CoChat
Sign Up
Cited by 1,817Optical Imaging and Spectroscopy TechniquesSpectroscopy and Chemometric AnalysesSpectroscopy Techniques in Biomedical and Chemical Research

HomER: A review of time-series analysis methods for near-infrared spectroscopy of the brain

Open access
Huppert, Theodore J., Diamond, Solomon G., Franceschini, Maria A., Boas, David A.·2009·Applied Optics
DOI 10.1364/ao.48.00d280PMC PMC2761652
Open this paper in CoChat — free account

Abstract

Near-infrared spectroscopy (NIRS) is a noninvasive neuroimaging tool for studying evoked hemodynamic changes within the brain. By this technique, changes in the optical absorption of light are recorded over time and are used to estimate the functionally evoked changes in cerebral oxyhemoglobin and deoxyhemoglobin concentrations that result from local cerebral vascular and oxygen metabolic effects during brain activity. Over the past three decades this technology has continued to grow, and today NIRS studies have found many niche applications in the fields of psychology, physiology, and cerebral pathology. The growing popularity of this technique is in part associated with a lower cost and increased portability of NIRS equipment when compared with other imaging modalities, such as functional magnetic resonance imaging and positron emission tomography. With this increasing number of applications, new techniques for the processing, analysis, and interpretation of NIRS data are continually being developed. We review some of the time-series and functional analysis techniques that are currently used in NIRS studies, we describe the practical implementation of various signal processing techniques for removing physiological, instrumental, and motion-artifact noise from optical data, and we discuss the unique aspects of NIRS analysis in comparison with other brain imaging modalities. These methods are described within the context of the MATLAB-based graphical user interface program, HomER, which we have developed and distributed to facilitate the processing of optical functional brain data.

