2020

Palma, Marco, Tavakoli, Shahin, Brettschneider, Julia and Nichols, Thomas E. (2020) Quantifying uncertainty in brain-predicted age using scalar-on-image quantile regression. NeuroImage, 219 . 116938. doi:10.1016/j.neuroimage.2020.116938

Veldsman, Michele, Kindalova, Petya, Husain, Masud, Kosmidis, Ioannis and Nichols, Thomas E. (2020) Spatial distribution and cognitive impact of cerebrovascular risk-related white matter hyperintensities. NeuroImage, 28 . 102405. doi:10.1016/j.nicl.2020.102405

2019

Chen, Xu (Researcher in statistics), Formisano, Elia, Blokland, Gabriëlla A. M., Strike, Lachlan T., McMahon, Katie L., Zubicaray, Greig I., Thompson, Paul M., Wright, Margaret J., Winkler, Anderson M., Ge, Tian and Nichols, Thomas E. (2019) Accelerated estimation and permutation inference for ACE modeling. Human Brain Mapping . doi:10.1002/hbm.24611

Eklund, Anders, Knutsson, Hans and Nichols, Thomas E. (2019) Reply to Chen et al. : parametric methods for cluster inference perform worse for two‐sided t ‐ tests. Human Brain Mapping, 40 (5). pp. 1689-1691. doi:10.1002/hbm.24465

Sundaresan, Vaanathi, Griffanti, Ludovica, Kindalova, Petya, Alfaro-Almagro, Fidel, Zamboni, Giovanna, Rothwell, Peter M., Nichols, Thomas E. and Jenkinson, Mark (2019) Modelling the distribution of white matter hyperintensities due to ageing on MRI images using Bayesian inference. NeuroImage, 185 . pp. 434-445. doi:10.1016/j.neuroimage.2018.10.042

Spisák, Tamás, Spisák, Zsófia, Zunhammer, Matthias, Bingel, Ulrike, Smith, Stephen, Nichols, Thomas E. and Kincses, Tamás (2019) Probabilistic TFCE : a generalized combination of cluster size and voxel intensity to increase statistical power. NeuroImage, 185 . pp. 12-26. doi:10.1016/j.neuroimage.2018.09.078

Costa, Lilia, Smith, James Q. and Nichols, Thomas E. (2019) A group analysis using the Multiregression Dynamic Models for fMRI networked time series. Journal of Statistical Planning and Inference, 198 . pp. 43-61. doi:10.1016/j.jspi.2018.03.004

Bowring, Alexander, Maumet, Camille and Nichols, Thomas E. (2019) Exploring the impact of analysis software on task fMRI results. Human Brain Mapping . doi:10.1002/hbm.24603 (In Press)

2018

Adhikari, Bhim M., Jahanshad, Neda, Shukla, Dinesh, Glahn, David C., Blangero, John, Fox, Peter T., Reynolds, Richard C., Cox, Robert W., Fieremans, Els, Veraart, Jelle, Novikov, Dmitry S., Nichols, Thomas E., Hong, L. Elliot, Thompson, Paul M. and Kochunov, Peter (2018) Comparison of heritability estimates on resting state fMRI connectivity phenotypes using the ENIGMA analysis pipeline. Human Brain Mapping, 39 (12). pp. 4893-4902. doi:10.1002/hbm.24331

(2018) Extending the human connectome project across ages : imaging protocols for the Lifespan Development and Aging projects. NeuroImage, 183 . pp. 972-984. doi:10.1016/j.neuroimage.2018.09.060

Somerville, Leah H., Bookheimer, Susan Y., Buckner, Randy L., Burgess, Gregory C., Curtiss, Sandra W., Dapretto, Mirella, Elam, Jennifer Stine, Gaffrey, Michael S., Harms, Michael P., Hodge, Cynthia, Kandala, Sridhar, Kastman, Erik K., Nichols, Thomas E., Schlaggar, Bradley L., Smith, Stephen M., Thomas, Kathleen M., Yacoub, Essa, Van Essen, David C. and Barch, Deanna M. (2018) The Lifespan Human Connectome Project in Development : A large-scale study of brain connectivity development in 5–21 year olds. NeuroImage, 183 . pp. 456-468. doi:10.1016/j.neuroimage.2018.08.050

Eklund, Anders, Knutsson, Hans and Nichols, Thomas E. (2018) Cluster failure revisited: Impact of first level design and physiological noise on cluster false positive rates. Human Brain Mapping, 40 (7). pp. 2017-2032. doi:10.1002/hbm.24350

Ganjgahi, Habib, Winkler, Anderson M., Glahn, David C., Blangero, John, Donohue, Brian, Kochunov, Peter and Nichols, Thomas E. (2018) Fast and powerful genome wide association of dense genetic data with high dimensional imaging phenotypes. Nature Communications, 9 (1). 3254. doi:10.1038/s41467-018-05444-6

Schwab, Simon, Harbord, Ruth, Zerbi, Valerio, Elliott, Lloyd, Afyouni, Soroosh, Smith, Jim Q., Woolrich, Mark W., Smith, Stephen M. and Nichols, Thomas E. (2018) Directed functional connectivity using dynamic graphical models. NeuroImage, 175 . pp. 340-353. doi:10.1016/j.neuroimage.2018.03.074

