My Bibliography

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Noetscher GM, Tang D, Nummenmaa AR, Bingham CS, McIntyre CC, Makaroff SN. Estimations of Charge Deposition onto Convoluted Axon Surfaces within Extracellular Electric Fields. IEEE Trans Biomed Eng. 2023 Aug 3;PP. doi: 10.1109/TBME.2023.3299734. [Epub ahead of print] PubMed PMID: 37535481; NIHMSID:NIHMS1931642.

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Makaroff SN, Nummenmaa AR, Noetscher GM, Qi Z, McIntyre CC, Bingham CS. Influence of charges deposited on membranes of human hyperdirect pathway axons on depolarization during subthalamic deep brain stimulation. J Neural Eng. 2023 Jul 19;20(4). doi: 10.1088/1741-2552/ace5de. PubMed PMID: 37429285; PubMed Central PMCID: PMC10542971.

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Navarro de Lara LI, Stockmann JP, Meng Q, Keil B, Mareyam A, Uluç I, Daneshzand M, Makarov S, Wald LL, Nummenmaa A. A novel whole-head RF coil design tailored for concurrent multichannel brain stimulation and imaging at 3T. Brain Stimul. 2023 Jul-Aug;16(4):1021-1031. doi: 10.1016/j.brs.2023.05.025. Epub 2023 Jun 10. PubMed PMID: 37307872; PubMed Central PMCID: PMC10499022.

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Eldaief MC, McMains S, Izquierdo-Garcia D, Daneshzand M, Nummenmaa A, Braga RM. Network-specific metabolic and haemodynamic effects elicited by non-invasive brain stimulation. Nat Ment Health. 2023 May;1(5):346-360. doi: 10.1038/s44220-023-00046-8. Epub 2023 May 1. PubMed PMID: 37982031; PubMed Central PMCID: PMC10655825.

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Makaroff SN, Nguyen H, Meng Q, Lu H, Nummenmaa AR, Deng ZD. Modeling transcranial magnetic stimulation coil with magnetic cores. J Neural Eng. 2023 Jan 25;20(1). doi: 10.1088/1741-2552/acae0d. PubMed PMID: 36548994; PubMed Central PMCID: PMC10481791.

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Weise K, Wartman WA, Knösche TR, Nummenmaa AR, Makarov SN. The effect of meninges on the electric fields in TES and TMS. Numerical modeling with adaptive mesh refinement. Brain Stimul. 2022 May-Jun;15(3):654-663. doi: 10.1016/j.brs.2022.04.009. Epub 2022 Apr 18. PubMed PMID: 35447379.

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Makarov SN, Wartman WA, Noetscher GM, Fujimoto K, Zaidi T, Burnham EH, Daneshzand M, Nummenmaa A. Degree of improving TMS focality through a geometrically stable solution of an inverse TMS problem. Neuroimage. 2021 Nov 1;241:118437. doi: 10.1016/j.neuroimage.2021.118437. Epub 2021 Jul 28. PubMed PMID: 34332043; PubMed Central PMCID: PMC8561647.

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Fan Q, Polackal MN, Tian Q, Ngamsombat C, Nummenmaa A, Witzel T, Klawiter EC, Huang SY. Scan-rescan repeatability of axonal imaging metrics using high-gradient diffusion MRI and statistical implications for study design. Neuroimage. 2021 Oct 15;240:118323. doi: 10.1016/j.neuroimage.2021.118323. Epub 2021 Jul 1. PubMed PMID: 34216774; PubMed Central PMCID: PMC8646020.

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Makarov SN, Golestanirad L, Wartman WA, Nguyen BT, Noetscher GM, Ahveninen JP, Fujimoto K, Weise K, Nummenmaa AR. Boundary element fast multipole method for modeling electrical brain stimulation with voltage and current electrodes. J Neural Eng. 2021 Aug 19;18(4). doi: 10.1088/1741-2552/ac17d7. PubMed PMID: 34311449; PubMed Central PMCID: PMC8783394.

