Athey TL, Tward DJ, Mueller U, Younes L, Vogelstein JT, Miller MI. Preserving Derivative Information while Transforming Neuronal Curves.. Neuroinformatics, 2023.
5. Clifton K, Anant M, Aihara G, Atta L, Aimiuwu OK, Kebschull JM, Miller MI, Tward D, Fan J. Alignment of spatial transcriptomics data using diffeomorphic metric mapping.. bioRxiv : the preprint server for biology, 2023.
6. Athey TL, Tward DJ, Mueller U, Younes L, Vogelstein JT, Miller MI. Preserving Derivative Information while Transforming Neuronal Curves.. ArXiv, 2023.
7. Caggiano C, Boudaie A, Shemirani R, Mefford J, Petter E, Chiu A, Ercelen D, He R, Tward D, Paul KC, Chang TS, Pasaniuc B, Kenny EE, Shortt JA, Gignoux CR, Balliu B, Arboleda VA, Belbin G, Zaitlen N. Disease risk and healthcare utilization among ancestrally diverse groups in the Los Angeles region.. Nature medicine, 2023.
8. Hawrylycz M, Martone ME, Ascoli GA, Bjaalie JG, Dong HW, Ghosh SS, Gillis J, Hertzano R, Haynor DR, Hof PR, Kim Y, Lein E, Liu Y, Miller JA, Mitra PP, Mukamel E, Ng L, Osumi-Sutherland D, Peng H, Ray PL, Sanchez R, Regev A, Ropelewski A, Scheuermann RH, Tan SZK, Thompson CL, Tickle T, Tilgner H, Varghese M, Wester B, White O, Zeng H, Aevermann B, Allemang D, Ament S, Athey TL, Baker C, Baker KS, Baker PM, Bandrowski A, Banerjee S, Bishwakarma P, Carr A, Chen M, Choudhury R, Cool J, Creasy H, D'Orazi F, Degatano K, Dichter B, Ding SL, Dolbeare T, Ecker JR, Fang R, Fillion-Robin JC, Fliss TP, Gee J, Gillespie T, Gouwens N, Zhang GQ, Halchenko YO, Harris NL, Herb BR, Hintiryan H, Hood G, Horvath S, Huo B, Jarecka D, Jiang S, Khajouei F, Kiernan EA, Kir H, Kruse L, Lee C, Lelieveldt B, Li Y, Liu H, Liu L, Markuhar A, Mathews J, Mathews KL, Mezias C, Miller MI, Mollenkopf T, Mufti S, Mungall CJ, Orvis J, Puchades MA, Qu L, Receveur JP, Ren B, Sjoquist N, Staats B, Tward D, van Velthoven CTJ, Wang Q, Xie F, Xu H, Yao Z, Yun Z, Zhang YR, Zheng WJ, Zingg B. A guide to the BRAIN Initiative Cell Census Network data ecosystem.. PLoS biology, 2023.
9. He R, Tward D, Alzheimer’s Disease Neuroimaging Initiative. Applying Joint Graph Embedding to Study Alzheimer's Neurodegeneration Patterns in Volumetric Data.. Neuroinformatics, 2023.
10. Athey TL, Tward DJ, Mueller U, Younes L, Vogelstein JT, Miller MI. Preserving Derivative Information while Transforming Neuronal Curves.. Research square, 2023.
11. Stouffer KM, Chen C, Kulason S, Xu E, Witter MP, Ceritoglu C, Albert MS, Mori S, Troncoso J, Tward DJ, Miller MI, Alzheimer’s Disease Neuroimaging Initiative. Early amygdala and ERC atrophy linked to 3D reconstruction of rostral neurofibrillary tau tangle pathology in Alzheimer's disease.. NeuroImage. Clinical, 2023.
12. Langlieb J, Sachdev NS, Balderrama KS, Nadaf NM, Raj M, Murray E, Webber JT, Vanderburg C, Gazestani V, Tward D, Mezias C, Li X, Cable DM, Norton T, Mitra P, Chen F, Macosko EZ. The cell type composition of the adult mouse brain revealed by single cell and spatial genomics.. bioRxiv : the preprint server for biology, 2023.