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1364/ao.48.00d280

Cites

1 of 1 references verified0 citation errors · 0 not checkable

Statistics

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Cites

Flagged first, then by citations

Research works printed but not linked: 134

  1. [1]Villringer A Chance B Non-invasive optical spectroscopy and imaging of human brain function Trends Neurosci 20 435 442 1997 9347608
  2. [2]Yodh A Boas D Functional Imaging with Diffusing Light CRC Press 2003
  3. [3]Boas DA Dale AM Franceschini MA Diffuse optical imaging of brain activation: approaches to optimizing image sensitivity, resolution, and accuracy NeuroImage 23 Suppl 1 S275 S288 2004 15501097
  4. [4]Gibson AP Hebden JC Arridge SR Recent advances in diffuse optical imaging Phys Med Biol 50 R1 R43 2005 15773619
  5. [5]Gratton E Toronov V Wolf U Wolf M Webb A Measurement of brain activity by near-infrared light J Biomed Opt 10 011008 2005 15847574
  6. [7]Jöbsis FF Noninvasive, infrared monitoring of cerebral and myocardial oxygen sufficiency and circulatory parameters Science 198 1264 1267 1977 929199
  7. [8]Wyatt JS Cope M Delpy DT Wray S Reynolds EO Quantification of cerebral oxygenation and haemodynamics in sick newborn infants by near infrared spectrophotometry Lancet 2 1063 1066 1986 [online ed. Lancet 328, 1063–1066 2003 2877225
  8. [9]Chance B Leigh JS Miyake H Smith DS Nioka S Greenfeld R Finander M Kaufmann K Levy W Young M Comparison of time-resolved and -unresolved measurements of deoxyhemoglobin in brain Proc Natl Acad Sci USA 85 4971 4975 1988 3393526 PMC281669
  9. [10]Huppert TJ Hoge RD Diamond SG Franceschini MA Boas DA A temporal comparison of BOLD, ASL, and NIRS hemodynamic responses to motor stimuli in adult humans NeuroImage 29 368 382 2006 16303317 PMC2692693
  10. [11]Huppert T Franceschini M Boas D Frostig R Non-invasive imaging of cerebral activation with diffuse optical tomography In Vivo Optical Imaging of Brain Function 2 CRC Press 2009 26844320
  11. [12]Fukui Y Ajichi Y Okada E Monte Carlo prediction of near-infrared light propagation in realistic adult and neonatal head models Appl Opt 42 2881 2887 2003 12790436
  12. [13]Okada E Delpy DT Near-infrared light propagation in an adult head model. II. Effect of superficial tissue thickness on the sensitivity of the near-infrared spectroscopy signal Appl Opt 42 2915 2922 2003 12790440
  13. [14]Okada E Delpy DT Near-infrared light propagation in an adult head model. I. Modeling of low-level scattering in the cerebrospinal fluid layer Appl Opt 42 2906 2914 2003 12790439
  14. [15]Cope M Delpy DT Reynolds EO Wray S Wyatt J van der Zee P Methods of quantitating cerebral near infrared spectroscopy data Adv Exp Med Biol 222 183 189 1988 3129910
  15. [16]Boas D Culver J Stott J Dunn A Three dimensional Monte Carlo code for photon migration through complex heterogeneous media including the adult human head Opt Express 10 159 170 2002 19424345
  16. [17]Huppert T Hoge RD Dale AM Franceschini MA Boas DA A quantitative spatial comparison of diffuse optical imaging with BOLD- and ASL-based fMRI J Biomed Opt 11 064018 2006 17212541 PMC2670188
  17. [18]Heekeren HR Obrig H Wenzel R Eberle K Ruben J Villringer K Kurth R Villringer A Cerebral haemoglobin oxygenation during sustained visual stimulation—a near-infrared spectroscopy study Philos Trans R Soc London Ser B 352 743 750 1997 9232863 PMC1691960
  18. [19]Meek JH Elwell CE Khan MJ Romaya J Wyatt JS Delpy DT Zeki S Regional changes in cerebral haemodynamics as a result of a visual stimulus measured by near infrared spectroscopy Proc R Soc London Ser B 261 351 356 1995 8587877
  19. [20]Ruben J Wenzel R Obrig H Villringer K Bernarding J Hirth C Heekeren H Dirnagl U Villringer A Haemoglobin oxygenation changes during visual stimulation in the occipital cortex Adv Exp Med Biol 428 181 187 1997 9500046
  20. [21]Sakatani K Chen S Lichty W Zuo H Wang YP Cerebral blood oxygenation changes induced by auditory stimulation in newborn infants measured by near infrared spectroscopy Early Hum Dev 55 229 236 1999 10463787
  21. [22]Chen S Sakatani K Lichty W Ning P Zhao S Zuo H Auditory-evoked cerebral oxygenation changes in hypoxic-ischemic encephalopathy of newborn infants monitored by near infrared spectroscopy Early Hum Dev 67 113 121 2002 11893442
  22. [23]Zaramella P Freato F Amigoni A Salvadori S Marangoni P Suppjei A Schiavo B Chiandetti L Brain auditory activation measured by near-infrared spectroscopy (NIRS) in neonates Pediatr Res 49 213 219 2001 11158516