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Daneshzand M, Makarov SN, de Lara LIN, Guerin B, McNab J, Rosen BR, Hämäläinen MS, Raij T, Nummenmaa A. Rapid computation of TMS-induced E-fields using a dipole-based magnetic stimulation profile approach. Neuroimage. 2021 Aug 15;237:118097. doi: 10.1016/j.neuroimage.2021.118097. Epub 2021 Apr 30. PubMed PMID: 33940151; PubMed Central PMCID: PMC8353625.

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Makarov SN, Hamalainen M, Okada Y, Noetscher GM, Ahveninen J, Nummenmaa A. Boundary Element Fast Multipole Method for Enhanced Modeling of Neurophysiological Recordings. IEEE Trans Biomed Eng. 2021 Jan;68(1):308-318. doi: 10.1109/TBME.2020.2999271. Epub 2020 Dec 21. PubMed PMID: 32746015; PubMed Central PMCID: PMC7704617.

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Navarro de Lara LI, Daneshzand M, Mascarenas A, Paulson D, Pratt K, Okada Y, Raij T, Makarov SN, Nummenmaa A. A 3-axis coil design for multichannel TMS arrays. Neuroimage. 2021 Jan 1;224:117355. doi: 10.1016/j.neuroimage.2020.117355. Epub 2020 Sep 9. PubMed PMID: 32916290; PubMed Central PMCID: PMC7837414.

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Fan Q, Nummenmaa A, Witzel T, Ohringer N, Tian Q, Setsompop K, Klawiter EC, Rosen BR, Wald LL, Huang SY. Axon diameter index estimation independent of fiber orientation distribution using high-gradient diffusion MRI. Neuroimage. 2020 Nov 15;222:117197. doi: 10.1016/j.neuroimage.2020.117197. Epub 2020 Aug 1. PubMed PMID: 32745680; PubMed Central PMCID: PMC7736138.

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Li S, Eshghi M, Khan S, Tian Q, Joutsa J, Ou Y, Wang QM, Kong J, Rosen BR, Ahveninen J, Nummenmaa A. Localizing central swallowing functions by combining non-invasive brain stimulation with neuroimaging. Brain Stimul. 2020 Sep-Oct;13(5):1207-1210. doi: 10.1016/j.brs.2020.06.003. Epub 2020 Jun 3. PubMed PMID: 32504829; PubMed Central PMCID: PMC7494555.

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Makarov SN, Wartman WA, Daneshzand M, Fujimoto K, Raij T, Nummenmaa A. A software toolkit for TMS electric-field modeling with boundary element fast multipole method: an efficient MATLAB implementation. J Neural Eng. 2020 Aug 4;17(4):046023. doi: 10.1088/1741-2552/ab85b3. PubMed PMID: 32235065.

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Navarro de Lara LI, Golestanirad L, Makarov SN, Stockmann JP, Wald LL, Nummenmaa A. Evaluation of RF interactions between a 3T birdcage transmit coil and transcranial magnetic stimulation coils using a realistically shaped head phantom. Magn Reson Med. 2020 Aug;84(2):1061-1075. doi: 10.1002/mrm.28162. Epub 2020 Jan 23. PubMed PMID: 31971632; PubMed Central PMCID: PMC7180091.

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Huang SY, Tian Q, Fan Q, Witzel T, Wichtmann B, McNab JA, Daniel Bireley J, Machado N, Klawiter EC, Mekkaoui C, Wald LL, Nummenmaa A. High-gradient diffusion MRI reveals distinct estimates of axon diameter index within different white matter tracts in the in vivo human brain. Brain Struct Funct. 2020 May;225(4):1277-1291. doi: 10.1007/s00429-019-01961-2. Epub 2019 Sep 28. PubMed PMID: 31563995; PubMed Central PMCID: PMC7101261.