13. He R, Tward D, Alzheimer’s Disease Neuroimaging Initiative. Applying joint graph embedding to study Alzheimer's neurodegeneration patterns in volumetric data.. bioRxiv : the preprint server for biology, 2023.
14. Stouffer KM, Witter MP, Tward DJ, Miller MI. Projective Diffeomorphic Mapping of Molecular Digital Pathology with Tissue MRI.. Communications engineering, 2022.
15. Miller M, Tward D, Trouvé A. Molecular Computational Anatomy: Unifying the Particle to Tissue Continuum via Measure Representations of the Brain.. BME frontiers, 2022.
16. Pang B, Doshi S, Roy B, Lai M, Ehlert L, Aysola RS, Kang DW, Anderson A, Joshi SH, Tward D, Scalzo F, Vacas S, Kumar R. Machine learning approach for obstructive sleep apnea screening using brain diffusion tensor imaging.. Journal of sleep research, 2022.
17. Athey TL, Tward DJ, Mueller U, Vogelstein JT, Miller MI. Hidden Markov modeling for maximum probability neuron reconstruction.. Communications biology, 2022.
18. Ratnanather JT, Wang LC, Bae SH, O'Neill ER, Sagi E, Tward DJ. Visualization of Speech Perception Analysis via Phoneme Alignment: A Pilot Study.. Frontiers in neurology, 2022.
19. Stouffer KM, Wang Z, Xu E, Lee K, Lee P, Miller MI, Tward DJ. From Picoscale Pathology to Decascale Disease: Image Registration with a Scattering Transform and Varifolds for Manipulating Multiscale Data.. Multimodal learning for clinical decision support : 11th International Workshop, ML-CDS 2021, held in conjunction with MICCAI 2021, Strasbourg, France, October 1, 2021, Proceedings. ML-CDS (Workshop) (11th : 2021 : Online), 2021.
20. Graves AR, Roth RH, Tan HL, Zhu Q, Bygrave AM, Lopez-Ortega E, Hong I, Spiegel AC, Johnson RC, Vogelstein JT, Tward DJ, Miller MI, Huganir RL. Visualizing synaptic plasticity in vivo by large-scale imaging of endogenous AMPA receptors.. eLife, 2021.
21. Tward D. An optical flow based left-invariant metric for natural gradient descent in affine image registration.. Frontiers in applied mathematics and statistics, 2021.
22. Athey TL, Teneggi J, Vogelstein JT, Tward DJ, Mueller U, Miller MI. Fitting Splines to Axonal Arbors Quantifies Relationship Between Branch Order and Geometry.. Frontiers in neuroinformatics, 2021.
23. Chandrashekhar V, Tward DJ, Crowley D, Crow AK, Wright MA, Hsueh BY, Gore F, Machado TA, Branch A, Rosenblum JS, Deisseroth K, Vogelstein JT. CloudReg: automatic terabyte-scale cross-modal brain volume registration.. Nature methods, 2021.
24. Tward DJ, Ma J, Miller MI, Younes L. Corrigendum to "Robust Diffeomorphic Mapping via Geodesically Controlled Active Shapes".. International journal of biomedical imaging, 2021.
25. Athey TL, Ceritoglu C, Tward DJ, Kutten KS, DePaulo JR, Glazer K, Goes FS, Kelsoe JR, Mondimore F, Nievergelt CM, Rootes-Murdy K, Zandi PP, Ratnanather JT, Mahon PB. A 7 Tesla Amygdalar-Hippocampal Shape Analysis of Lithium Response in Bipolar Disorder.. Frontiers in psychiatry, 2021.
26. Kulason S, Xu E, Tward DJ, Bakker A, Albert M, Younes L, Miller MI. Entorhinal and Transentorhinal Atrophy in Preclinical Alzheimer's Disease.. Frontiers in neuroscience, 2020.
27. Jacob A, Tward DJ, Resnick S, Smith PF, Lopez C, Rebello E, Wei EX, Ratnanather JT, Agrawal Y. Vestibular function and cortical and sub-cortical alterations in an aging population.. Heliyon, 2020.
