Neurophotonics

Article	Citations
Best practices for fNIRS publications	109
NIRS-KIT: a MATLAB toolbox for both resting-state and task fNIRS data analysis	107
Optical imaging and spectroscopy for the study of the human brain: status report	65
Analysis methods for measuring passive auditory fNIRS responses generated by a block-design paradigm	49
Deep learning in fNIRS: a review	43
Systemic physiology augmented functional near-infrared spectroscopy: a powerful approach to study the embodied human brain	34
Implantable photonic neural probes for light-sheet fluorescence brain imaging	33
Superconducting nanowire single-photon sensing of cerebral blood flow	33
Improved accuracy of cerebral blood flow quantification in the presence of systemic physiology cross-talk using multi-layer Monte Carlo modeling	31
Errata: Best practices for fNIRS publications	29
Comparison of short-channel separation and spatial domain filtering for removal of non-neural components in functional near-infrared spectroscopy signals	28
Continuous blood flow visualization with laser speckle contrast imaging during neurovascular surgery	27
Neurophotonic Tools for Microscopic Measurements and Manipulation: Status Report	27
Repeated transcranial photobiomodulation improves working memory of healthy older adults: behavioral outcomes of poststimulation including a three-week follow-up	22
Diffuse correlation spectroscopy: current status and future outlook	22
Evaluating a new generation of wearable high-density diffuse optical tomography technology via retinotopic mapping of the adult visual cortex	22
Processing pipeline for image reconstructed fNIRS analysis using both MRI templates and individual anatomy	21
Overview of extracellular vesicle characterization techniques and introduction to combined reflectance and fluorescence confocal microscopy to distinguish extracellular vesicle subpopulations	19
Design and validation of a mechanically flexible and ultra-lightweight high-density diffuse optical tomography system for functional neuroimaging of newborns	19
Investigation of effect of modulation frequency on high-density diffuse optical tomography image quality	18
Optimization of time domain diffuse correlation spectroscopy parameters for measuring brain blood flow	18
Reducing false discoveries in resting-state functional connectivity using short channel correction: an fNIRS study	16
Dynamic infrared imaging of cerebrospinal fluid tracer influx into the brain	16
Aberration correction in stimulated emission depletion microscopy to increase imaging depth in living brain tissue	16
Wearable, high-density fNIRS and diffuse optical tomography technologies: a perspective	15

Concurrent OCT and OCT angiography of retinal neurovascular degeneration in the 5XFAD Alzheimer’s disease mice	15
Group-level cortical functional connectivity patterns using fNIRS: assessing the effect of bilingualism in young infants	15
Deep learning-based motion artifact removal in functional near-infrared spectroscopy	15
Identifying optimal parameters for infrared neural stimulation in the peripheral nervous system	14
How much do time-domain functional near-infrared spectroscopy (fNIRS) moments improve estimation of brain activity over traditional fNIRS?	14
Quantitative birefringence microscopy for imaging the structural integrity of CNS myelin following circumscribed cortical injury in the rhesus monkey	14
Using functional near-infrared spectroscopy to study the early developing brain: future directions and new challenges	14
Using near-infrared spectroscopy and a random forest regressor to estimate intracranial pressure	14
Transcranial photobiomodulation (808 nm) attenuates pentylenetetrazole-induced seizures by suppressing hippocampal neuroinflammation, astrogliosis, and microgliosis in peripubertal rats	13
Current opinions on the present and future use of functional near-infrared spectroscopy in psychiatry	13
Spatiotemporal patterns of spontaneous brain activity: a mini-review	13
Enhanced spatiotemporal resolution imaging of neuronal activity using joint electroencephalography and diffuse optical tomography	13
Characterizing reproducibility of cerebral hemodynamic responses when applying short-channel regression in functional near-infrared spectroscopy	13
devfOLD: a toolbox for designing age-specific fNIRS channel placement	12
Performance comparison of systemic activity correction in functional near-infrared spectroscopy for methods with and without short distance channels	11
Computing hemodynamic response functions from concurrent spectral fiber-photometry and fMRI data	11
Cranial window for longitudinal and multimodal imaging of the whole mouse cortex	11
Systematic review of fNIRS studies reveals inconsistent chromophore data reporting practices	11