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Yu F, Fan Q, Tian Q, Ngamsombat C, Machado N, Bireley JD, Russo AW, Nummenmaa A, Witzel T, Wald LL, Klawiter EC, Huang SY. Imaging G-Ratio in Multiple Sclerosis Using High-Gradient Diffusion MRI and Macromolecular Tissue Volume. AJNR Am J Neuroradiol. 2019 Nov;40(11):1871-1877. doi: 10.3174/ajnr.A6283. Epub 2019 Nov 6. PubMed PMID: 31694819; PubMed Central PMCID: PMC6975105.

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Fan Q, Tian Q, Ohringer NA, Nummenmaa A, Witzel T, Tobyne SM, Klawiter EC, Mekkaoui C, Rosen BR, Wald LL, Salat DH, Huang SY. Age-related alterations in axonal microstructure in the corpus callosum measured by high-gradient diffusion MRI. Neuroimage. 2019 May 1;191:325-336. doi: 10.1016/j.neuroimage.2019.02.036. Epub 2019 Feb 18. PubMed PMID: 30790671; PubMed Central PMCID: PMC6467051.

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Htet AT, Saturnino GB, Burnham EH, Noetscher GM, Nummenmaa A, Makarov SN. Comparative performance of the finite element method and the boundary element fast multipole method for problems mimicking transcranial magnetic stimulation (TMS). J Neural Eng. 2019 Apr;16(2):024001. doi: 10.1088/1741-2552/aafbb9. Epub 2019 Jan 3. PubMed PMID: 30605893; PubMed Central PMCID: PMC6546501.

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Zolj A, Makarov SN, de Lara LN, Nummenmaa A. Electrically Small Dipole Antenna Probe for Quasistatic Electric Field Measurements in Transcranial Magnetic Stimulation. IEEE Trans Magn. 2019 Jan;55(1). doi: 10.1109/TMAG.2018.2875882. Epub 2018 Nov 2. PubMed PMID: 31105328; PubMed Central PMCID: PMC6519735.

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Makarov SN, Noetscher GM, Raij T, Nummenmaa A. A Quasi-Static Boundary Element Approach With Fast Multipole Acceleration for High-Resolution Bioelectromagnetic Models. IEEE Trans Biomed Eng. 2018 Dec;65(12):2675-2683. doi: 10.1109/TBME.2018.2813261. Epub 2018 Mar 7. PubMed PMID: 29993385; PubMed Central PMCID: PMC7388683.

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Fan Q, Nummenmaa A, Wichtmann B, Witzel T, Mekkaoui C, Schneider W, Wald LL, Huang SY. Validation of diffusion MRI estimates of compartment size and volume fraction in a biomimetic brain phantom using a human MRI scanner with 300 mT/m maximum gradient strength. Neuroimage. 2018 Nov 15;182:469-478. doi: 10.1016/j.neuroimage.2018.01.004. Epub 2018 Jan 12. PubMed PMID: 29337276; PubMed Central PMCID: PMC6043413.

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Raij T, Nummenmaa A, Marin MF, Porter D, Furtak S, Setsompop K, Milad MR. Prefrontal Cortex Stimulation Enhances Fear Extinction Memory in Humans. Biol Psychiatry. 2018 Jul 15;84(2):129-137. doi: 10.1016/j.biopsych.2017.10.022. Epub 2017 Nov 6. PubMed PMID: 29246436; PubMed Central PMCID: PMC5936658.

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Navarro de Lara LI, Rad LG, Makarov SN, Stockmann J, Wald LL, Nummenmaa A. Simulations of a birdcage coil B(1)+ field on a human body model for designing a 3T multichannel TMS/MRI head coil array. Annu Int Conf IEEE Eng Med Biol Soc. 2018 Jul;2018:4752-4755. doi: 10.1109/EMBC.2018.8513208. PubMed PMID: 30441411; PubMed Central PMCID: PMC8439551.