28. Charles AS, Falk B, Turner N, Pereira TD, Tward D, Pedigo BD, Chung J, Burns R, Ghosh SS, Kebschull JM, Silversmith W, Vogelstein JT. Toward Community-Driven Big Open Brain Science: Open Big Data and Tools for Structure, Function, and Genetics.. Annual review of neuroscience, 2020.
29. Tward D, Brown T, Kageyama Y, Patel J, Hou Z, Mori S, Albert M, Troncoso J, Miller M. Diffeomorphic Registration With Intensity Transformation and Missing Data: Application to 3D Digital Pathology of Alzheimer's Disease.. Frontiers in neuroscience, 2020.
30. Lee BC, Tward DJ, Wei J, Tipre D, Weiss RG, Miller MI, Ardekani S. Diffeomorphic Upsampling of Serially Acquired Sparse 2D Cross-Sections in Cardiac MRI.. Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference, 2019.
31. Lee BC, Tward DJ, Mitra PP, Miller MI. On variational solutions for whole brain serial-section histology using a Sobolev prior in the computational anatomy random orbit model.. PLoS computational biology, 2018.
32. Kulason S, Tward DJ, Brown T, Sicat CS, Liu CF, Ratnanather JT, Younes L, Bakker A, Gallagher M, Albert M, Miller MI, Alzheimer's Disease Neuroimaging Initiative. Cortical thickness atrophy in the transentorhinal cortex in mild cognitive impairment.. NeuroImage. Clinical, 2018.
33. Tward DJ, Mitra PP, Miller MI. ESTIMATING DIFFEOMORPHIC MAPPINGS BETWEEN TEMPLATES AND NOISY DATA: VARIANCE BOUNDS ON THE ESTIMATED CANONICAL VOLUME FORM.. Quarterly of applied mathematics, 2018.
34. Vogelstein JT, Perlman E, Falk B, Baden A, Gray Roncal W, Chandrashekhar V, Collman F, Seshamani S, Patsolic JL, Lillaney K, Kazhdan M, Hider R, Pryor D, Matelsky J, Gion T, Manavalan P, Wester B, Chevillet M, Trautman ET, Khairy K, Bridgeford E, Kleissas DM, Tward DJ, Crow AK, Hsueh B, Wright MA, Miller MI, Smith SJ, Vogelstein RJ, Deisseroth K, Burns R. A community-developed open-source computational ecosystem for big neuro data.. Nature methods, 2018.
35. Miller MI, Arguillère S, Tward DJ, Younes L. Computational anatomy and diffeomorphometry: A dynamical systems model of neuroanatomy in the soft condensed matter continuum.. Wiley interdisciplinary reviews. Systems biology and medicine, 2018.
36. Tward DJ, Miller MI. On the Complexity of Human Neuroanatomy at the Millimeter Morphome Scale: Developing Codes and Characterizing Entropy Indexed to Spatial Scale.. Frontiers in neuroscience, 2017.
37. Tward DJ, Sicat CS, Brown T, Bakker A, Gallagher M, Albert M, Miller M. Entorhinal and transentorhinal atrophy in mild cognitive impairment using longitudinal diffeomorphometry.. Alzheimer's & dementia (Amsterdam, Netherlands), 2017.
38. Tward D, Miller M, Trouve A, Younes L. Parametric Surface Diffeomorphometry for Low Dimensional Embeddings of Dense Segmentations and Imagery.. IEEE transactions on pattern analysis and machine intelligence, 2016.
39. Faria AV, Ratnanather JT, Tward DJ, Lee DS, van den Noort F, Wu D, Brown T, Johnson H, Paulsen JS, Ross CA, Younes L, Miller MI, PREDICT-HD Investigators and Coordinators of the Huntington Study Group. Linking white matter and deep gray matter alterations in premanifest Huntington disease.. NeuroImage. Clinical, 2016.
40. Segars WP, Norris H, Sturgeon GM, Zhang Y, Bond J, Minhas A, Tward DJ, Ratnanather JT, Miller MI, Frush D, Samei E. The development of a population of 4D pediatric XCAT phantoms for imaging research and optimization.. Medical physics, 2015.
