Publications
Coming Up
The temporal specificity of BOLD fMRI is systematically related to anatomical and vascular features of the human brain. |
Out-of-focus signal rejection for in vivo pO2 measurements using two-photon phosphorescence lifetime microscopy. |
Visual stimulation drives retinotopic acetylcholine release in the mouse visual cortex. |
High-resolution awake mouse fMRI at 14 Tesla. |
Published Articles
A Fast-Fourier Preconditioned Schur Complement Method for the Simulation of Cerebrocortical Oxygen Supply. |
| Thomas Ventimiglia & Andreas A. Linninger . Quantitative Approaches to Microcirculation . |
Long-wavelength traveling waves of vasomotion modulate the perfusion of cortex. |
| Thomas Broggini , Jacob Duckworth , Xiang Ji , Rui Liu , Xinyue Xia , Philipp Mächler , Iftach Shaked , Leon Paul Munting , Satish Iyengar , Michael Kotlikoff , Susanne J van Veluw , Massimo Vergassola , Gal Mishne , David Kleinfeld .Neuron. 2024 Jul 17;112(14):2349-2367.e8. |
Widefield in vivo imaging system with two fluorescence and two reflectance channels, a single sCMOS detector, and shielded illumination. |
| Patrick R Doran , Natalie Fomin-Thunemann , Rockwell P Tang , Dora Balog , Bernhard Zimmerman , Kıvılcım Kılıç , Emily A Martin , Sreekanth Kura , Harrison P Fisher , Grace Chabbott , Joel Herbert , Bradley C Rauscher , John X Jiang , Sava Sakadzic , David A Boas , Anna Devor , Ichun Anderson Chen , Martin Thunemann . Neurophotonics.2024 Jul;11(3):034310. |
Vascular synthesis based on hemodynamic efficiency principle recapitulates measured cerebral circulation properties in the human brain. |
| Andreas A Linninger, Thomas Ventimiglia , Mohammad Jamshidi , Mathieu Pascal Suisse , Ali Alaraj , Frédéric Lesage , Xin Li , Daniel L Schwartz , William D Rooney .J Cereb Blood Flow Metab. 2024 May;44(5):801-816. |
Microscopic Quantification of Oxygen Consumption across Cortical Layers. |
| Philipp Mächler, Natalie Fomin-Thunemann, Martin Thunemann,Marte Julie Sætra,Michèle Desjardins, Kıvılcım Kılıç, Ikbal Şencan, Baoqiang Li, Payam Saisan, Qun Cheng, Kimberly L. Weldy,David A. Boas, Richard B. Buxton,Gaute T. Einevoll, Anders M. Dale, Sava Sakadžić,Anna Devor.PLoS Biology 2024. |
Impact of stalling events on microcirculatory hemodynamics in the aged brain. |
| Mohammad Jamshidi , Thomas Ventimiglia , Patrice Sudres , Cong Zhang , Frédéric Lesage , William Rooney , Daniel Schwartz , Andreas A Linninger . Microcirculation. 2024 Apr;31(3):e12845. |
Impaired dynamics of precapillary sphincters and pericytes at first-order capillaries predict reduced neurovascular function in the aging mouse brain. |
| Changsi Cai Stefan Andreas Zambach , Søren Grubb , Lechan Tao , Chen He , Barbara Lykke Lind , Kirsten Joan Thomsen , Xiao Zhang , Bjørn Olav Hald, Reena Murmu Nielsen, Kayeon Kim, Anna Devor, Micael Lønstrup, Martin Johannes Lauritzen.Nat Aging. 2023 Feb;3(2):173-184. |
A lone spike in blood glucose can enhance the thrombo-inflammatory response in cortical venules. |
| Iftach Shaked , Conrad Foo , Philipp Mächler , Rui Liu , Yingying Cui , Xiang Ji , Thomas Broggini , Tomasz Kaminski , Suchita Suryakant Jadhav , Prithu Sundd , Michael Firer , Anna Devor , Beth Friedman , David Kleinfeld . J Cereb Blood Flow Metab. 2024 Feb;44(2):252-271. |
Time-Lagged Functional Ultrasound for Multi-Parametric Cerebral Hemodynamic Imaging. |
| Bingxue Liu, Yongchao Wang, Natalie Fomin-Thunemann, Martin Thunemann, Kivilcim Kilic, Anna Devor, Xiaojun Cheng, Jiyong Tan, John Jiang, David A Boas, Jianbo Tang . EEE Trans Med Imaging. 2024 Feb;43(2):638-648. |