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Fan Q, Nummenmaa A, Wichtmann B, Witzel T, Mekkaoui C, Schneider W, Wald LL, Huang SY. A comprehensive diffusion MRI dataset acquired on the MGH Connectome scanner in a biomimetic brain phantom. Data Brief. 2018 Jun;18:334-339. doi: 10.1016/j.dib.2018.03.021. eCollection 2018 Jun. PubMed PMID: 29896520; PubMed Central PMCID: PMC5996223.

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Setsompop K, Fan Q, Stockmann J, Bilgic B, Huang S, Cauley SF, Nummenmaa A, Wang F, Rathi Y, Witzel T, Wald LL. High-resolution in vivo diffusion imaging of the human brain with generalized slice dithered enhanced resolution: Simultaneous multislice (gSlider-SMS). Magn Reson Med. 2018 Jan;79(1):141-151. doi: 10.1002/mrm.26653. Epub 2017 Mar 5. PubMed PMID: 28261904; PubMed Central PMCID: PMC5585027.

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Diana M, Raij T, Melis M, Nummenmaa A, Leggio L, Bonci A. Rehabilitating the addicted brain with transcranial magnetic stimulation. Nat Rev Neurosci. 2017 Nov;18(11):685-693. doi: 10.1038/nrn.2017.113. Epub 2017 Sep 29. Review. PubMed PMID: 28951609.

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Makarov S, Pascual Leone A, Nummenmaa A. Researching Fiber Networks: Computational Modeling of Complex Fibrous Tissue Geometries. IEEE Pulse. 2017 Jul-Aug;8(4):58-61. doi: 10.1109/MPUL.2017.2701490. PubMed PMID: 28715318.

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Makarov SN, Noetscher GM, Yanamadala J, Piazza MW, Louie S, Prokop A, Nazarian A, Nummenmaa A. Virtual Human Models for Electromagnetic Studies and Their Applications. IEEE Rev Biomed Eng. 2017;10:95-121. doi: 10.1109/RBME.2017.2722420. Epub 2017 Jun 30. Review. PubMed PMID: 28682265; PubMed Central PMCID: PMC10502908.

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Fan Q, Nummenmaa A, Polimeni JR, Witzel T, Huang SY, Wedeen VJ, Rosen BR, Wald LL. HIgh b-value and high Resolution Integrated Diffusion (HIBRID) imaging. Neuroimage. 2017 Apr 15;150:162-176. doi: 10.1016/j.neuroimage.2017.02.002. Epub 2017 Feb 7. PubMed PMID: 28188913; PubMed Central PMCID: PMC5501959.

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Tian Q, Rokem A, Folkerth RD, Nummenmaa A, Fan Q, Edlow BL, McNab JA. Q-space truncation and sampling in diffusion spectrum imaging. Magn Reson Med. 2016 Dec;76(6):1750-1763. doi: 10.1002/mrm.26071. Epub 2016 Jan 13. PubMed PMID: 26762670; PubMed Central PMCID: PMC4942411.

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Makris N, Rathi Y, Mouradian P, Bonmassar G, Papadimitriou G, Ing WI, Yeterian EH, Kubicki M, Eskandar EN, Wald LL, Fan Q, Nummenmaa A, Widge AS, Dougherty DD. Variability and anatomical specificity of the orbitofrontothalamic fibers of passage in the ventral capsule/ventral striatum (VC/VS): precision care for patient-specific tractography-guided targeting of deep brain stimulation (DBS) in obsessive compulsive disorder (OCD). Brain Imaging Behav. 2016 Dec;10(4):1054-1067. doi: 10.1007/s11682-015-9462-9. PubMed PMID: 26518214; PubMed Central PMCID: PMC4851930.

