Phase III – Bibliography

[Phase III - A]
A. 1.Spence JS, Carmack PS, Gunst RF, Schucany WR, Woodward WA, Haley RW. Accounting for spatial dependence in the analysis of SPECT brain imaging data. Journal of the American Statistical Association 2007;102 (478):464-473.

A. 1. Spence, J.S., Carmack, P.S., Lin, Q., Gunst, R.F., Schucany, W.R. Nugget estimation for class of nonparametric semivariograms. Joint Statistical Meetings 2008 Abstract #302624

A. 1. Carmack P.S., Schucany W.R., Spence J.S., Gunst R.F., Lin Q., and Haley R.W. (2009). Far casting cross validation. Journal of Computational and Graphical Statistics 2009;18(4):879-893. DOI: 10.1198/jcgs.2009.07034

A. 1. Carmack, P.S., Spence, J.S., Schucany, W.R., Gunst, R.F., Lin, Q., and Haley, R.W. A new class of  nonparametric semivariogram and nugget estimators. Computational Statistics and Data Analysis 2012;56(6):1737-1747. doi: 10.1016/j.csda.2011.10.017

[Phase III - A]
A. 2. Spence J, Carmack PS, Gunst RF, Schucany WR, Woodward WA, Haley RW. Using a white matter reference to remove the dependency of global signal on experimental conditions in SPECT analysis. NeuroImage 2006; 32: 49-53.

A. 2. Carmack P.S., Spence J., Gunst R.F., Schucany W.R., Woodward .AW., Haley R.W. Improved agreement between Talairach and MNI coordinate spaces in deep brain regions. NeuroImage 2004; 22:367-371

[Phase III - A]
A. 3. Koh O.J, Schucany W.R., Woodwar, W.A., Gunst R.F. Wavelet packet resampling for fMRI experiments. 2009 International Biometric Society, Eastern North American Region Spring Meetings, March 15-18, 2009, San Antonio, TX.

A. 3. Koh O.J, Schucany W.R., Woodward W.A., Gunst R.F. The effects of dimension in wavelet resampling on tests for functional connectivity. 2009 Joint Statistical Meetings, Washington, D.C.

A. 3. O’Hair J.C., Woodward W.A., Gunst R.F., Schucany W.R. Signal extraction in noisy images: Improvements to wavelet-based false discovery rate methods. 2009 Joint Statistical Meetings, Washington, D.C.

A. 3. Gedif K., Schucany W.R., Woodward W.A., Gunst R.F., Carmack P.S., and Haley R.W. Detecting brain activations in functional magnetic resonance imaging (fMRI) experiments with a maximum cross-correlation statistic. Journal of Data Science 2012;10(3):403-418.

A. 3. Delzell D.A.P., Gunst R.F., Schucany W.R., Carmack P.S., Lin Q., Spence J.S., and Haley R.W. Key Properties of D-optimal designs for event-related fMRI experiments with application to nonlinear models. Statistics in Medicine 2012;31(29): 3907–3920. doi: 10.1002/sim.5449

[Phase III - A]
A. 4. Spence J.S., Brier M.R., Hart Jr. J., Ferree T.C. Removing an inter-subject variance component in a general linear model improves multiway factoring of event-related spectral perturbations in group EEG studies. Human Brain Mapping 2013;34(3): 651-664. DOI: 10.1002/hbm.21462

[Phase III - B]
B. 1. Aslan S., Lu H. On the sensitivity of ASL MRI in detecting regional differences in cerebral blood flow. Magn Reson Imaging 2010; 28: 928-935.

B. 1. Aslan S., Uh J., Mihalakos P., Thomas B., Tamminga C., and Lu H., Regional CBV characteristics in normal subjects and its relation to CBF: a VASO and ASL MRI study. Proc. Intl. Soc. Mag. Reson. Med. 16; 2008; 1922. 16th ISMRM (International Society for Magnetic Resonance in Medicine) meeting, Toronto, Canada, May 3-9, 2008.