Understanding the nervous system: lessons from Frontiers in Neurophotonics. |
| Yves De Koninck , Johanna Alonso , Stéphane Bancelin , Jean-Claude Béïque , Erik Bélanger , Catherine Bouchard , Marco Canossa , Johan Chaniot , Daniel Choquet , Marie-Ève Crochetière , Nanke Cui , Lydia Danglot , Paul De Koninck , Anna Devor , Mathieu Ducros , Angela M Getz , Mohamed Haouat , Iván Coto Hernández , Nate Jowett , Iason Keramidis , Céline Larivière-Loiselle , Flavie Lavoie-Cardinal , Harold D MacGillavry , Asiye Malkoç , Mattia Mancinelli , Pierre Marquet , Steven Minderler , Maxime Moreaud , U Valentin Nägerl , Katerina Papanikolopoulou , Marie-Eve Paquet , Lorenzo Pavesi , David Perrais , Romain Sansonetti , Martin Thunemann , Beatrice Vignoli , Jenny Yau , Clara Zaccaria . Neurophotonics. 2024 Jan;11(1):014415. |
Special Section Guest Editorial: Frontiers in Neurophotonics. |
| Yves De Koninck , Paul De Koninck , Anna Devor , Flavie Lavoie-Cardinal. Neurophotonics. 2024 Jan;11(1):014401. |
Tissue Oxygen Depth Explorer: an interactive database for microscopic oxygen imaging data. |
| Layth N Amra, Philipp Mächler, Natalie Fomin-Thunemann, Kıvılcım Kılıç, Payam Saisan, Anna Devor, Martin Thunemann. Front Neuroinform. 2023 Nov 27:17:1278787. |
The Ten Commandments of Everyday Leadership. |
| Anna Devor , Shadi Dayeh . Neurophotonics . 2023 Oct;10(4):040101. |
Measurements of slow tissue dynamics with short-separation speckle contrast optical spectroscopy. |
| Bingxue Liu , Shashwat Shah , Gülce Küreli , Anna Devor , David A Boas , Xiaojun Cheng . Biomed Opt Express . 2023 Aug 21;14(9):4790-4799. |
Mesh-free high-resolution simulation of cerebrocortical oxygen supply with fast Fourier preconditioning. |
| Thomas Ventimiglia, Andreas A Linninger . Int J Numer Method Biomed Eng . 2023 Aug;39(8):e3735. |
Aerobic exercise reverses aging-induced depth-dependent decline in cerebral microcirculation. |
| Paul Shin , Qi Pian , Hidehiro Ishikawa , Gen Hamanaka , Emiri T Mandeville , Shuzhen Guo , Buyin Fu , Mohammed Alfadhel , Srinivasa Rao Allu , Ikbal Şencan-Eğilmez , Baoqiang Li , Chongzhao Ran , Sergei A Vinogradov , Cenk Ayata , Eng Lo , Ken Arai , Anna Devor , Sava Sakadžić . Elife . 2023 Jul 4:12:e86329. |
Cortical microvascular blood flow velocity mapping by combining dynamic light scattering optical coherence tomography and two-photon microscopy. |
| Qi Pian , Mohammed Alfadhel , Jianbo Tang , Grace V Lee , Baoqiang Li , Buyin Fu , Yagmur Ayata , Mohammad Abbas Yaseen , David A Boas , Timothy W Secomb , Sava Sakadzic. J Biomed Opt . 2023 Jul;28(7):076003. |
The stop and go of glymphatic flow. |
| Kıvılcım Kılıç, Anna Devor .Nat Neurosci.2023 Jun;26(6):924-925. |
Identifying the distinct spectral dynamics of laminar-specific interhemispheric connectivity with bilateral line-scanning fMRI. |
| Sangcheon Choi, Yi Chen, Hang Zeng, Bharat Biswal, Xin Yu. Journal of Cerebral Blood Flow and Metabolism. 2023 Feb. |
Review of data processing of functional optical microscopy for neuroscience. |
| Shadas Benisty, Alexander Song, Gal Mishne, Adam S. Charles. Neurophotonics. Aug. 4, 2022. |
Critical factors in achieving fine-scale functional MRI: Removing sources of inadvertent spatial smoothing. |
| Jianbao Wang, Shahin Nasr, Anna Wang Roe, Jonathan R Polimeni. Hum Brain Mapp 2022 Aug 1;43(11):3311-3331. |
Assessment of motion and model bias on the detection of dopamine response to behavioral challenge. |