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Okada Y, Hämäläinen M, Pratt K, Mascarenas A, Miller P, Han M, Robles J, Cavallini A, Power B, Sieng K, Sun L, Lew S, Doshi C, Ahtam B, Dinh C, Esch L, Grant E, Nummenmaa A, Paulson D. BabyMEG: A whole-head pediatric magnetoencephalography system for human brain development research. Rev Sci Instrum. 2016 Sep;87(9):094301. doi: 10.1063/1.4962020. PubMed PMID: 27782541.

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Makarov SN, Pascual-Leone A, Nummenmaa A. Modeling fiber-like conductivity structures via the boundary element method using thin-wire approximation. I construction of basis functions. Annu Int Conf IEEE Eng Med Biol Soc. 2016 Aug;2016:6473-6476. doi: 10.1109/EMBC.2016.7592211. PubMed PMID: 28269729.

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Stenroos M, Nummenmaa A. Incorporating and Compensating Cerebrospinal Fluid in Surface-Based Forward Models of Magneto- and Electroencephalography. PLoS One. 2016;11(7):e0159595. doi: 10.1371/journal.pone.0159595. eCollection 2016. PubMed PMID: 27472278; PubMed Central PMCID: PMC4966911.

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Huang SY, Tobyne SM, Nummenmaa A, Witzel T, Wald LL, McNab JA, Klawiter EC. Characterization of Axonal Disease in Patients with Multiple Sclerosis Using High-Gradient-Diffusion MR Imaging. Radiology. 2016 Jul;280(1):244-51. doi: 10.1148/radiol.2016151582. Epub 2016 Feb 9. PubMed PMID: 26859256; PubMed Central PMCID: PMC4934517.

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Sundaram P, Nummenmaa A, Wells W, Orbach D, Orringer D, Mulkern R, Okada Y. Direct neural current imaging in an intact cerebellum with magnetic resonance imaging. Neuroimage. 2016 May 15;132:477-490. doi: 10.1016/j.neuroimage.2016.01.059. Epub 2016 Feb 17. PubMed PMID: 26899788; PubMed Central PMCID: PMC4873157.

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Fan Q, Witzel T, Nummenmaa A, Van Dijk KRA, Van Horn JD, Drews MK, Somerville LH, Sheridan MA, Santillana RM, Snyder J, Hedden T, Shaw EE, Hollinshead MO, Renvall V, Zanzonico R, Keil B, Cauley S, Polimeni JR, Tisdall D, Buckner RL, Wedeen VJ, Wald LL, Toga AW, Rosen BR. MGH-USC Human Connectome Project datasets with ultra-high b-value diffusion MRI. Neuroimage. 2016 Jan 1;124(Pt B):1108-1114. doi: 10.1016/j.neuroimage.2015.08.075. Epub 2015 Sep 10. PubMed PMID: 26364861; PubMed Central PMCID: PMC4651764.

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Huang SY, Nummenmaa A, Witzel T, Duval T, Cohen-Adad J, Wald LL, McNab JA. The impact of gradient strength on in vivo diffusion MRI estimates of axon diameter. Neuroimage. 2015 Feb 1;106:464-72. doi: 10.1016/j.neuroimage.2014.12.008. Epub 2014 Dec 9. PubMed PMID: 25498429; PubMed Central PMCID: PMC4285777.

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Fan Q, Nummenmaa A, Witzel T, Zanzonico R, Keil B, Cauley S, Polimeni JR, Tisdall D, Van Dijk KR, Buckner RL, Wedeen VJ, Rosen BR, Wald LL. Investigating the capability to resolve complex white matter structures with high b-value diffusion magnetic resonance imaging on the MGH-USC Connectom scanner. Brain Connect. 2014 Nov;4(9):718-26. doi: 10.1089/brain.2014.0305. PubMed PMID: 25287963; PubMed Central PMCID: PMC4238244.

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Nummenmaa A, McNab JA, Savadjiev P, Okada Y, Hämäläinen MS, Wang R, Wald LL, Pascual-Leone A, Wedeen VJ, Raij T. Targeting of white matter tracts with transcranial magnetic stimulation. Brain Stimul. 2014 Jan-Feb;7(1):80-4. doi: 10.1016/j.brs.2013.10.001. Epub 2013 Oct 16. PubMed PMID: 24220599; PubMed Central PMCID: PMC3938327.