  23. [24]Franceschini MA Fantini S Thompson JH Culver JP Boas DA Hemodynamic evoked response of the sensorimotor cortex measured noninvasively with near-infrared optical imaging Psychophysiology 40 548 560 2003 14570163 PMC3786740
  24. [25]Obrig H Wolf T Doge C Hulsing JJ Dirnagl U Villringer A Cerebral oxygenation changes during motor and somatosensory stimulation in humans, as measured by near-infrared spectroscopy Adv Exp Med Biol 388 219 224 1996 8798815
  25. [26]Obrig H Hirth C Junge-Hulsing JG Doge C Wolf T Dirnagl U Villringer A Cerebral oxygenation changes in response to motor stimulation J Appl Physiol 81 1174 1183 1996 8889751
  26. [27]Colier WN Quaresima V Oeseburg B Ferrari M Human motor-cortex oxygenation changes induced by cyclic coupled movements of hand and foot Exp Brain Res 129 457 461 1999 10591917
  27. [28]Hirth C Obrig H Villringer K Thiel A Bernarding J Muhlnickel W Flor H Dirnagl U Villringer A Non-invasive functional mapping of the human motor cortex using near-infrared spectroscopy NeuroReport 7 1977 1981 1996 8905707
  28. [29]Kleinschmidt A Obrig H Requardt M Merboldt KD Dirnagl U Villringer A Frahm J Simultaneous recording of cerebral blood oxygenation changes during human brain activation by magnetic resonance imaging and near-infrared spectroscopy J Cereb Blood Flow Metab 16 817 826 1996 8784226
  29. [30]Kameyama M Fukuda M Yamagishi Y Sato T Uehara T Ito M Suto T Mikuni M Frontal lobe function in bipolar disorder: a multichannel near-infrared spectroscopy study NeuroImage 29 172 184 2006 16125979
  30. [31]Nagamitsu S Nagano M Yamashita Y Takashima S Matsuishi T Prefrontal cerebral blood volume patterns while playing video games–a near-infrared spectroscopy study Brain Dev 28 315 321 2006 16481139
  31. [32]Okamoto M Matsunami M Dan H Kohata T Kohyama K Dan I Prefrontal activity during taste encoding: an fNIRS study NeuroImage 31 796 806 2006 16473020
  32. [33]Sumitani S Tanaka T Tayoshi S Ota K Kameoka N Morimune M Shibuya-Tayoshi S Kinouchi S Ueno S Ohmori T Hemodynamic changes in the prefrontal cortex during mental works as measured by multi channel near-infrared spectroscopy (NIRS) J Med Invest 52 Suppl 302 303 2005 16366522
  33. [34]Sato H Takeuchi T Sakai KL Temporal cortex activation during speech recognition: an optical topography study Cognition 73 B55 66 1999 10585521
  34. [35]Adelson PD Nemoto E Scheuer M Painter M Morgan J Yonas H Noninvasive continuous monitoring of cerebral oxygenation periictally using near-infrared spectroscopy: a preliminary report Epilepsia (1909–1915, 1937–1950, 1952–1955, 1959-) 40 1484 1489 1999 10565573
  35. [36]Sokol DK Markand ON Daly EC Luerssen TG Malkoff MD Near infrared spectroscopy (NIRS) distinguishes seizure types Seizure: the Journal of the British Epilepsy Association 9 323 327 2000 10933986
  36. [37]Steinhoff BJ Herrendorf G Kurth C Ictal near infrared spectroscopy in temporal lobe epilepsy: a pilot study Seizure: Eur J Epilepsy 5 97 101 1996 8795123
  37. [38]Watanabe E Maki A Kawaguchi F Yamashita Y Koizumi H Mayanagi Y Noninvasive cerebral blood volume measurement during seizures using multichannel near infrared spectroscopic topography J Biomed Opt 5 287 290 2000 10958614
  38. [39]Buchheim K Obrig H Pannwitz Wv Muller A Heekeren H Villringer A Meierkord H Decrease in haemoglobin oxygenation during absence seizures in adult humans Neurosci Lett Suppl 354 119 122 2004 14698453
  39. [40]Watanabe E Nagahori Y Mayanagi Y Focus diagnosis of epilepsy using near-infrared spectroscopy Epilepsia (1909–1915, 1937–1950, 1952–1955, 1959-) 43 Suppl 9 50 55 2002 12383281
  40. [41]Fallgatter AJ Roesler M Sitzmann L Heidrich A Mueller TJ Strik WK Loss of functional hemispheric asymmetry in Alzheimer’s dementia assessed with near-infrared spectroscopy Brain Res Cognit Brain Res 6 67 72 1997 9395850
  41. [42]Hanlon EB Itzkan I Dasari RR Feld MS Ferrante RJ McKee AC Lathi D Kowall NW Near-infrared fluorescence spectroscopy detects Alzheimer’s disease in vitro Photochem Photobiol 70 236 242 1999 10461462
  42. [43]Hock C Villringer K Muller-Spahn F Hofmann M Schuh-Hofer S Heekeren H Wenzel R Dirnagl U Villringer A Near infrared spectroscopy in the diagnosis of Alzheimer’s disease Ann NY Acad Sci 777 22 29 1996 8624087