| Michael A Levine, Joseph B Mandeville, Finnegan Calabro, David Izquierdo-Garcia, Daniel B Chonde, Kevin T Chen, Inki Hong, Julie C Price, Beatriz Luna, Ciprian Catana. J Cereb Blood Flow Metab. 2022 Jul;42(7):1309-1321. |
In vivo irreversible and reversible transverse relaxation rates in human cerebral cortex via line scans at 7 T with 250 micron resolution perpendicular to the cortical surface. |
| Mukund Balasubramanian, Robert V Mulkern, Jonathan R Polimeni. Magn Reson Imaging 2022 Jul;90:44-52. |
Multi-scale affinities with missing data: Estimation and applications. |
| Min Zhang, Gal Mishne, Eric C Chi. Stat Anal Data Min. 2022 Jun;15(3):303-313. |
GraFT: Graph Filtered Temporal Dictionary Learning for Functional Neural Imaging. |
| Adam S Charles, Nathan Cermak, Rifqi O Affan, Benjamin B Scott, Jackie Schiller, Gal Mishne. IEEE Trans Image Process. 2022;31:3509-3524. |
Disruption of Brainstem Structural Connectivity in REM Sleep Behavior Disorder Using 7 Tesla Magnetic Resonance Imaging. |
| María G García-Gomar, Aleksandar Videnovic, Kavita Singh, Matthew Stauder, Laura D Lewis, Lawrence L Wald, Bruce R Rosen, Marta Bianciardi. Mov Disord. 2022 Apr;37(4):847-853. |
Imaging of the pial arterial vasculature of the human brain in vivo using high-resolution 7T time-of-flight angiography. |
| Saskia Bollmann, Hendrik Mattern, Michaël Bernier, Simon D Robinson, Daniel Park, Oliver Speck, Jonathan R Polimeni. Elife 2022 Apr 29;11:e71186. |
Laminar-Specific Functional Connectivity Mapping with Multi-Slice Line-Scanning fMRI. |
| Sangcheon Choi, Hang Zeng, Yi Chen, Filip Sobczak, Chunqi Qian, Xin Yu. Cerebral Cortex. 2022 Feb; bhab497. |
Focal fMRI signal enhancement with implantable inductively coupled detectors. |
| Yi Chen, Qi Wang, Sangcheon Choi, Hang Zeng, Kengo Takahashi, Chunqi Qian, Xin Yu. Neuroimage 2022 Feb 15;247:118793. |
Scalable thousand channel penetrating microneedle arrays on flex for multimodal and large area coverage brain-machine interfaces. |
| Sang Heon Lee, Martin Thunemann, Keundong Lee, Daniel R. Cleary, Karen J. Tonsfeldt, Hongseok Oh, Farid Azzazy, Youngbin Tchoe, Andrew M. Bourhis, Lorraine Hossain, Yun Goo Ro, Atsunori Tanaka, Kıvılcım Kılıç, Anna Devor, Shadi A. Dayeh. Adv. Funct. Mater.2022, 32, 2112045. |
Cerebrospinal fluid dynamics coupled to the global circulation in holistic setting: Mathematical models, numerical methods and applications. |
| Eleuterio Francisco Toro, Morena Celant, Qinghui Zhang, Christian Contarino, Nivedita Agarwal, Andreas Linninger, Lucas Omar Muller. Int J Numer Method Biomed Eng. 2022 Jan;38(1):e3532. |
Neurophotonic tools for microscopic measurements and manipulation: status report. |
| Ahmed S Abdelfattah, Sapna Ahuja, Taner Akkin, Srinivasa Rao Allu, Joshua Brake, David A Boas, Erin M Buckley, Robert E Campbell, Anderson I Chen, Xiaojun Cheng, Tomáš Čižmár, Irene Costantini, Massimo De Vittorio, Anna Devor, Patrick R Doran, Mirna El Khatib, Valentina Emiliani, Natalie Fomin-Thunemann, Yeshaiahu Fainman, Tomas Fernandez-Alfonso, Christopher G L Ferri, Ariel Gilad, Xue Han, Andrew Harris, Elizabeth M C Hillman, Ute Hochgeschwender, Matthew G Holt, Na Ji, Kıvılcım Kılıç, Evelyn M R Lake, Lei Li, Tianqi Li, Philipp Mächler, Evan W Miller, Rickson C Mesquita, K M Naga Srinivas Nadella, U Valentin Nägerl, Yusuke Nasu, Axel Nimmerjahn, Petra Ondráčková, Francesco S Pavone, Citlali Perez Campos, Darcy S Peterka, Filippo Pisano, Ferruccio Pisanello, Francesca Puppo, Bernardo L Sabatini, Sanaz Sadegh, Sava Sakadzic, Shy Shoham, Sanaya N Shroff, R Angus Silver, Ruth R Sims, Spencer L Smith, Vivek J Srinivasan, Martin Thunemann, Lei Tian, Lin Tian, Thomas Troxler, Antoine Valera, Alipasha Vaziri, Sergei A Vinogradov, Flavia Vitale, Lihong V Wang, Hana Uhlířová, Chris Xu, Changhuei Yang, Mu-Han Yang, Gary Yellen, Ofer Yizhar, Yongxin Zhao. Neurophotonics. 2022 Jan;9(Suppl 1):013001. |