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Nummenmaa A, Stenroos M, Ilmoniemi RJ, Okada YC, Hämäläinen MS, Raij T. Comparison of spherical and realistically shaped boundary element head models for transcranial magnetic stimulation navigation. Clin Neurophysiol. 2013 Oct;124(10):1995-2007. doi: 10.1016/j.clinph.2013.04.019. Epub 2013 Jul 25. PubMed PMID: 23890512; PubMed Central PMCID: PMC3790855.

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Lin FH, Witzel T, Raij T, Ahveninen J, Tsai KW, Chu YH, Chang WT, Nummenmaa A, Polimeni JR, Kuo WJ, Hsieh JC, Rosen BR, Belliveau JW. fMRI hemodynamics accurately reflects neuronal timing in the human brain measured by MEG. Neuroimage. 2013 Sep;78:372-84. doi: 10.1016/j.neuroimage.2013.04.017. Epub 2013 Apr 13. PubMed PMID: 23591071; PubMed Central PMCID: PMC3682657.

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Chang WT, Nummenmaa A, Witzel T, Ahveninen J, Huang S, Tsai KW, Chu YH, Polimeni JR, Belliveau JW, Lin FH. Whole-head rapid fMRI acquisition using echo-shifted magnetic resonance inverse imaging. Neuroimage. 2013 Sep;78:325-38. doi: 10.1016/j.neuroimage.2013.03.040. Epub 2013 Apr 4. PubMed PMID: 23563228; PubMed Central PMCID: PMC3672248.

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Ahveninen J, Huang S, Nummenmaa A, Belliveau JW, Hung AY, Jääskeläinen IP, Rauschecker JP, Rossi S, Tiitinen H, Raij T. Evidence for distinct human auditory cortex regions for sound location versus identity processing. Nat Commun. 2013;4:2585. doi: 10.1038/ncomms3585. PubMed PMID: 24121634; PubMed Central PMCID: PMC3932554.

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Lin FH, Nummenmaa A, Witzel T, Polimeni JR, Zeffiro TA, Wang FN, Belliveau JW. Physiological noise reduction using volumetric functional magnetic resonance inverse imaging. Hum Brain Mapp. 2012 Dec;33(12):2815-30. doi: 10.1002/hbm.21403. Epub 2011 Sep 23. PubMed PMID: 21954026; PubMed Central PMCID: PMC3586826.

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Kauramäki J, Jääskeläinen IP, Hänninen JL, Auranen T, Nummenmaa A, Lampinen J, Sams M. Two-stage processing of sounds explains behavioral performance variations due to changes in stimulus contrast and selective attention: an MEG study. PLoS One. 2012;7(10):e46872. doi: 10.1371/journal.pone.0046872. Epub 2012 Oct 11. PubMed PMID: 23071654; PubMed Central PMCID: PMC3469590.

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Lin FH, Tsai KW, Chu YH, Witzel T, Nummenmaa A, Raij T, Ahveninen J, Kuo WJ, Belliveau JW. Ultrafast inverse imaging techniques for fMRI. Neuroimage. 2012 Aug 15;62(2):699-705. doi: 10.1016/j.neuroimage.2012.01.072. Epub 2012 Jan 21. Review. PubMed PMID: 22285221; PubMed Central PMCID: PMC3377851.

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Tsai KW, Nummenmaa A, Witzel T, Chang WT, Kuo WJ, Lin FH. Multi-projection magnetic resonance inverse imaging of the human visuomotor system. Neuroimage. 2012 May 15;61(1):304-13. doi: 10.1016/j.neuroimage.2012.01.115. Epub 2012 Feb 4. PubMed PMID: 22326985; PubMed Central PMCID: PMC3342431.