Bioengineering Undergraduate Program University of California San Diego La Jolla CA USA

Department of Neurosciences University of California San Diego La Jolla CA USA

Department of Neurosciences University of CaliforniaSan Diego La Jolla CA USA; Department of Physics John Carroll University University HeightsOH USA

Department of Radiology University of California San Diego La Jolla CA USA

Department of Radiology University of CaliforniaSan Diego La Jolla CA USA; Central European Institute of Technology Brno University of TechnologyBrno Czechia; Institute of Physical Engineering Faculty of Mechanical Engineering Brno University of TechnologyBrno Czechia

Department of Radiology University of CaliforniaSan Diego La Jolla CA USA; Department of Neurosciences University of CaliforniaSan Diego La Jolla CA USA

Department of Radiology University of CaliforniaSan Diego La Jolla CA USA; Department of Neurosciences University of CaliforniaSan Diego La Jolla CA USA; Martinos Center for Biomedical Imaging Massachusetts General Hospital Harvard Medical SchoolCharlestown MA USA

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Anenberg E., Chan A. W., Xie Y., LeDue J. M., Murphy T. H. (2015). Optogenetic stimulation of GABA neurons can decrease local neuronal activity while increasing cortical blood flow. J. Cereb. Blood Flow Metab. 35, 1579–1586. 10.1038/jcbfm.2015.140 PubMed DOI PMC

Blinder P., Tsai P. S., Kaufhold J. P., Knutsen P. M., Suhl H., Kleinfeld D. (2013). The cortical angiome: an interconnected vascular network with noncolumnar patterns of blood flow. Nat. Neurosci. 16, 889–897. 10.1038/nn.3426 PubMed DOI PMC

Devor A., Hillman E. M., Tian P., Waeber C., Teng I. C., Ruvinskaya L., et al. . (2008). Stimulus-induced changes in blood flow and 2-deoxyglucose uptake dissociate in ipsilateral somatosensory cortex. J. Neurosci. 28, 14347–14357. 10.1523/JNEUROSCI.4307-08.2008 PubMed DOI PMC

Devor A., Tian P., Nishimura N., Teng I. C., Hillman E. M., Narayanan S. N., et al. . (2007). Suppressed neuronal activity and concurrent arteriolar vasoconstriction may explain negative blood oxygenation level-dependent signal. J. Neurosci. 27, 4452–4459. 10.1523/JNEUROSCI.0134-07.2007 PubMed DOI PMC

Gagnon L., Sakadžić S., Lesage F., Musacchia J. J., Lefebvre J., Fang Q., et al. . (2015). Quantifying the microvascular origin of BOLD-fMRI from first principles with two-photon microscopy and an oxygen-sensitive nanoprobe. J. Neurosci. 35, 3663–3675. 10.1523/JNEUROSCI.3555-14.2015 PubMed DOI PMC

Gagnon L., Smith A. F., Boas D. A., Devor A., Secomb T. W., Sakadžić S. (2016). Modeling of cerebral oxygen transport based on in vivo microscopic imaging of microvascular network structure, blood flow, and oxygenation. Front. Comput. Neurosci. 10:82. 10.3389/fncom.2016.00082 PubMed DOI PMC

Hirsch S., Reichold J., Schneider M., Székely G., Weber B. (2012). Topology and hemodynamics of the cortical cerebrovascular system. J. Cereb. Blood Flow Metab. 32, 952–967. 10.1038/jcbfm.2012.39 PubMed DOI PMC

Nizar K., Uhlirova H., Tian P., Saisan P. A., Cheng Q., Reznichenko L., et al. . (2013). In vivo stimulus-induced vasodilation occurs without IP3 receptor activation and may precede astrocytic calcium increase. J. Neurosci. 33, 8411–8422. 10.1523/JNEUROSCI.3285-12.2013 PubMed DOI PMC

Sakadzic S., Roussakis E., Yaseen M. A., Mandeville E. T., Srinivasan V. J. Arai, K., et al. (2010). Two-photon high-resolution 3D imaging of partial pressure of oxygen in cerebral vasculature and tissue. Nat. Methods 7, 755–759. 10.1038/nmeth.1490 PubMed DOI PMC

Sakadzic S., Mandeville E. T., Gagnon L., Musacchia J. J., Yaseen M. A., Yucel M. A., et al. . (2014). Large arteriolar component of oxygen delivery implies a safe margin of oxygen supply to cerebral tissue. Nat. Commun. 5:5734. 10.1038/ncomms6734 PubMed DOI PMC

Sridhar V. B., Tian P., Dale A. M., Devor A., Saisan P. A. (2014). Neurovascular Network Explorer 1.0: a database of 2-photon single-vessel diameter measurements with MATLAB((R)) graphical user interface. Front. Neuroinform. 8:56. 10.3389/fninf.2014.00056 PubMed DOI PMC

Tian P., Teng I. C., May L. D., Kurz R., Lu K., Scadeng M., et al. . (2010). Cortical depth-specific microvascular dilation underlies laminar differences in blood oxygenation level-dependent functional MRI signal. Proc. Natl. Acad. Sci. U.S.A. 107, 15246–15251. 10.1073/pnas.1006735107 PubMed DOI PMC

Uhlirova H., Kiliç K., Tian P., Sakadžić S., Gagnon L., Thunemann M., et al. . (2016b). The roadmap for estimation of cell-type-specific neuronal activity from non-invasive measurements. Philos. Trans. R. Soc. Lond., B., Biol. Sci. 371:20150356. 10.1098/rstb.2015.0356 PubMed DOI PMC

Uhlirova H., Kiliç K., Tian P., Thunemann M., Desjardins M., Saisan P. A., et al. . (2016a). Cell type specificity of neurovascular coupling in cerebral cortex. Elife 5:e14315. 10.7554/eLife.14315 PubMed DOI PMC

Zhao S., Ting J. T., Atallah H. E., Qiu L., Tan J., Gloss B., et al. . (2011). Cell type-specific channelrhodopsin-2 transgenic mice for optogenetic dissection of neural circuitry function. Nat. Methods 8, 745–752. 10.1038/nmeth.1668 PubMed DOI PMC

Neurovascular Network Explorer 2.0: A Simple Tool for Exploring and Sharing a Database of Optogenetically-evoked Vasomotion in Mouse Cortex In Vivo