2017

Gutierrez-Barragan, Felipe, Ithapu, Vamsi K., Hinrichs, Chris, Maumet, Camille, Johnson, Sterling C., Nichols, Thomas E. and Singh, Vikas (2017) Accelerating permutation testing in voxel-wise analysis through subspace tracking : a new plugin for SnPM. NeuroImage, 159 . pp. 79-98. doi:10.1016/j.neuroimage.2017.07.025

Colclough, Giles L., Smith, Stephen M., Nichols, Thomas E., Winkler, Anderson M., Sotiropoulos, Stamatios N., Glasser, Matthew F., Van Essen, David C. and Woolrich, Mark W. (2017) The heritability of multi-modal connectivity in human brain activity. eLife, 6 . e20178 . doi:10.7554/eLife.20178

Rizos, Timolaos, Bartsch, Andreas J., Johnson, Timothy D., Dittgen, Felix, Nichols, Thomas E., Malzahn, Uwe and Veltkamp, Roland (2017) Voxelwise distribution of acute ischemic stroke lesions in patients with newly diagnosed atrial fibrillation : trigger of arrhythmia or only target of embolism? PLoS One, 12 (5). e0177474. doi:10.1371/journal.pone.0177474

Eklund, Anders, Nichols, Thomas E. and Knutsson, Hans (2017) Reply to Brown and Behrmann, Cox, et al., and Kessler et al. : Data and code sharing is the way forward for fMRI. Proceedings of the National Academy of Sciences of the United States of America, 114 (7). E3374-E3375. doi:10.1073/pnas.1620285114

Wong, Hin Kwan, Tiffin, Paul A., Chappell, Michael J., Nichols, Thomas E., Welsh, Patrick R., Doyle, Orla M., Lopez Kolkovska, Boryana Cristina, Inglis, Sarah K., Coghill, David, Shen, Yuan and Tiño, Peter (2017) Personalized medication response prediction for attention-deficit hyperactivity disorder : learning in the model space vs. learning in the data space. Frontiers in Physiology, 8 . 199. doi:10.3389/fphys.2017.00199

Nichols, Thomas E., Das, Samir, Eickhoff, Simon B., Evans, Alan C., Glatard, Tristan, Hanke, Michael, Kriegeskorte, Nikolaus, Milham, Michael P., Poldrack, Russell A., Poline, Jean-Baptiste, Proal, Erika, Thirion, Bertrand, Van Essen, David C., White, Tonya and Yeo, B.T. Thomas (2017) Best practices in data analysis and sharing in neuroimaging using MRI. Nature Neuroscience, 20 (3). pp. 299-303. doi:10.1101/054262

Nichols, Thomas E., Eklund, Anders and Knutsson, Hans (2017) A defense of using resting state fMRI as null data for estimating false positive rates. Cognitive Neuroscience, 8 (3). pp. 144-149. doi:10.1080/17588928.2017.1287069

(2017) Novel genetic loci associated with hippocampal volume. Nature Communications, 8 . 13624 . doi:10.1038/ncomms13624

Poldrack, Russell A., Baker, Chris I., Durnez, Joke, Gorgolewski, Krzysztof J., Matthews, Paul M., Munafò, Marcus R., Nichols, Thomas E., Poline, Jean-Baptiste, Vul, Edward and Yarkoni, Tal (2017) Scanning the horizon : towards transparent and reproducible neuroimaging research. Nature Reviews Neuroscience . doi:10.1038/nrn.2016.167

Müller, Veronika I., Cieslik, Edna C., Laird, Angela R., Fox, Peter T., Radua, Joaquim, Mataix-Cols, David, Tench, Christopher R., Yarkoni, Tal, Nichols, Thomas E., Turkeltaub, Peter E., Wager, Tor D. and Eickhoff, Simon B. (2017) Ten simple rules for neuroimaging meta-analysis. Neuroscience and biobehavioral reviews, 84 . pp. 151-161. doi:10.1016/j.neubiorev.2017.11.012

2016

Maumet, Camille, Auer, Tibor, Bowring, Alexander, Chen, Gang, Das, Samir, Flandin, Guillaume, Ghosh, Satrajit, Glatard, Tristan, Gorgolewski, Krzysztof J., Helmer, Karl G., Jenkinson, Mark, Keator, David B., Nichols, B. Nolan, Poline, Jean-Baptiste, Reynolds, Richard, Sochat, Vanessa, Turner, Jessica and Nichols, Thomas E. (2016) Sharing brain mapping statistical results with the neuroimaging data model. Scientific Data, 3 . 160102. doi:10.1038/sdata.2016.102

Gonzalez-Castillo, Javier, Chen, Gang, Nichols, Thomas E. and Bandettini, Peter A. (2016) Variance decomposition for single-subject task-based fMRI activity estimates across many sessions. NeuroImage . doi:10.1016/j.neuroimage.2016.10.024