B. 1. Aslan S., Xu F., Wang P. L., Uh J., Yezhuvath U., van Osch M., and Lu H., Labeling efficiency is critical in pseudo-continuous ASL. Proc. Intl. Soc. Mag. Reson. Med. 17; 2009: 621. 17th ISMRM (International Society for Magnetic Resonance in Medicine) meeting, Honolulu, Hawaii, April 18-24, 2009.

B. 1. Li X., Sarkar S., Haley R. W., and Briggs R. W., Modulated dual saturation pulse trains for fair studies of cerebellum perfusion. Proc. Intl. Soc. Mag. Reson. Med. 17; 2009:1517. 17th ISMRM (International Society for Magnetic Resonance in Medicine) meeting, Honolulu, Hawaii, April 18-24, 2009.

B. 1. Sina Aslan, Feng Xu, Peiying L. Wang, Jinsoo Uh, Uma S. Yezhuvath, Matthias van Osch, and Hanzhang Lu. Estimation of labeling efficiency in pseudo-continuous arterial spin labeling. Magnetic Resonance in Medicine 2010;63(3): 765-771.

B. 1. Li X., Sarkar S.N., Purdy D.E., Haley R.W., and Briggs R.W., Hippocampus perfusion studies using OPTIMAL FAIR. Abstract 1756_275, 18th ISMRM, Stockholm, Sweden, May 1-7, 2010.

B. 1. Li X., Sarkar S., Purdy D.E., Haley R.W., Briggs R.W., Asymmetric FAIR – FAIR with active suppression of superior tagging (FAIR ASST). J Magn Reson Imaging 2011;34(5), 1037-1044. doi 10.1002/jmri.22734.

B. 1. Li X., Sarkar S.N., Purdy D.E., Haley R.W., Briggs R.W., Anteroposterior perfusion heterogeneity in human hippocampus measured by arterial spin labeling MRI. NMR in Biomedicine 2013; 26(6): 613-621. doi: 10.1002/nbm.2898

[Phase III - B]
B. 2. Li X., Sarkar S.N., Buhner D. M., Haley R. W., and Briggs., ASL optimization for hippocampus physostigmine challenge perfusion study. Proc. Intl. Soc. Mag. Reson. Med. 17; 2009: 1516. 17th ISMRM (International Society for Magnetic Resonance in Medicine) meeting, Honolulu, Hawaii, April 18-24, 2009.

B. 2. Li X., Spence J., Buhner D.M., Haley R.W., Briggs R.W., Asymmetric characteristics of hippocampus perfusion and its response to physostigmine challenge in Gulf War veterans. Abstract 2218_195, 19th ISMRM, Montreal, Canada, May 7-13, 2011.

[Phase III - B]
B. 3. Cheshkov S., Chang A., Sarkar S., Babcock E., and Briggs R., Single voxel spectroscopy of the pons: Shimming, quantitation, and reproducibility issues at 3T. Proc. Intl. Soc. Mag. Res. Med. 15, abstract 1357 (2007). 15th ISMRM (International Society for Magnetic Resonance in Medicine) meeting, Berlin, Germany, May 19-25, 2007.

B. 3. Chang A., Cheshkov S., Sarkar S., and Briggs R., Reproducibility of cerebral metabolite 1H T2 relaxation measurements at 3T. Proc. Intl. Soc. Mag. Reson. Med. 16; 2008: 1600. 16th ISMRM (International Society for Magnetic Resonance in Medicine) meeting, Toronto, Canada, May 3-9, 2008.

B. 3. Baek H-M., Cheshkov S., Chang A. J., and Briggs R. W., Quantification of Short-TE metabolite signals in human brain using QUEST and a simulated basis set. Proc. Intl. Soc. Mag. Reson. Med. 17; 2009: 4278. 17th ISMRM (International Society for Magnetic Resonance in Medicine) meeting, Honolulu, Hawaii, April 18-24, 2009.

B. 3. Chang A.J., Cheshkov S., Briggs R., and Haley R., Transverse relaxation measurements of brain metabolites in Gulf War Illness. Abstract 1983_832, 18th ISMRM, Stockholm, Sweden, May 1-7, 2010.