Characterization of Mayer-wave oscillations in functional near-infrared spectroscopy using a physiologically informed model of the neural power spectra	11
Measuring neuronal activity with diffuse correlation spectroscopy: a theoretical investigation	11
Systemic physiology augmented functional near-infrared spectroscopy hyperscanning: a first evaluation investigating entrainment of spontaneous activity of brain and body physiology between subjects	11
Simultaneous two-photon activation and imaging of neural activity based on spectral–temporal modulation of supercontinuum light	10
Immune–vascular mural cell interactions: consequences for immune cell trafficking, cerebral blood flow, and the blood–brain barrier	10
Contractile apparatus in CNS capillary pericytes	10
Photonics tools begin to clarify astrocyte calcium transients	10
Dual-slope imaging of cerebral hemodynamics with frequency-domain near-infrared spectroscopy	9
Interferometric diffuse optics: recent advances and future outlook	9
Influence of source–detector separation on diffuse correlation spectroscopy measurements of cerebral blood flow with a multilayered analytical model	9
Resting-state brain networks in neonatal hypoxic-ischemic brain damage: a functional near-infrared spectroscopy study	9
Monitoring the motor cortex hemodynamic response function in freely moving walking subjects: a time-domain fNIRS pilot study	8
Advances in studying whole mouse brain vasculature using high-resolution 3D light microscopy imaging	8
Fiberoptic array for multiple channel infrared neural stimulation of the brain	8
Using preregistration as a tool for transparent fNIRS study design	8
Behavioral and physiological monitoring for awake neurovascular coupling experiments: a how-to guide	8
Depth-targeted intracortical microstroke by two-photon photothrombosis in rodent brain	8
Functional near-infrared spectroscopy in pediatric clinical research: Different pathophysiologies and promising clinical applications	8
Investigating developmental changes in scalp-to-cortex correspondence using diffuse optical tomography sensitivity in infancy	8
Simple methodology to visualize whole-brain microvasculature in three dimensions	8
Illuminating neurodegeneration: a future perspective on near-infrared spectroscopy in dementia research	7
Enhancing diffuse correlation spectroscopy pulsatile cerebral blood flow signal with near-infrared spectroscopy photoplethysmography	7
Early screening model for mild cognitive impairment based on resting-state functional connectivity: a functional near-infrared spectroscopy study	7
Functional brain connectivity related to surgical skill dexterity in physical and virtual simulation environments	7
High-precision neural stimulation through optoacoustic emitters	7
Hybrid fiber optic-fMRI for multimodal cell-specific recording and manipulation of neural activity in rodents	7
Advances in computer-generated holography for targeted neuronal modulation	7
Validation of the Openwater wearable optical system: cerebral hemodynamic monitoring during a breath-hold maneuver	6
Review of data processing of functional optical microscopy for neuroscience	6
Pupil engineering for extended depth-of-field imaging in a fluorescence miniscope	6
Test-retest reliability of functional near-infrared spectroscopy during a finger-tapping and postural task in healthy older adults	6
Optimizing a two-layer method for hybrid diffuse correlation spectroscopy and frequency-domain diffuse optical spectroscopy cerebral measurements in adults	6

Multivariate Kalman filter regression of confounding physiological signals for real-time classification of fNIRS data	6
Blood vessel tail artifacts suppression in optical coherence tomography angiography	6
Influence of oversimplifying the head anatomy on cerebral blood flow measurements with diffuse correlation spectroscopy	6
Chronic co-implantation of ultraflexible neural electrodes and a cranial window	6
Investigation of functional near-infrared spectroscopy signal quality and development of the hemodynamic phase correlation signal	6
Techniques for visualizing fibroblast-vessel interactions in the developing and adult CNS	6
Differential effects of photobiomodulation interval schedules on brain cytochrome c-oxidase and proto-oncogene expression	6
Applications of near-infrared spectroscopy in neurocritical care	6
Using depth-enhanced diffuse correlation spectroscopy and near-infrared spectroscopy to isolate cerebral hemodynamics during transient hypotension	6
Transcranial optical monitoring for detecting intracranial pressure alterations in children with benign external hydrocephalus: a proof-of-concept study	5
Introduction to the shared near infrared spectroscopy format	5
Optimal combinations of fluorescent vessel labeling and tissue clearing methods for three-dimensional visualization of vasculature	5