Eickhoff, Simon B., Nichols, Thomas E., Laird, Angela R., Hoffstaedter, Felix, Amunts, Katrin, Fox, Peter T., Bzdok, Danilo and Eickhoff, Claudia R. (2016) Behavior, sensitivity, and power of activation likelihood estimation characterized by massive empirical simulation. NeuroImage, 137 . pp. 70-85. doi:10.1016/j.neuroimage.2016.04.072

Kueh, Audrey, Warnett, Jason M., Gibbons, Gregory John, Brettschneider, Julia, Nichols, Thomas E., Williams, M. A. and Kendall, W. S. (2016) Modelling the penumbra in computed tomography. Journal of X-Ray Science and Technology, 24 (4). pp. 583-597. doi:10.3233/XST-160576

Eklund, Anders, Nichols, Thomas E. and Knutsson, Hans (2016) Cluster failure : why fMRI inferences for spatial extent have inflated false-positive rates. Proceedings of the National Academy of Sciences of the United States of America, 113 (28). pp. 7900-7905. doi:10.1073/pnas.1602413113

Pauli, Ruth, Bowring, Alexander, Reynolds, Richard, Chen, Gang, Nichols, Thomas E. and Maumet, Camille (2016) Exploring fMRI Results Space : 31 Variants of an fMRI Analysis in AFNI, FSL, and SPM. Frontiers in neuroinformatics, 10 . 24. doi:10.3389/fninf.2016.00024

(2016) The brain imaging data structure, a format for organizing and describing outputs of neuroimaging experiments. Scientific Data, 3 . 160044. doi:10.1038/sdata.2016.44

Kueh, Audrey, Warnett, J. W., Gibbons, Gregory John, Brettschneider, Julia, Nichols, Thomas E., Williams, M. A. (Mark A.) and Kendall, W. S. (2016) Data for Modelling the Penumbra in Computed Tomography. [Dataset]

Winkler, Anderson M., Webster, Matthew A., Brooks, Jonathan C., Tracey, Irene, Smith, Stephen M. and Nichols, Thomas E. (2016) Non-parametric combination and related permutation tests for neuroimaging. Human Brain Mapping, 37 (4). pp. 1486-1511. doi:10.1002/hbm.23115

Tao, Chenyang, Nichols, Thomas E., Hua, Xue, Ching, Christopher R. K., Rolls, Edmund T., Thompson, Paul M. and Feng, Jianfeng (2016) Generalized reduced rank latent factor regression for high dimensional tensor fields, and neuroimaging-genetic applications. NeuroImage, 144 (Part A). pp. 35-57. doi:10.1016/j.neuroimage.2016.08.027

2015

Winkler, Anderson M., Webster, Matthew A., Vidaurre, Diego, Nichols, Thomas E. and Smith, Stephen M. (2015) Multi-level block permutation. NeuroImage, 123 . pp. 253-268. doi:10.1016/j.neuroimage.2015.05.092

Li, Huanjie, Nickerson, Lisa D., Zhao, Xuna, Nichols, Thomas E. and Gao, Jia-Hong (2015) A voxelation-corrected non-stationary 3D cluster-size test based on random field theory. NeuroImage, 118 . pp. 676-682. doi:10.1016/j.neuroimage.2015.05.094

Pernet, Cyril, Latinus, Marianne, Nichols, Thomas E. and Rousselet, Guillaume Alexis (2015) Cluster-based computational methods for mass univariate analyses of event-related brain potentials/fields : a simulation study. Journal of Neuroscience Methods, 250 . pp. 85-93. doi:10.1016/j.jneumeth.2014.08.003

Rolls, Edmund T., Kellerhals, Michele B. and Nichols, Thomas E. (2015) Age differences in the brain mechanisms of good taste. NeuroImage, 113 . pp. 298-309. S105381191500261X. doi:10.1016/j.neuroimage.2015.03.065

Gorgolewski, Krzysztof J., Varoquaux, Gael, Rivera, Gabriel, Schwarz, Yannick, Ghosh, Satrajit S., Maumet, Camille, Sochat, Vanessa V., Nichols, Thomas E., Poldrack, Russell A., Poline, Jean-Baptiste, Yarkoni, Tal and Margulies, Daniel (2015) NeuroVault.org : a web-based repository for collecting and sharing unthresholded statistical maps of the human brain. Frontiers in neuroinformatics, 9 . pp. 1-9. 8. doi:10.3389/fninf.2015.00008

(2015) Common genetic variants influence human subcortical brain structures. Nature, Volume 520 (Number 7546). pp. 224-229. doi:10.1038/nature14101

Ge, Tian, Nichols, Thomas E. , Ghosh, Debashis, Mormino, Elizabeth C., Smoller, Jordan W. and Sabuncu, Mert R. (2015) A kernel machine method for detecting effects of interaction between multidimensional variable sets : an imaging genetics application. NeuroImage, Volume 109 . pp. 505-514. doi:10.1016/j.neuroimage.2015.01.029

Ge, Tian, Nichols, Thomas E., Lee, Phil H., Holmes, Avram J., Roffman, Joshua L., Buckner, Randy L., Sabuncu , Mert R. and Smoller, Jordan W. (2015) Massively expedited genome-wide heritability analysis (MEGHA). Proceedings of the National Academy of Sciences of the United States of America, Volume 112 (Number 8). pp. 2479-2484. doi:10.1073/pnas.1415603112