41. Miller MI, Ratnanather JT, Tward DJ, Brown T, Lee DS, Ketcha M, Mori K, Wang MC, Mori S, Albert MS, Younes L, BIOCARD Research Team. Network Neurodegeneration in Alzheimer's Disease via MRI Based Shape Diffeomorphometry and High-Field Atlasing.. Frontiers in bioengineering and biotechnology, 2015.
42. Mahon PB, Lee DS, Trinh H, Tward D, Miller MI, Younes L, Barta PE, Ratnanather JT. Morphometry of the amygdala in schizophrenia and psychotic bipolar disorder.. Schizophrenia research, 2015.
43. Miller MI, Younes L, Ratnanather JT, Brown T, Trinh H, Lee DS, Tward D, Mahon PB, Mori S, Albert M, BIOCARD Research Team. Amygdalar atrophy in symptomatic Alzheimer's disease based on diffeomorphometry: the BIOCARD cohort.. Neurobiology of aging, 2014.
44. Norris H, Zhang Y, Bond J, Sturgeon GM, Minhas A, Tward DJ, Ratnanather JT, Miller MI, Frush D, Samei E, Segars WP. A set of 4D pediatric XCAT reference phantoms for multimodality research.. Medical physics, 2014.
45. Tward DJ, Ma J, Miller MI, Younes L. Robust Diffeomorphic Mapping via Geodesically Controlled Active Shapes.. International journal of biomedical imaging, 2013.
46. Segars WP, Bond J, Frush J, Hon S, Eckersley C, Williams CH, Feng J, Tward DJ, Ratnanather JT, Miller MI, Frush D, Samei E. Population of anatomically variable 4D XCAT adult phantoms for imaging research and optimization.. Medical physics, 2013.
47. Li X, Samei E, Williams CH, Segars WP, Tward DJ, Miller MI, Ratnanather JT, Paulson EK, Frush DP. Effects of protocol and obesity on dose conversion factors in adult body CT.. Medical physics, 2012.
48. Pineda AR, Tward DJ, Gonzalez A, Siewerdsen JH. Beyond noise power in 3D computed tomography: the local NPS and off-diagonal elements of the Fourier domain covariance matrix.. Medical physics, 2012.
49. Tward DJ, Ceritoglu C, Kolasny A, Sturgeon GM, Segars WP, Miller MI, Ratnanather JT. Patient Specific Dosimetry Phantoms Using Multichannel LDDMM of the Whole Body.. International journal of biomedical imaging, 2011.
50. Gang GJ, Lee J, Stayman JW, Tward DJ, Zbijewski W, Prince JL, Siewerdsen JH. Analysis of Fourier-domain task-based detectability index in tomosynthesis and cone-beam CT in relation to human observer performance.. Medical physics, 2011.
51. Gang GJ, Tward DJ, Lee J, Siewerdsen JH. Anatomical background and generalized detectability in tomosynthesis and cone-beam CT.. Medical physics, 2010.
52. Gang GJ, Lee J, Stayman JW, Tward DJ, Zbijewski W, Prince JL, Siewerdsen JH. The Generalized NEQ and Detectability Index for Tomosynthesis and Cone-Beam CT: From Cascaded Systems Analysis to Human Observers.. Proceedings of SPIE--the International Society for Optical Engineering, 2010.
53. Tward DJ, Siewerdsen JH. Noise aliasing and the 3D NEQ of flat-panel cone-beam CT: effect of 2D/3D apertures and sampling.. Medical physics, 2009.
54. Tward DJ, Siewerdsen JH. Cascaded systems analysis of the 3D noise transfer characteristics of flat-panel cone-beam CT.. Medical physics, 2008.
55. Tward DJ, Siewerdsen JH, Daly MJ, Richard S, Moseley DJ, Jaffray DA, Paul NS. Soft-tissue detectability in cone-beam CT: evaluation by 2AFC tests in relation to physical performance metrics.. Medical physics, 2007.
56. Williams DB, Siewerdsen JH, Tward DJ, Paul NS, Dhanantwari AC, Shkumat NA, Richard S, Yorkston J, Van Metter R. Optimal kvp selection for dual-energy imaging of the chest: evaluation by task-specific observer preference tests.. Medical physics, 2007.