  43. [44]Rolfe P Wickramasinghe YA Thorniley MS Faris F Houston R Kai Z Yamakoshi K O’Brien S Doyle M Palmer K Spencer S Fetal and neonatal cerebral oxygen monitoring with NIRS: theory and practice Early Hum Dev 29 269 273 1992 1396250
  44. [45]Liebert A Wabnitz H Steinbrink J Moller M Macdonald R Rinneberg H Villringer A Obrig H Bedside assessment of cerebral perfusion in stroke patients based on optical monitoring of a dye bolus by time-resolved diffuse reflectance NeuroImage 24 426 435 2005 15627584
  45. [46]Orihashi K Sueda T Okada K Imai K Near-infrared spectroscopy for monitoring cerebral ischemia during selective cerebral perfusion Eur J Cardiothorac Surg 26 907 911 2004 15519181
  46. [47]Terborg C Bramer S Harscher S Simon M Witte OW Bedside assessment of cerebral perfusion reductions in patients with acute ischaemic stroke by near-infrared spectroscopy and indocyanine green J Neurol Neurosurg Psychiatry 75 38 42 2004 14707304 PMC1757454
  47. [48]Thiagarajah JR Papadopoulos MC Verkman AS Noninvasive early detection of brain edema in mice by near-infrared light scattering J Neorosci Res 80 293 299 2005 15765520
  48. [49]Chen WG Li PC Luo QM Zeng SQ Hu B Hemodynamic assessment of ischemic stroke with near-infrared spectroscopy Space Med Med Eng (Beijing) 13 84 89 2000 11543057
  49. [50]Nemoto EM Yonas H Kassam A Clinical experience with cerebral oximetry in stroke and cardiac arrest Crit Care Med 28 1052 1054 2000 10809281
  50. [51]Saitou H Yanagi H Hara S Tsuchiya S Tomura S Cerebral blood volume and oxygenation among poststroke hemiplegic patients: effects of 13 rehabilitation tasks measured by near-infrared spectroscopy Arch Phys Med Rehabil 81 1348 1356 2000 11030500
  51. [52]Vernieri F Rosato N Pauri F Tibuzzi F Passarelli F Rossini PM Near infrared spectroscopy and transcranial Doppler in monohemispheric stroke Eur Neurol 41 159 162 1999 10202248
  52. [53]Eschweiler GW Wegerer C Schlotter W Spandl C Stevens A Bartels M Buchkremer G Left prefrontal activation predicts therapeutic effects of repetitive transcranial magnetic stimulation (rTMS) in major depression Psychiatry Res 99 161 172 2000 11068197
  53. [54]Matsuo K Kato T Fukuda M Kato N Alteration of hemoglobin oxygenation in the frontal region in elderly depressed patients as measured by near-infrared spectroscopy J Neuropsychiatry Clin Neurosci 12 465 471 2000 11083163
  54. [55]Okada F Takahashi N Tokumitsu Y Dominance of the ‘nondominant’ hemisphere in depression J Affect Disord 37 13 21 1996 8682974
  55. [56]Matsuo K Kato N Kato T Decreased cerebral haemodynamic response to cognitive and physiological tasks in mood disorders as shown by near-infrared spectroscopy Psychol Med 32 1029 1037 2002 12214784
  56. [57]Suto T Fukuda M Ito M Uehara T Mikuni M Multichannel near-infrared spectroscopy in depression and schizophrenia: cognitive brain activation study Biol Psychiatry 55 501 511 2004 15023578
  57. [58]Fallgatter AJ Strik WK Reduced frontal functional asymmetry in schizophrenia during a cued continuous performance test assessed with near-infrared spectroscopy Schizophr Bull 26 913 919 2000 11087023
  58. [59]Okada F Tokumitsu Y Hoshi Y Tamura M Impaired interhemispheric integration in brain oxygenation and hemodynamics in schizophrenia Eur Arch Psychiatry Clin Neurosci 244 17 25 1994 7918697
  59. [60]Kubota Y Toichi M Shimizu M Mason RA Coconcea CM Findling RL Yamamoto K Calabrese JR Prefrontal activation during verbal fluency tests in schizophrenia—a near-infrared spectroscopy (NIRS) study Schizophr Res 77 65 73 2005 16005386
  60. [61]Shinba T Nagano M Kariya N Ogawa K Shinozaki T Shimosato S Hoshi Y Near-infrared spectroscopy analysis of frontal lobe dysfunction in schizophrenia Biol Psychiatry 55 154 164 2004 14732595
  61. [62]Watanabe A Kato T Cerebrovascular response to cognitive tasks in patients with schizophrenia measured by near-infrared spectroscopy Schizophr Bull 30 435 444 2004 15279058
  62. [63]Elwell CE Henty JR Leung TS Austin T Meek JH Delpy DT Wyatt JS Measurement of CMRO2 in neonates undergoing intensive care using near infrared s pectroscopy Adv Exp Med Biol 566 263 268 2005 16594161
  63. [64]Wilcox T Bortfeld H Woods R Wruck E Boas DA Using near-infrared spectroscopy to assess neural activation during object processing in infants J Biomed Opt 10 11010 2005 15847576 PMC1769348
  64. [65]Sowell ER Thompson PM Leonard CM Welcome SE Kan E Toga AW Longitudinal mapping of cortical thickness and brain growth in normal children J Neurosci 24 8223 8231 2004 15385605 PMC6729679