Oates, Chris J., Costa, Liliana M. and Nichols, Thomas E. (2015) Toward a multisubject analysis of neural connectivity. Neural Computation, 27 (1). pp. 151-170. doi:10.1162/NECO_a_00690

Costa, Lilia, Smith, J. Q., Nichols, Thomas E., Cussens, James, Duff, Eugene P. and Makin, Tamar R. (2015) Searching multiregression dynamic models of resting-state fMRI networks using integer programming. Bayesian Analysis, 10 (2). pp. 441-478. doi:10.1214/14-BA913

2014

Kang, Jian, Nichols, Thomas E., Wager, Tor D. and Johnson, Timothy D. (2014) A Bayesian hierarchical spatial point process model for multi-type neuroimaging meta-analysis. The Annals of Applied Statistics, Volume 8 (Number 3). pp. 1800-1824. doi:10.1214/14-AOAS757

Ashbrook, David G., Williams, Robert W., Lu, Lu, Stein, Jason L., Hibar, Derrek P., Nichols, Thomas E., Medland, Sarah E., Thompson, Paul M. and Hager, Reinmar (2014) Joint genetic analysis of hippocampal size in mouse and human identifies a novel gene linked to neurodegenerative disease. BMC Genomics, Volume 15 (Number 1). Article number 850. doi:10.1186/1471-2164-15-850

The IMAGEN consortium (Including:

). (2014) Correction: Global genetic variations predict brain response to faces. PLoS Genetics, Volume 10 (Number 10). Article number e1004802. doi:10.1371/journal.pgen.1004802

Pavlovic, Dragana M., Vértes, Petra E., Bullmore, Edward T., Schafer, William R. and Nichols, Thomas E. (2014) Stochastic blockmodeling of the modules and core of the caenorhabditis elegans connectome. PLoS One, Volume 9 (Number 7). Article number e97584. doi:10.1371/journal.pone.0097584

Guillaume, Bryan, Hua, Xue, Thompson, Paul M., Waldorp, Lourens and Nichols, Thomas E. (2014) Fast and accurate modelling of longitudinal and repeated measures neuroimaging data. NeuroImage, Volume 94 . pp. 287-302. doi:10.1016/j.neuroimage.2014.03.029

Koran, Mary Ellen, Thornton-Wells, Tricia A., Jahanshad, Neda, Glahn, David C., Thompson, Paul M., Blangero, John, Nichols, Thomas E., Kochunov, Peter and Landman, Bennett A. (2014) Impact of family structure and common environment on heritability estimation for neuroimaging genetics studies using Sequential Oligogenic Linkage Analysis Routines. Journal of Medical Imaging , Volume 1 (Number 1). Article number 014005. doi:10.1117/1.JMI.1.1.014005

Hua, W. -Y., Nichols, Thomas E. and Ghosh, D. (2014) Multiple comparison procedures for neuroimaging genomewide association studies. Biostatistics, Volume 16 (Number 1). pp. 17-30. doi:10.1093/biostatistics/kxu026

ENIGMA Consortium (Including: Nichols, Thomas E.). (2014) The ENIGMA Consortium : large-scale collaborative analyses of neuroimaging and genetic data. Brain Imaging and Behavior, Volume 8 (Number 2). pp. 153-182. doi:10.1007/s11682-013-9269-5

Winkler, Anderson M., Ridgway, Gerard R., Webster, Matthew A., Smith, Stephen M. and Nichols, Thomas E. (2014) Permutation inference for the general linear model. NeuroImage, Volume 2 . pp. 381-397. doi:10.1016/j.neuroimage.2014.01.060

Koran, Mary Ellen, Li, Bo, Jahanshad, Neda, Thornton-Wells, Tricia A., Glahn, David C., Thompson, Paul M., Blangero, John, Nichols, Thomas E., Kochunov, Peter and Landman, Bennett A. (2014) On study design in neuroimaging heritability analyses. In: Medical Imaging 2014: Image Processing, San Diego, California, USA, 15 Feb 2014. Published in: Proceedings of SPIE 9034, Medical Imaging 2014: Image Processing, Volume 9034 ISSN 0277-786X. doi:10.1117/12.2043565

Hofstetter, L., Naegelin, Y., Filli, L., Kuster, P., Traud, S., Smieskova, R., Mueller-Lenke, N., Kappos, L., Gass, A., Sprenger, T., Penner, I. -K., Nichols, Thomas E., Vrenken, H., Barkhof, F., Polman, C., Radue, E. -W., Borgwardt, S. J. and Bendfeldt, K. (2014) Progression in disability and regional grey matter atrophy in relapsing-remitting multiple sclerosis. Multiple Sclerosis Journal, Volume 20 (Number 2). pp. 202-213. doi:10.1177/1352458513493034

Ge, Tian, Müller-Lenke, Nicole, Bendfeldt, Kerstin, Nichols, Thomas E. and Johnson, Timothy D. (2014) Analysis of multiple sclerosis lesions via spatially varying coefficients. The Annals of Applied Statistics, Volume 8 (Number 2). pp. 1095-1118. doi:10.1214/14-AOAS718