Mind, brain, body, and neuroethics: a conversation with Karen Rommelfanger. |
| Anna Devor. Neurophotonics 2022 Jan; 9(1): 010101. |
How pushing the spatiotemporal resolution of fMRI can advance neuroscience. |
| Luca Vizioli, Essa Yacoub, Laura D Lewis. Prog Neurobiol. 2021 Dec;207:102184. |
Simultaneous pure T2 and varying T2′-weighted BOLD fMRI using Echo Planar Time-resolved Imaging for mapping cortical-depth dependent responses. |
| Fuyixue Wang, Zijing Dong, Lawrence L Wald, Jonathan R Polimeni, Kawin Setsompop. Neuroimage 2021 Dec 15;245:118641. |
Contribution of animal models toward understanding resting state functional connectivity. |
| Patricia Pais-Roldán, Celine Mateo, Wen-Ju Pan, Ben Acland, David Kleinfeld, Lawrence H Snyder, Xin Yu, Shella Keilholz. Neuroimage 2021 Dec 15;245:118630. |
Investigating mechanisms of fast BOLD responses: The effects of stimulus intensity and of spatial heterogeneity of hemodynamics. |
| Jingyuan E Chen, Gary H Glover, Nina E Fultz, Bruce R Rosen, Jonathan R Polimeni, Laura D Lewis. Neuroimage 2021 Dec 15;245:118658. |
Imaging faster neural dynamics with fast fMRI: A need for updated models of the hemodynamic response. |
| Jonathan R Polimeni, Laura D Lewis. Prog Neurobiol. 2021 Dec;207:102174. |
The Global Configuration of Visual Stimuli Alters Co-Fluctuations of Cross-Hemispheric Human Brain Activity. |
| Shahin Nasr, David Kleinfeld, Jonathan R Polimeni. J Neurosci. 2021 Nov 24;41(47):9756-9766. |
Decoding of cortex-wide brain activity from local recordings of neural potentials. |
| Xin Liu, Chi Ren, Zhisheng Huang, Madison Wilson, Jeong-Hoon Kim, Yichen Lu, Mehrdad Ramezani, Takaki Komiyama, Duygu Kuzum. J Neural Eng. 2021 Nov 15;18(6):10.1088/1741-2552/ac33e7. |
A line through the brain: implementation of human line-scanning at 7T for ultra-high spatiotemporal resolution fMRI. |
| Luisa Raimondo, Tomas Knapen, Lcaro A F Oliveira, Xin Yu, Serge O Dumoulin, Wietske van der Zwaag, Jeroen C W Siero. J Cereb Blood Flow Metab. 2021 Nov;41(11):2831-2843. |
Assessment of single-vessel cerebral blood velocity by phase contrast fMRI. |
| Xuming Chen, Yuanyuan Jiang, Sangcheon Choi, Rolf Pohmann, Klaus Scheffler, David Kleinfeld, Xin Yu. PLoS Biol. 2021 Sep 9;19(9):e3000923. |
Decoding the brain state-dependent relationship between pupil dynamics and resting state fMRI signal fluctuation. |
| Filip Sobczak, Patricia Pais-Roldán, Kengo Takahashi, Xin Yu. Elife 2021 Aug 31;10:e68980. |
Ediorial: Diversity is our Strength. |
| Anna Devor. Neurophotonics. 2021 Jul;8(3):030101. |
A Suite of Neurophotonic Tools to Underpin the Contribution of Internal Brain States in fMRI. |
| Philipp Mächler, Thomas Broggini, Celine Mateo, Martin Thunemann, Natalie Fomin-Thunemann, Patrick R Doran, Ikbal Sencan, Kivilcim Kilic, Michèle Desjardins, Hana Uhlirova, Mohammad A Yaseen, David A Boas, Andreas A Linninger, Massimo Vergassola, Xin Yu, Laura D Lewis, Jonathan R Polimeni, Bruce R Rosen, Sava Sakadžić, Richard B Buxton, Martin Lauritzen, David Kleinfeld, Anna Devor. Curr Opin Biomed Eng. 2021 Jun;18:100273. |