  65. [66]Perrey S Non-invasive NIR spectroscopy of human brain function during exercise Methods 45 289 299 2008 18539160
  66. [67]Ide K Secher NH Cerebral blood flow and metabolism during exercise Prog Neurobiol (Oxford) 61 397 414 2000 10727781
  67. [68]Mehagnoul-Schipper DJ Colier WN Jansen RW Reproducibility of orthostatic changes in cerebral oxygenation in healthy subjects aged 70 years or older Clin Physiol 21 77 84 2001 11168300
  68. [69]Franceschini MA Joseph DK Huppert TJ Diamond SG Boas DA Diffuse optical imaging of the whole head J Biomed Opt 11 054007 2006 17092156 PMC2637816
  69. [70]Zhang Y Brooks DH Franceschini MA Boas DA Eigenvector-based spatial filtering for reduction of physiological interference in diffuse optical imaging J Biomed Opt 10 011014 2005 15847580
  70. [71]Selb J Stott JJ Franceschini MA Sorensen AG Boas DA Improved sensitivity to cerebral hemodynamics during brain activation with a time-gated optical system: analytical model and experimental validation J Biomed Opt 10 011013 2005 15847579
  71. [72]Gratton E Fantini S Franceschini MA Gratton G Fabiani M Measurements of scattering and absorption changes in muscle and brain Philos Trans R Soc London Ser B 352 727 735 1997 9232861 PMC1691951
  72. [73]Wang L Jacques SL Zheng L MCML—Monte Carlo modeling of light transport in multi-layered tissues Comput Methods Programs Biomed 47 131 146 1995 7587160
  73. [74]Hiraoka M Firbank M Essenpreis M Cope M Arridge SR van der Zee P Delpy DT A Monte Carlo investigation of optical pathlength in inhomogeneous tissue and its application to near-infrared spectroscopy Phys Med Biol 38 1859 1876 1993 8108489
  74. [75]Flock ST Patterson MS Wilson BC Wyman DR Monte Carlo modeling of light propagation in highly scattering tissue—I: Model predictions and comparison with diffusion theory IEEE Trans Biomed Eng 36 1162 1168 1989 2606490
  75. [76]Flock ST Wilson BC Patterson MS Monte Carlo modeling of light propagation in highly scattering tissues—II: Comparison with measurements in phantoms IEEE Trans Biomed Eng 36 1169 1173 1989 2606491
  76. [77]Custo A Wells WM III Barnett AH Hillman EM Boas DA Effective scattering coefficient of the cerebral spinal fluid in adult head models for diffuse optical imaging Appl Opt 45 4747 4755 2006 16799690
  77. [78]Barbour RL Graber HL Chang J Barbour SLS Koo PC Aronson R MRI-guided optical tomography: prospectives and computation for a new imaging method IEEE Comput Sci Eng 2 63 77 1995
  78. [79]Zhang X Toronov VY Webb AG Spatial and temporal hemodynamic study of human primary visual cortex using simultaneous functional MRI and diffuse optical tomography 27th Annual International Conference of the Engineering in Medicine and Biology Society, 2005. IEEE-EMBS 2005 IEEE 2005 727 730 PMC3130336 17282286
  79. [80]Chang J Graber HL Koo PC Aronson R Barbour SL Barbour RL Optical imaging of anatomical maps derived from magnetic resonance images using time-independent optical sources IEEE Trans Med Imaging 16 68 77 1997 9050409
  80. [81]Huppert TJ Diamond SG Boas DA Direct estimation of evoked hemoglobin changes by multimodality fusion imaging J Biomed Opt 13 054031 2008 19021411 PMC2718838
  81. [82]Buxton RB Uludag K Dubowitz DJ Liu TT Modeling the hemodynamic response to brain activation Neuro-Image 23 Suppl 1 S220 S233 2004 15501093
  82. [83]Delpy DT Cope M van der Zee P Arridge S Wray S Wyatt J Estimation of optical pathlength through tissue from direct time of flight measurement Phys Med Biol 33 1433 1442 1988 3237772
  83. [85]Kocsis L Herman P Eke A The modified Beer–Lambert law revisited Phys Med Biol 51 N91 N98 2006 16481677
  84. [86]Strangman G Franceschini MA Boas DA Factors affecting the accuracy of near-infrared spectroscopy concentration calculations for focal changes in oxygenation parameters NeuroImage 18 865 879 2003 12725763
  85. [87]Yalavarthy PK Pogue BW Dehghani H Paulsen KD Weight-matrix structured regularization provides optimal generalized least-squares estimate in diffuse optical tomography Med Phys 34 2085 2098 2007 17654912
  86. [88]Hoshi Y Functional near-infrared optical imaging: utility and limitations in human brain mapping Psychophysiology 40 511 520 2003 14570159
  87. [89]Boas DA Gaudette T Strangman G Cheng X Marota JJ Mandeville JB The accuracy of near infrared spectroscopy and imaging during focal changes in cerebral hemodynamics NeuroImage 13 76 90 2001 11133311