Kueh, Audrey, Kendall, W. S. and Nichols, Thomas E. (2014) Modelling the penumbra in computed tomography. Working Paper. Coventry, UK: University of Warwick. Centre for Research in Statistical Methodology. CRiSM Working Paper Series, 14-25 . (Unpublished)

Durnez, Joke, Moerkerke, Beatrijs and Nichols, Thomas E. (2014) Post-hoc power estimation for topological inference in fMRI. NeuroImage, Volume 84 . pp. 45-64. doi:10.1016/j.neuroimage.2013.07.072

Brettschneider, Julia, Thornby, John Albert, Nichols, Thomas E. and Kendall, W. S. (2014) Spatial analysis of dead pixels. Working Paper. Coventry, UK: University of Warwick. Centre for Research in Statistical Methodology. CRiSM Working Paper Series (Number 14-24). (Unpublished)

Taschler, Bernd, Ge, Tian, Bendfeldt, Kerstin, Müller-Lenke, Nicole, Johnson, Timothy D. and Nichols, Thomas E. (2014) Spatial modeling of multiple sclerosis for disease subtype prediction. In: Golland, Polina and Hata, Nobuhiko and Barillot, Christian and Haronegger, Joachim and Howe, Robert, (eds.) Medical Image Computing and Computer-Assisted Intervention – MICCAI 2014 : 17th International Conference, Boston, MA, USA, September 14-18, 2014, Proceedings, Part II. Lecture Notes in Computer Science, Volume 8674 . Springer International Publishing, pp. 797-804. ISBN 9783319104690

2013

Small, Neil, Hazra, S. K. , Williams, D. K., Roy, Rajat, Nichols, Thomas E., Aylmore, R. and Hollingdale, D. (2013) Determining a probabilistic forming limit curve. In: The 9th International conference and workshop on numerical simulation of 3D sheet metal forming process, Melbourne, Australia, 6-10 Jan 2014. Published in: AIP Conference Proceedings, 1567 (1). ISBN 9780735411951. ISSN 0094-243X.

(2013) Transcriptomics of cortical gray matter thickness decline during normal aging. NeuroImage, Volume 82 . pp. 273-283. doi:10.1016/j.neuroimage.2013.05.066

(2013) Multi-site genetic analysis of diffusion images and voxelwise heritability analysis : a pilot project of the ENIGMA–DTI working group. NeuroImage, Volume 81 . pp. 455-469. doi:10.1016/j.neuroimage.2013.04.061

Thompson, Paul M., Ge, Tian, Glahn, David C., Jahanshad, Neda and Nichols, Thomas E. (2013) Genetics of the connectome. NeuroImage, Volume 80 . pp. 475-488. doi:10.1016/j.neuroimage.2013.05.013

Zeller, Mario, Müller, Alexander, Gutberlet, Marcel, Nichols, Thomas E., Hahn, Dietbert, Köstler, Herbert and Bartsch, Andreas J. (2013) Boosting BOLD fMRI by K-Space density weighted echo planar imaging. PLoS One, Volume 8 (Number 9). Article number e74501. doi:10.1371/journal.pone.0074501

Johnson, T. D., Liu, Z., Bartsch, A. J. and Nichols, Thomas E. (2013) A Bayesian non-parametric Potts model with application to pre-surgical FMRI data. Statistical Methods in Medical Research , Volume 44 (Number 2). pp. 364-381. doi:10.1177/0962280212448970

Sorrentino, Alberto, Johansen, Adam M., Aston, John A. D., Nichols, Thomas E. and Kendall, W. S. (2013) Dynamic filtering of static dipoles in magnetoencephalography. Annals of Applied Statistics, Volume 7 (Number 2). pp. 955-988. doi:10.1214/12-AOAS611

Durnez, Joke, Moerkerke, Beatrijs, Bartsch, Andreas and Nichols, Thomas E. (2013) Alternative-based thresholding with application to presurgical fMRI. Cognitive, Affective, & Behavioral Neuroscience, Volume 13 (Number 4). pp. 703-713. doi:10.3758/s13415-013-0185-3

Smith, Stephen M., Vidaurre, Diego, Beckmann, Christian F., Glasser, Matthew F., Jenkinson, Mark, Miller, Karla L., Nichols, Thomas E., Robinson, Emma C., Salimi-Khorshidi, Gholamreza, Woolrich, Mark W., Barch, Deanna M., Uğurbil, Kamil and Van Essen, David C. (2013) Functional connectomics from resting-state fMRI. Trends in Cognitive Sciences, Volume 17 (Number 12). pp. 666-682. doi:10.1016/j.tics.2013.09.016

Douaud, G., Refsum, H., de Jager, C. A., Jacoby, R., Nichols, Thomas E., Smith, S. M. and Smith, A. D. (2013) Preventing Alzheimer's disease-related gray matter atrophy by B-vitamin treatment. Proceedings of the National Academy of Sciences of the United States of America, Volume 110 (Number 23). pp. 9523-9528. doi:10.1073/pnas.1301816110