[Phase III - B]
B. 4. Gopinath K, Butler L, Thapa-Chhetry B, Goyal A, Gandhi P, Fang Y, Ouyang L, Ganji S, Jiang L, Vaidya S, Buhner D, Ringe W, Briggs R, Haley R. FMRI reveals abnormal central sensory processing in Gulf War Illness. Abstract 2221_4542, 19th ISMRM, Montreal, Canada, May 7-13, 2011.

[Phase III - B]
B. 5. Gopinath K., Ringe W., Goyal A., Carter K., Dinse H.R., Haley R., Briggs R. Striatal functional connectivity networks are modulated by fMRI resting state conditions. NeuroImage 2011; 54:380-388.

B. 5. Maciejewski M., Byrapureddy R., Motes M., Rypma B.. Individual differences in the time course of processing speed-neural activity relations. Cognitive Neuroscience Society, 2009 Annual Meeting, San Francisco, CA, March 2009.

B. 5. Goyal, W. Ringe, K. Gopinath, L. Jiang, R. Haley, and R. Briggs. Functional connectivity to dorsal and ventral striatum exhibit different dependencies on FcMRI baseline conditions. Proc. Intl. Soc. Mag. Reson. Med. 17; 2009: 3730-1. 17th ISMRM (International Society for Magnetic Resonance in Medicine) meeting, Honolulu, Hawaii, April 18-24, 2009.

B. 5. Goyal A., Ringe W., Gopinath K., Haley R., and Briggs R. Functional connectivity networks associated with dorsal and ventral striatum. Proc. Intl. Soc. Mag. Reson. Med. 17; 2009: 3727-8. 17th ISMRM (International Society for Magnetic Resonance in Medicine) meeting, Honolulu, Hawaii, April 18-24, 2009.

B. 5. Fang Y., Ouyang L., Onuegbulem C., Goyal A., Jiang L., Gandhi P., Ganji S., Ringe W. , Gopinath K., Briggs R., and Haley R. Reduced hippocampal body functional connectivity in Gulf War Illness. Abstract 1984_5312, 18th ISMRM, Stockholm, Sweden, May 1-7, 2010.

B. 5. Gopinath K, Goyal A, Briggs R, Sathian K. Differential resting-state network connectivity of extrastriate body area and lateral occipital complex. 2011 Society for Neuroscience.

B. 5. Gopinath K, Ringe W, Ouyang L, Carter K, Thapa-Chhetry B, Butler L, Goyal A, Gandhi P, Fang Y, Ganji S, Jiang L, Vaidya S, Briggs R, Haley R. Abnormal striatal functional connectivity in Gulf War Illness: effects of modulating fcMRI continuous states. Abstract 2219_4591, 19th ISMRM, Montreal, Canada, May 7-13, 2011.

B. 5. Gopinath K, Ringe W, Ouyang L, Onuegbulem C, Li X, Thapa-Chhetry B, Butler L, Goyal A, Gandhi P, Fang Y, Ganji S, Vaidya S, Briggs R, Haley R. Differential resting-state network connectivity of extrastriate body area and lateral occipital complex. Abstract 2115, 20th ISMRM, Melbourne, Australia, May 5-11, 2012.

B. 5. Gopinath K, Ringe W, Ouyang L, Carter K, Thapa-Chhetry B, Butler L, Goyal A, Gandhi P, Fang Y, Ganji S, Jiang L, Vaidya S, Dinse H, Briggs R, Haley R. Suppression of functional connectivity in somatosensory andattention networks during strong transcutaneous electrical nerve stimulation. Abstract 2103, 20th ISMRM, Melbourne, Australia, May 5-11, 2012.

[Phase III - B]
B. 6. Carter K, Ringe W, Onuegbulem C, Gopinath K, Briggs R. Mood congruent hippocampal activation biases: double dissociation of negative and positive contexts in depressed and healthy adults. Abstract 4133_6196, 19th ISMRM, Montreal, Canada, May 7-13, 2011.