  88. [90]Kohl M Nolte C Heekeren HR Horst S Scholz U Obrig H Villringer A Determination of the wavelength dependence of the differential pathlength factor from near-infrared pulse signals Phys Med Biol 43 1771 1782 1998 9651039
  89. [91]Boas DA Dale AM Simulation study of magnetic resonance imaging-guided cortically constrained diffuse optical tomography of human brain function Appl Opt 44 1957 1968 2005 15813532
  90. [92]Okui N Okada E Wavelength dependence of crosstalk in dual-wavelength measurement of oxy- and deoxyhemoglobin J Biomed Opt 10 11015 2005 15847581
  91. [93]Sato H Kiguchi M Kawaguchi F Maki A Practicality of wavelength selection to improve signal-to-noise ratio in near-infrared spectroscopy NeuroImage 21 1554 1562 2004 15050579
  92. [94]Cohen-Adad J Chapuisat S Doyon J Rossignol S Lina JM Benali H Lesage F Activation detection in diffuse optical imaging by means of the general linear model Med Image Anal 11 616 629 2007 17643341
  93. [95]Friston KJ Statistical Parametric Mapping: the Analysis of Functional Brain Images Elsevier/Academic 2007
  94. [96]Miyai I Tanabe HC Sase I Eda H Oda I Konishi I Tsunazawa Y Suzuki T Yanagida T Kubota K Cortical mapping of gait in humans: a near-infrared spectroscopic topography study NeuroImage 14 1186 1192 2001 11697950
  95. [97]Joseph DK Huppert TJ Franceschini MA Boas DA Design and validation of a time division multiplexed continuous wave diffuse optical tomography (DOT) system optimized for brain function imaging Appl Opt 45 8142 8151 2006 17068557
  96. [98]Boas DA Chen K Grebert D Franceschini MA Improving the diffuse optical imaging spatial resolution of the cerebral hemodynamic response to brain activation in humans Opt Lett 29 1506 1508 2004 15259728
  97. [99]Dale AM Optimal experimental design for event-related fMRI Hum Brain Mapp 8 109 114 1999 10524601 PMC6873302
  98. [100]Josephs O Henson RN Event-related functional magnetic resonance imaging: modelling, inference and optimization Philos Trans R Soc London Ser B 354 1215 1228 1999 10466147 PMC1692638
  99. [102]Wager TD Nichols TE Optimization of experimental design in fMRI: a general framework using a genetic algorithm NeuroImage 18 293 309 2003 12595184
  100. [103]Cannestra AF Pouratian N Shomer MH Toga AW Refractory periods observed by intrinsic signal and fluorescent dye imaging J Neurophysiol 80 1522 1532 1998 9744956
  101. [104]Sato H Kiguchi M Maki A Fuchino Y Obata A Yoro T Koizumi H Within-subject reproducibility of near-infrared spectroscopy signals in sensorimotor activation after 6 months J Biomed Opt 11 014021 2006 16526898
  102. [105]Sato H Fuchino Y Kiguchi M Katura T Maki A Yoro T Koizumi H Intersubject variability of near-infrared spectroscopy signals during sensorimotor cortex activation J Biomed Opt 10 44001 2005 16178635
  103. [106]Obrig H Neufang M Wenzel R Kohl M Steinbrink J Einhaupl K Villringer A Spontaneous low frequency oscillations of cerebral hemodynamics and metabolism in human adults NeuroImage 12 623 639 2000 11112395
  104. [107]Toronov V Franceschini MA Filiaci M Fantini S Wolf M Michalos A Gratton E Near-infrared study of fluctuations in cerebral hemodynamics during rest and motor stimulation: temporal analysis and spatial mapping Med Phys 27 801 815 2000 10798703
  105. [108]Diamond SG Huppert TJ Kolehmainen V Franceschini MA Kaipio JP Arridge SR Boas DA Physiological system identification with the Kalman filter in diffuse optical tomography Medical Image Computing and Computer-Assisted Intervention – MICCAI 2005, Vol. 3750 of Lecture Notes in Computer Science Springer 2005 649 656 16686015
  106. [109]Diamond SG Huppert TJ Kolehmainen V Franceschini MA Kaipio JP Arridge SR Boas DA Dynamic physiological modeling for functional diffuse optical tomography NeuroImage 30 88 101 2006 16242967 PMC2670202
  107. [110]von Siebenthal K Beran J Wolf M Keel M Dietz V Kundu S Bucher HU Cyclical fluctuations in blood pressure, heart rate and cerebral blood volume in preterm infants Brain Dev 21 529 534 1999 10598053
  108. [111]Montgomery DC Peck EA Vining GG Introduction to Linear Regression Analysis Wiley-Interscience 2006
  109. [112]Sato H Tanaka N Uchida M Hirabayashi Y Kanai M Ashida T Konishi I Maki A Wavelet analysis for detecting body-movement artifacts in optical topography signals NeuroImage 33 580 587 2006 16935008
  110. [113]Izzetoglu M Devaraj A Bunce S Onaral B Motion artifact cancellation in NIR spectroscopy using Wiener filtering IEEE Trans Biomed Eng 52 934 938 2005 15887543