2012

Ge, Tian, Feng, Jianfeng, Hibar, Derrek P., Thompson, Paul M. and Nichols, Thomas E. (2012) Increasing power for voxel-wise genome-wide association studies : the random field theory, least square kernel machines and fast permutation procedures. NeuroImage, Vol.63 (No.2). pp. 858-873. doi:10.1016/j.neuroimage.2012.07.012

Nichols, Thomas E. (2012) Multiple testing corrections, nonparametric methods, and random field theory. NeuroImage, Vol.62 (No.2). pp. 811-815. doi:10.1016/j.neuroimage.2012.04.014

(2012) Genetic variation in GOLM1 and prefrontal cortical volume in Alzheimer's disease. Neurobiology of Aging, Vol.33 (No.3). pp. 457-465. doi:10.1016/j.neurobiolaging.2010.04.018

Bendfeldt, Kerstin, Klöppel, Stefan, Nichols, Thomas E., Smieskova, Renata, Kuster, Pascal, Traud, Stefan, Mueller-Lenke, Nicole, Naegelin, Yvonne, Kappos, Ludwig, Radue, Ernst-Wilhelm and Borgwardt, Stefan J. (2012) Multivariate pattern classification of gray matter pathology in multiple sclerosis. NeuroImage, Vol.60 (No.1). pp. 400-408. doi:10.1016/j.neuroimage.2011.12.070

Minas, Giorgos, Rigat, Fabio, Nichols, Thomas E., Aston, John A. D. and Stallard, Nigel (2012) A hybrid procedure for detecting global treatment effects in multivariate clinical trials : theory and applications to fMRI studies. Statistics in Medicine, Vol.31 (No.3). pp. 253-268. doi:10.1002/sim.4395

Comley, Robert A., Cervenka, Simon, Palhagen, Sven E., Panagiotidis, Georgios, Matthews, Julian C., Lai, Robert Y., Halldin, Christer, Farde, Lars, Nichols, Thomas E. and Whitcher, Brandon J. (2012) A comparison of gray matter density in restless legs syndrome patients and matched controls using voxel-based morphometry. Journal of Neuroimaging, Vol.22 (No.1). pp. 28-32. doi:10.1111/j.1552-6569.2010.00536.x

(2012) Identification of common variants associated with human hippocampal and intracranial volumes. Nature Genetics, Vol.44 (No.5). pp. 552-561. doi:10.1038/ng.2250

Winkler, Anderson M., Sabuncu, Mert R., Yeo, B.T. Thomas, Fischl, Bruce, Greve, Douglas N., Kochunov, Peter, Nichols, Thomas E., Blangero, John and Glahn, David C. (2012) Measuring and comparing brain cortical surface area and other areal quantities. NeuroImage, Volume 61 (Number 4). pp. 1428-1443. doi:10.1016/j.neuroimage.2012.03.026

Cole, D. M., Beckmann, C. F., Searle, G. E., Plisson, C., Tziortzi, A. C., Nichols, Thomas E., Gunn, R. N., Matthews, Paul M., Rabiner, E. A. and Beaver, J. D. (2012) Orbitofrontal connectivity with resting-state networks is associated with midbrain dopamine D3 receptor availability. Cerebral Cortex, Volume 22 (Number 12). pp. 2784-2793. doi:10.1093/cercor/bhr354

Filli, L., Hofstetter, L., Kuster, P., Traud, S., Mueller-Lenke, N., Naegelin, Y., Kappos, L., Gass, A., Sprenger, T., Nichols, Thomas E., Vrenken, H., Barkhof, F., Polman, C., Radue, E. -W., Borgwardt, S. J. and Bendfeldt, K. (2012) Spatiotemporal distribution of white matter lesions in relapsing-remitting and secondary progressive multiple sclerosis. Multiple Sclerosis Journal, Vol.18 (No.11). pp. 1577-1584. doi:10.1177/1352458512442756

Smith, Stephen M., Bandettini, P. A., Miller, K. L., Behrens, Timothy E. J., Friston, K. J., David, O., Liu, T., Woolrich, Mark W. and Nichols, Thomas E. (2012) The danger of systematic bias in group-level FMRI-lag-based causality estimation. NeuroImage, Vol.59 (No.2). pp. 1228-1229. doi:10.1016/j.neuroimage.2011.08.015

2011

Kochunov, Peter, Glahn, David C., Nichols, Thomas E., Winkler, Anderson M., Hong, Elliot L., Holcomb, Henry H., Stein, Jason L., Thompson, Paul M., Curran, Joanne E., Carless, Melanie A., Olvera, Rene L., Johnson, Matthew P., Cole, Shelley A., Kochunov, Valeria, Kent, Jack and Blangero, John (2011) Genetic analysis of cortical thickness and fractional anisotropy of water diffusion in the brain. Frontiers in Neuroscience, Vol.5 . p. 120. doi:10.3389/fnins.2011.00120

Silver, Matt, Montana, Giovanni and Nichols, Thomas E. (2011) False positives in neuroimaging genetics using voxel-based morphometry data. NeuroImage, Vol.54 (No.2). pp. 992-1000. doi:10.1016/j.neuroimage.2010.08.049