[Phase III - B]
B. 7. Ringe W. K., Gopinath K., Cheshkov S., Sarkar S., Briggs R. and Haley R. High-resolution functional MRI imaging of material-specific encoding. Proc. Intl. Soc. Mag. Res. Med. 15, abstract 193 (2007). 15th ISMRM (International Society for Magnetic Resonance in Medicine) meeting, Berlin, Germany, May 19-25, 2007.

B. 7. W. Ringe, K. Gopinath, S. Cheshkov, S. Sarkar, R. Briggs, and R. Haley. High-resolution functional MRI imaging of material-specific encoding in the head, body, and tail of the hippocampus. Proc. Intl. Soc. Mag. Reson. Med. 16; 2008: 549. 16th ISMRM (International Society for Magnetic Resonance in Medicine) meeting, Toronto, Canada, May 3-9, 2008.

B. 7. W. Ringe, K. Gopinath, S. Cheshkov, S. Sarkar, R. Briggs, and R. Haley. High-resolution functional MRI imaging of material-specific visual processing in thalamic nuclei. Proc. Intl. Soc. Mag. Reson. Med. 16; 2008: 159. 16th ISMRM (International Society for Magnetic Resonance in Medicine) meeting, Toronto, Canada, May 3-9, 2008.

[Phase III - B]
B. 8. Motes M. A., Rypma B. Working memory component processes: Isolating BOLD signal-changes. NeuroImage 2010;49(2):1933-1941.

B. 8. Maciejewski M., Motes, M. Rypma B. Time course analysis of individual differences in prefrontal BOLD activity: Processing-speed mediation of cognitive control. Society for Neuroscience, Chicago, IL, October 2009.

B. 8. Hutchison, J. L., Sandoval, T., Hillis, G. A. J., Shokri Kojori, E., Colby, M. E., Motes, M. A., Maciejewski, M., & Rypma, B. Standard space and individually-derived regions of interest: An experimental comparison. Electronic abstract, 18th Meeting of the International Society for Magnetic Resonance in Medicine (ISMRM) and the European Society for Magnetic Resonance in Medicine and Biology (ESMRMB), Stockholm, Sweden, May 1-7, 2010.

[Phase III - C]
C. 1. Ferree, T., Brier, M., Hart, J., Kraut, M. Space-time frequency analysis of EEG data using within-subject statistical tests followed by sequential PCA. Neuroimage 2009; 45(1):109-121.

C. 1. Thomas C. Ferree, Matthew R. Brier, Mandy J. Maguire, Jeffrey S. Spence. Space-time-frequency analysis of EEG data in semantic inhibition: Control of false positives in single subjects. Organization for Human Brain Mapping, June 18-22, 2009, San Francisco, CA

[Phase III - C]
C. 3. Hart J., Calley C, Tillman G, Green T, Motes M, Kirk A, Kraut M Threat: featural organization to visual object memory. Society for Neuroscience, November 16, 2008.

C. 3. Motes M.A., Biswal B., Rypma B. Age-related differences in the mediation of cognitive processing speed by prefrontal cortex. Presented at the 38th Annual Meeting of the Society for Neuroscience, November 2008.

C. 3. Ferree T.C., Brier M.R., Hart J. Jr., Kraut M.A. Space-time-frequency analysis of EEG data in semantic memory. Cognitive Neuroscience Meeting, March 21-24, 2009, San Francisco, CA

C. 3. Maguire M.J., Brier M.R., Moore P.S., Ferree T.C., Ray D., Mostofsky S., Hart J. Jr., Kraut M.A. (2009). The influence of perceptual and semantic categorization on inhibitory processing as measured by the N2-P3 respornse. Brain and Cognition 2009; 71: 196-203.

C. 3. Kraut M. A., Brier M.R., Maguire M.J., Ferree T.C., Hart J Jr.. Frontal theta and alpha power and coherence changes are modulated by semantic complexity in Go/NoGo tasks. Cognitive Neuroscience Society 17th annual meeting, Montréal, Canada, April 17-20, 2010.

C. 3. Maguire M.J., Brier M.R., Ferree T.C. EEG theta and alpha responses reveal qualitative differences in processing taxonomic versus thematic semantic relationships. Brain and Language 2010; 114(1): 16-25.