  111. [114]Strangman G Boas DA Sutton JP Non-invasive neuroimaging using near-infrared light Biol Psychiatry 52 679 693 2002 12372658
  112. [115]Long C Brown EN Manoach D Solo V Spatiotemporal wavelet analysis for functional MRI NeuroImage 23 500 516 2004 15488399
  113. [116]Shimizu Y Barth M Windischberger C Moser E Thurner S Wavelet-based multifractal analysis of fMRI time series NeuroImage 22 1195 1202 2004 15219591
  114. [117]Baillet S Garnero L Marin G Hugonin JP Combined MEG and EEG source imaging by minimization of mutual information IEEE Trans Biomed Eng 46 522 534 1999 10230131
  115. [118]Prince S Kolehmainen V Kaipio JP Franceschini MA Boas D Arridge SR Time-series estimation of biological factors in optical diffusion tomography Phys Med Biol 48 1491 1504 2003 12817933
  116. [119]Luo H Puthusserypady S fMRI data analysis with nonstationary noise models: a Bayesian approach IEEE Trans Biomed Eng 54 1621 1630 2007 17867354
  117. [120]Glover GH Li TQ Ress D Image-based method for retrospective correction of physiological motion effects in fMRI: RETROICOR Magn Reson Med 44 162 167 2000 10893535
  118. [121]Birn RM Diamond JB Smith MA Bandettini PA Separating respiratory-variation-related fluctuations from neuronal-activity-related fluctuations in fMRI NeuroImage 31 1536 1548 2006 16632379
  119. [123]Chen H Yao D Liu Z A comparison of gamma and Gaussian dynamic convolution models of the fMRI BOLD response Magn Reson Imaging 23 83 88 2005 15733792
  120. [124]Zhang Y Brooks DH Boas DA A haemodynamic response function model in spatio-temporal diffuse optical tomography Phys Med Biol 50 4625 4644 2005 16177494
  121. [125]Cohen ER Ugurbil K Kim SG Effect of basal conditions on the magnitude and dynamics of the blood oxygenation level-dependent fMRI response J Cereb Blood Flow Metab 22 1042 1053 2002 12218410
  122. [126]Boverman G Fang Q Carp SA Miller EL Brooks DH Selb J Moore RH Kopans DB Boas DA Spatio-temporal imaging of the hemoglobin in the compressed breast with diffuse optical tomography Phys Med Biol 52 3619 3641 2007 17664563
  123. [127]Deneux T Faugeras O Using nonlinear models in fMRI data analysis: model selection and activation detection NeuroImage 32 1669 1689 2006 16844388
  124. [128]Riera JJ Watanabe J Kazuki I Naoki M Aubert E Ozaki T Kawashima R A state-space model of the hemodynamic approach: nonlinear filtering of BOLD signals NeuroImage 21 547 567 2004 14980557
  125. [129]Friston KJ Mechelli A Turner R Price CJ Nonlinear responses in fMRI: the Balloon model, Volterra kernels, and other hemodynamics NeuroImage 12 466 477 2000 10988040
  126. [130]Huppert TJ Allen MS Diamond SG Boas DA Estimating cerebral oxygen metabolism from fMRI with a dynamic multicompartment Windkessel model Hum Brain Mapp 2008 PMC2670946 18649348
  127. [131]Glover GH Deconvolution of impulse response in event-related BOLD fMRI NeuroImage 9 416 429 1999 10.1002/hbm.20628 10191170 · DOI
  128. [132]Plichta MM Heinzel S Ehlis AC Pauli P Fallgatter AJ Model-based analysis of rapid event-related functional near-infrared spectroscopy (NIRS) data: a parametric validation study NeuroImage 35 625 634 2007 17258472
  129. [133]Schroeter ML Bucheler MM Muller K Uludag K Obrig H Lohmann G Tittgemeyer M Villringer A von Cramon DY Towards a standard analysis for functional near-infrared imaging NeuroImage 21 283 290 2004 14741666
  130. [134]Hoge RD Franceschini MA Covolan RJ Huppert T Mandeville JB Boas DA Simultaneous recording of task-induced changes in blood oxygenation, volume, and flow using diffuse optical imaging and arterial spin-labeling MRI NeuroImage 25 701 707 2005 15808971
  131. [135]Steinbrink J Wabnitz H Obrig H Villringer A Rinneberg H Determining changes in NIR absorption using a layered model of the human head Phys Med Biol 46 879 896 2001 11277232
  132. [136]Wolf M Franceschini MA Paunescu LA Toronov V Michalos A Wolf U Gratton E Fantini S Absolute frequency-domain pulse oximetry of the brain: methodology and measurements Adv Exp Med Biol 530 61 73 2003 14562705
  133. [137]Brooksby B Srinivasan S Jiang S Dehghani H Pogue BW Paulsen KD Weaver J Kogel C Poplack SP Spectral priors improve near-infrared diffuse tomography more than spatial priors Opt Lett 30 1968 1970 2005 16092235
  134. [138]Li A Zhang Q Culver JP Miller EL Boas DA Reconstructing chromosphere concentration images directly by continuous-wave diffuse optical tomography Opt Lett 29 256 258 2004 14759043