Deformable mirror-based axial scanning for two-photon mammalian brain imaging	5
Improving laser standards for three-photon microscopy	5
fNIRS brain measures of ongoing nociception during surgical incisions under anesthesia	5
Antibody-based in vivo leukocyte label for two-photon brain imaging in mice	5
Comparison of cerebral metabolic rate of oxygen, blood flow, and bispectral index under general anesthesia	5
Psychedelics and fNIRS neuroimaging: exploring new opportunities	5
High-speed quantitative optical imaging of absolute metabolism in the rat cortex	5
Two-in-one system and behavior-specific brain synchrony during goal-free cooperative creation: an analytical approach combining automated behavioral classification and the event-related generalized li	5
Comparing the performance potential of speckle contrast optical spectroscopy and diffuse correlation spectroscopy for cerebral blood flow monitoring using Monte Carlo simulations in realistic head geo	5
FDISCO+: a clearing method for robust fluorescence preservation of cleared samples	5
Open-source statistical and data processing tools for wide-field optical imaging data in mice	5
Building bridges: simultaneous multimodal neuroimaging approaches for exploring the organization of brain networks	5
Effects of formalin fixation on polarimetric properties of brain tissue: fresh or fixed?	5
Longitudinal in vivo imaging of perineuronal nets	4
Real-time tracking of brain oxygen gradients and blood flow during functional activation	4
Revealing the spatiotemporal requirements for accurate subject identification with resting-state functional connectivity: a simultaneous fNIRS-fMRI study	4
In vivo detection of murine glioblastoma through Raman and reflectance fiber-probe spectroscopies	4
Signal regression in frequency-domain diffuse optical tomography to remove superficial signal contamination	4
Comparison of optical measurements of critical closing pressure acquired before and during induced ventricular arrhythmia in adults	4
Assessing the relationship between the cerebral metabolic rate of oxygen and the oxidation state of cytochrome-c-oxidase	4
MOCA: a systematic toolbox for designing and assessing modular functional near-infrared brain imaging probes	4
Reinforced thinned-skull window for repeated imaging of the neonatal mouse brain	4
Semiautomated analysis of an optical ATP indicator in neurons	4
Cerebrovascular reactivity measured in awake mice using diffuse correlation spectroscopy	4
Correction of global physiology in resting-state functional near-infrared spectroscopy	4
Guiding functional near-infrared spectroscopy optode-layout design using individual (f)MRI data: effects on signal strength	4
Site-specific effects of 800- and 850-nm forehead transcranial photobiomodulation on prefrontal bilateral connectivity and unilateral coupling in young adults	4
Isotonic ion replacement can lower the threshold for selective infrared neural inhibition	4
Feasibility study of functional near-infrared spectroscopy in the ventral visual pathway for real-life applications	4
Toolbox for studying neurovascular coupling in vivo, with a focus on vascular activity and calcium dynamics in astrocytes	4
Functional near-infrared spectroscopy neurofeedback of dorsolateral prefrontal cortex enhances human spatial working memory	4
Intrinsic, widefield optical imaging of hemodynamics in rodent models of Alzheimer’s disease and neurological injury	4
Reproducibility of infant fNIRS studies: a meta-analytic approach	4
In vivo characterization of cerebrovascular impairment induced by amyloid β peptide overload in glymphatic clearance system using swept-source optical coherence tomography	4
GRINtrode: a neural implant for simultaneous two-photon imaging and extracellular electrophysiology in freely moving animals	4
Characterization of red fluorescent reporters for dual-color in vivo three-photon microscopy	4
Evaluation of residual cognition in patients with disorders of consciousness based on functional near-infrared spectroscopy	3
Resolution-enhanced multi-core fiber imaging learned on a digital twin for cancer diagnosis	3
Statistical approaches to temporal and spatial autocorrelation in resting-state functional connectivity in mice measured with optical intrinsic signal imaging	3
Ex vivo capillary-parenchymal arteriole approach to study brain pericyte physiology	3
Fiber photometry-based investigation of brain function and dysfunction	3
Parallel factor analysis for multidimensional decomposition of functional near-infrared spectroscopy data	3
Seizure event detection using intravital two-photon calcium imaging data	3
Review on data analysis methods for mesoscale neural imaging in vivo	3
Special Section Guest Editorial: Thirty Years of Functional Near-Infrared Spectroscopy	3