C. 3. Brier M.R., Ferree T.C., Maguire M.J., Moore P.S., Spence J., Tillman G.D., Hart J., Kraut M.A. Frontal theta and alpha power and coherence changes are modulated by semantic complexity in Go/NoGo tasks. International Journal of Psychophysiology 2010; 78(3): 215-224. doi:10.1016/j.ijpsycho.2010.07.011

[Phase III - D]
D. 1. Kannan G., Panahi IMS, Briggs R.W. Sequentially adapted parallel feedforward active noise control of noisy sinusoidal signals. Advances in Acoustics and Vibration Volume 2009, Article ID 694290, 13 pages. doi:10.1155/2009/694290

D. 1. Reddy R.M., Panahi IMS, Briggs R.W. Hybrid FxRLS-FxNLMS adaptive algorithm for active noise control in fMRI application. IEEE Trans Cont Sys Tech 2011; 19(2): 474-480.

[Phase III - D]
D. 2. Wildey C., MacFarlane D.L., Gopinath K., Cheshkov S., Goyal A., and Briggs R.W.. Single-camera motion measurement and monitoring for magnetic resonance applications. Applied Optics 2011; 50(14): 2088-2097.

D. 2. Zaremba A.A., MacFarlane D.L., Tseng W.C., Stark A.J., Briggs R.W., Gopinath K.S., Cheshkov S., White K.D. Optical head tracking for functional magnetic resonance imaging using structured light. J Opt Soc Am A Opt Image Sci Vis. 2008, 25 (7): 1551-1557.

[Phase III - D]
D. 3. Gholipour A., Kehtarnavaz N., Gopinath K., Briggs R. Cross-validation of deformable registration with field maps in functional magnetic resonance brain Imaging. IEEE Journal of Selected Topics in Signal Processing, Special issue on fMRI Analysis for Human Brain Mapping, 2008; 2(6): 854-869.

D. 3. Gholipour A., Kehtarnavaz N., Briggs R., Gopinath K., Ringe W., Whittemore A., Cheshkov S., Bakhadirov K. Validation of brain functional EPI to anatomical MRI registration. IEEE Transactions on Biomedical Engineering 2008;55(2): 563-571.

D. 3. Gholipour A., Kehtarnavaz N., Gopinath K., Briggs R., Panahi I. Average field map image template for echo-planar image analysis. 20th Annual International Conf Proc IEEE Eng Med Biol Soc. 2008; 8:94-7. Conference Vancouver, British Columbia, Canada, August 20-24, 2008.

D.3. Tsang O, Gholipour A, Kehtarnavaz N, Gopinath K, Briggs R, Panahi I. Comparison of tissue segmentation algorithms in neuroimage analysis software tools. 30th Annual International IEEE EMBS ConferenceVancouver, British Columbia, Canada, August 20-24, 2008.

D. 3. Yousefi S., Kehtarnavaz N., Gopinath K., Briggs R. Two-stage registration of substructures in magnetic resonance brain imaging. ICIP2009: 16th IEEE Int. Conf. on Image Processing, Egypt, 2009.

D. 3. Yousefi S., Kehtarnavaz N., Gopinath K., Briggs R. Two-stage registration of substructures in magnetic resonance brain images. ICIP 2009.

D. 3. Gholipour A., Kehtarnavaz N., Yousefi S., Gopinath .K, Briggs R. Symmetric deformable image registration via optimization of information theoretic measures. Image and Vision Computing 2010; 28: 965–975.

D. 3. Yousefi S., Kehtarnavaz N., Gholipour A., Gopinath K., Briggs R. Comparison of registration methods for atlas-based segmentation of subcortical structures in magnetic resonance brain images. ICASSP 2010.

[Phase III - E]

E. Teiber J.F., Kramer G.L., Haley R.W.  Methods for measuring serum activity levels of the 192 Q and R isoenzymes of paraoxonase 1 in QR heterozygous individuals. Clinical Chemistry 2013;59(8):1251-1259.