Cited by

Sorted by citations

Authors
Huppert, T. J., Diamond, S. G., Franceschini, M. A., & Boas, D. A.
Affiliations
  • University of Pittsburgh Medical Center (US)
  • Massachusetts General Hospital (US)
ORCID
Venue
Applied Optics
Publisher
Optica Publishing Group
Published
2009-03-26
Volume
48
Issue
10
Pages
D280
ISSN
  • 0003-6935 (ISSN-L)
  • 1539-4522
DOI
10.1364/ao.48.00d280
PMC
PMC2761652
OpenAlex
W2029802912
Cited by
1,817
References
1
Citations by year
2026: 209 · 2025: 260 · 2024: 175 · 2023: 180 · 2022: 161 · 2021: 134 · 2020: 117 · 2019: 90 · 2018: 107 · 2017: 79 · 2016: 63 · 2015: 55 · 2014: 50 · 2013: 44 · 2012: 29
FWCI
4.28
Type
journal article
Language
en
Open access
Licence
Locations
  • Applied Optics (publishedVersion)
  • PubMed (publishedVersion)
  • PubMed Central (acceptedVersion)
Funders
  • National Institute on Aging (P30AG024827)
  • National Institute of Biomedical Imaging and Bioengineering (R01EB001954)
  • National Center for Research Resources (P41-RR-14075, P41RR014075)
Topics
  • Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Optical Imaging and Spectroscopy Techniques
  • Physical Sciences › Chemistry › Analytical Chemistry › Spectroscopy and Chemometric Analyses
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Biophysics › Spectroscopy Techniques in Biomedical and Chemical Research
Keywords
near-infrared spectroscopy, time series analysis, HOMER Pro, signal processing, artifact removal, motion artifacts, hemodynamic response, cerebral oxygenation, deoxyhemoglobin, functional neuroimaging, MATLAB graphical user interface
MeSH terms
Brain, Cerebrovascular Circulation, Hemodynamics, Hemoglobins, Humans, Models, Theoretical, Osmolar Concentration, Oxyhemoglobins, Signal Processing, Computer-Assisted, Software, Spectroscopy, Near-Infrared

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review