Ginestet, Cedric E., Nichols, Thomas E., Bullmore, Edward T. and Simmons, Andrew (2011) Brain network analysis : separating cost from topology using cost-integration. PLoS ONE, Vol.6 (No.7). Article: e21570. doi:10.1371/journal.pone.0021570

Salimi-Khorshidi, Gholamreza, Nichols, Thomas E., Smith, Stephen M. and Woolrich, Mark W. (2011) Using gaussian-process regression for meta-analytic neuroimaging inference based on sparse observations. IEEE Transactions on Medical Imaging, Vol.30 (No.7). pp. 1401-1416. doi:10.1109/TMI.2011.2122341

Yarkoni, Tal, Poldrack, Russell A., Nichols, Thomas E., Van Essen, David and Wager, Tor D. (2011) Large-scale automated synthesis of human functional neuroimaging data. Nature Methods, Vol.8 (No.8). pp. 665-670. doi:10.1038/nmeth.1635

Yarkone, T., Poldrack, Russell A., Nichols, Thomas E., Van Essen, David and Wager, Tor D. (2011) Large-scale automated decoding of human brain activity. In: Cognitive Neuroscience (CSN), San Francisco, CA, U.S.A., Apr 2-5, 2011 (Unpublished)

Kang, Jian, Nichols, Thomas E., Johnson, Timothy D. and Wager, Tor D. (2011) Meta analysis of functional neuroimaging data via Bayesian spatial point processes. Journal of the American Statistical Association, Vol.106 (No.493). pp. 124-134. doi:10.1198/jasa.2011.ap09735

Kang, J. (Jian), Johnson, T. D., Nichols, Thomas E., Barrett, L. F. and Wager, Tor D. (2011) A Bayesian spatial point process classification model with application to functional neuroimaging inverse inference. In: ENAR Spring Meeting, Miami, FL, U.S.A., Mar 20-23, 2011

Nichols, Thomas E. (2011) Estimating community structure in resting state data with Erdös-Renyi mixture models. In: Networks in the Human Brain Conference, Max Planck Institute for Human Cognitive & Brain Sciences, 7-8 Mar 2011

Johnson, T. D., Nichols, Thomas E. and Radue, E.-W. (Ernst-Wilhelm) (2011) Identifying spatial differences in multiple sclerosis subtypes via a marked log Gaussian Cox process. In: ENAR Spring Meeting, Miami, FL, U.S.A., 20-23 Mar 2011

Nichols, Thomas E. (2011) Towards spatial regularization to improve heritability estimates. In: Idea Lab workshop, Imperial College, London, U.K., Feb 11, 2011 (Unpublished)

Nichols, Thomas E. (2011) Statistical challenges in fMRI : optimizing fMRI designs & random field theory cluster mass inference. In: MASDOC Research Overview, University of Warwick, Coventry, UK, 8 Feb 2011 (Unpublished)

Salimi-Khorshidi, Gholamreza, Smith, Stephen M. and Nichols, Thomas E. (2011) Adjusting the effect of nonstationarity in cluster-based and TFCE inference. NeuroImage, Vol.54 (No.3). pp. 2006-2019. doi:10.1016/j.neuroimage.2010.09.088

Dixson, L., Ridler, K., Nichols, Thomas E., Rao, A. W., Whitcher, B., Samann, P. G., Auer, Dorothee P., Holsboer, Florian, Muglia, P., Matthews, Paul M. and Inkster, Becky (2011) Associations between thyroid hormone transporter gene variants and grey matter volume changes. In: 18th Annual Meeting of the Organization for Human Brain Mapping, Quebec City, Canada, 26-30 Jun 2011

Dixson, L., Ridler, K., Nichols, Thomas E., Rao, A. W., Whitcher, B., Samann, P. G., Auer, Dorothee P., Holsboer, Florian, Muglia, Pierandrea, Matthews, Paul M. and Inkster, Becky (2011) Effects of a common variant in GSK3 on Hippocampal volume in healthy human volunteers. In: 18th Annual Meeting of the Organization for Human Brain Mapping, Quebec City, Canada, 26-30 Jun 2011

Nichols, Thomas E. (2011) Estimating community structure in resting state data with Erdös-Rényi mixture models. In: Networks in the Human Brain Conference, Max Planck Institute , 7-8 Mar 2011 (Unpublished)

Poldrack, Russell A., Mumford, Jeanette A. and Nichols, Thomas E. (2011) Handbook of functional MRI data analysis. Cambridge, U.K.: Cambridge University Press. ISBN 9780521517669

Yarkoni, Tal, Poldrack, Russell A., Nichols, Thomas E., Van Essen, David C. and Wager, Tor D. (2011) Large-scale automated synthesis of human functional neuroimaging data. Nature Methods, 8 (8). pp. 665-670. doi:10.1038/nmeth.1635

Bendfeldt, Kerstin, Hofstetter, Louis, Kuster, Pascal, Traud, Stefan, Mueller-Lenke, Nicole, Naegelin, Yvonne, Kappos, Ludwig, Gass, Achim, Nichols, Thomas E., Barkhof, Frederik, Vrenken, Hugo, Roosendaal, Stefan D., Geurts, Jeroen J.G., Radue, Ernst-Wilhelm and Borgwardt, Stefan J. (2011) Longitudinal gray matter changes in multiple sclerosis-differential scanner and overall disease-related effects. Human Brain Mapping, Vol.33 (No.5). pp. 1225-1245. doi:10.1002/hbm.21279