Changes in functional neuroimaging measures as novices gain proficiency on the fundamentals of laparoscopic surgery suturing task	3
Differentiation of primary central nervous system lymphoma from glioblastoma using optical coherence tomography based on attention ResNet	3
Predicting poststroke dyskinesia with resting-state functional connectivity in the motor network	3
Imaging dendritic spines in the hippocampus of a living mouse by 3D-stimulated emission depletion microscopy	3
Shedding light on functional near-infrared spectroscopy and open science practices	3
Can pain under anesthesia be measured? Pain-related brain function using functional near-infrared spectroscopy during knee surgery	3
Millimetric scale two-photon Bessel-Gauss beam light sheet microscopy with three-axis isotropic resolution using an axicon lens	3
Comparing synthetic refocusing to deconvolution for the extraction of neuronal calcium transients from light fields	3
Conceptual framework for neuronal ensemble identification and manipulation related to behavior using calcium imaging	3
Preictal neuronal and vascular activity precedes the onset of childhood absence seizure: direct current potential shifts and their correlation with hemodynamic activity	3
In vivo voltage-sensitive dye imaging of mouse cortical activity with mesoscopic optical tomography	3
Connecting the dots between cell populations, whole-brain activity, and behavior	3
Fiber-based lactate recordings with fluorescence resonance energy transfer sensors by applying an magnetic resonance-informed correction of hemodynamic artifacts	3
Shining light on the noradrenergic system	3
Correlating functional near-infrared spectroscopy with underlying cortical regions of 0-, 1-, and 2-year-olds using theoretical light propagation analysis	3
Spiral laser scanning photoacoustic microscopy for functional brain imaging in rats	3
Photonic neural probe enabled microendoscopes for light-sheet light-field computational fluorescence brain imaging	3
HyperOptoNet: a MATLAB-based toolbox for inter-brain neuronal synchrony analysis using fNIRS hyperscanning	2
Toward dynamic, anisotropic, high-resolution, and functional measurement in the brain extracellular space	2
Precision of time-resolved near-infrared spectroscopy-based measurements of cerebral oxygenation in preterm infants	2
Imaging of post-synaptic membrane trafficking in neuronal dendrites: progress, limitations, and new developments	2
Unbiased analysis of mouse brain endothelial networks from two- or three-dimensional fluorescence images	2
Enhanced synaptic protein visualization by multicolor super-resolution expansion microscopy	2

Capturing a rising star: the emerging role of astrocytes in neural circuit wiring and plasticity–lessons from the visual system	2
Förster resonance energy transfer efficiency of the vinculin tension sensor in cultured primary cortical neuronal growth cones	2
Microprisms enable enhanced throughput and resolution for longitudinal tracking of neuronal ensembles in deep brain structures	2
Toward peripheral nerve mechanical characterization using Brillouin imaging spectroscopy	2
Implantable acousto-optic window for monitoring ultrasound-mediated neuromodulation in vivo	2
Low throughput screening in neuroscience: using light to study central synapses one at a time	2
Computational optics for high-throughput imaging of neural activity	2
Tools and tutorial on practical ray tracing for microscopy	2
Short-separation regression incorporated diffuse optical tomography image reconstruction modeling for high-density functional near-infrared spectroscopy	2
Recent advances and challenges in the use of CRISPR/Cas9 genome editing for understanding neuronal cell biology	2
High throughput detection of capillary stalling events with Bessel beam two-photon microscopy	2
Model-based correction of rapid thermal confounds in fluorescence neuroimaging of targeted perturbation	2
Zebrafish brain atlases: a collective effort for a tiny vertebrate brain	2
Toward an integrative neurovascular framework for studying brain networks	2
All-optical observation on activity-dependent nanoscale dynamics of myelinated axons	2
Interpolated functional manifold for functional near-infrared spectroscopy analysis at group level	2
Controlling the familywise error rate in widefield optical neuroimaging of functional connectivity in mice	2
Multiphoton imaging of hippocampal neural circuits: techniques and biological insights into region-, cell-type-, and pathway-specific functions	2
Comparison of functional activation responses from the auditory cortex derived using multi-distance frequency domain and continuous wave near-infrared spectroscopy	2
Acquisition time for functional near-infrared spectroscopy resting-state functional connectivity in assessing autism	2