Nichols, Thomas E. (2011) Mixed effects and group modelling for fMRI data. In: Idea Lab Workshop, 11 Feb 2011 (Unpublished)

Nichols, Thomas E. and Mumford, Jeanette A. (2011) Notes on fMRI power. In: Notes of fMRI Power, Cambridge University, 31 Jan 2011 (Unpublished)

Nichols, Thomas E. and Mumford, Jeanette A. (2011) Notes on fMRI power. In: MRC Cognition & Brain Unit, Cambridge University, 31 Jan 2011 (Unpublished)

Nichols, Thomas E. (2011) Point process modelling for group fMRI, neuroimaging meta analysis, & multiple sclerosis lesion data. In: Welcome Department of Cognitive Neurology Methods Seminar, University College London, London, U.K., Mar 3, 2011 (Unpublished)

Kang, J. (Jian), Johnson, T. D., Nichols, Thomas E., Wager, Tor D. and Barrett, L. F. (2011) Reverse-inference for meta-analysis : predicting study type with a fully Bayesian spatial model. In: 18th Annual Meeting of the Organization for Human Brain Mapping, Quebec City, Canada, 26-30 Jun 2011

Nichols, Thomas E. (2011) Role of permutation inference in functional MRI clinical trials. In: Role of Permutation Inference in Fucntional MRI Clinical Trials, Rahway, U.S.A., 21 Mar 2011 (Unpublished)

Nichols, Thomas E. (2011) Role of permutation inference in functional MRI clinical trials. In: Merck & Co, Biometrics Group, Rahway, USA, 21 Mar 2011 (Unpublished)

Nichols, Thomas E. and Waldrop, L. (2011) Smoothed sandwich to replace MFX in longitudinal fMRI. In: 18th Annual Meeting of the Organization for Human Brain Mapping, Quebec City, Canada, 26-30 Jun 2011

Nichols, Thomas E. (2011) Statistical challenges in fMRI : optimizing fMRI designs & random field theory cluster mass inference. In: MASDOC Research Overview Talk, University of Warwick, 8 Feb 2011 (Unpublished)

Dixson, Luanna, Ridler, Khanum, Nichols, Thomas E., Saemann, Philipp G., Auer, Dorothee P., Holsboer, Florian, Muglia, Pierandrea, Matthews, Paul M. and Inkster, Becky (2011) Thyroid hormone transporter genes and grey matter changes in patients with major depressive disorder and healthy controls. Psychoneuroendocrinology, Vol.36 (No.6). pp. 929-934. doi:10.1016/j.psyneuen.2010.12.002

Yarkoni, Tal, Poldrack, Russell A., Nichols, Thomas E., Van Essen, David and Wager, Tor D. (2011) Towards large-scale automated synthesis of the human neuroimaging literature. In: 18th Annual Meeting of the Organization for Human Brain Mapping, Quebec City, Canada, 26-30 Jun 2011

(2011) Validation and pilot application of [18F]FDG-PET in evaluation of a metabolic therapy for Alzheimer's disease. In: Ashford, J. Wesson and Rosen, Allyson and Adamson, Maheen and Bayley, Peter and Sabri, Osama and Furst, Ansgar and Black, Sandra E. and Weiner, Michael , (eds.) Handbook of imaging the Alzheimer brain (Advances in Alzheimer's Disease, vol. 2). Amsterdam: IOS Press, pp. 627-642. ISBN 9781607507925

2010

Nichols, Thomas E. (2010) Modelling & inference of brain imaging data. In: Decision Research @ Warwick, University of Warwick, Coventry, UK, Dec 7, 2010 (Unpublished)

Verchinski, B. A., Inkster, Becky, Gambale, C., Nichols, Thomas E., Matthews, Paul M., Zoltick, B., Zhang, F., Goldman, A. L., Mattay, V. S., Weinberger, Daniel R. (Daniel Roy) and Tost, H. (2010) Effects of a common variant in GSK3 on hippocampal volume in healthy human volunteers. In: American College of Neuropsychopharmacology, 49th Annual Meeting, Miami Beach, FL, U.S.A., Dec 5-9, 2010

Nichols, Thomas E. (2010) Point process modelling of brain image data. In: Statistical Science Seminar, Department of Mathematics, Imperial College, London, U.K., Nov 19, 2010 (Unpublished)

Alzheimers Disease Neuroimaging Initiative (Including: Vounou, Maria, Nichols, Thomas E. and Montana, Giovanni). (2010) Discovering genetic associations with high-dimensional neuroimaging phenotypes: a sparse reduced-rank regression approach. NeuroImage, Vol.53 (No.3). pp. 1147-1159. doi:10.1016/j.neuroimage.2010.07.002

Inkster, Becky, Nichols, Thomas E., Saemann, Philipp G., Auer, Dorothee P., Holsboer, Florian, Muglia, Pierandrea and Matthews, Paul M. (2010) Pathway-based approaches to imaging genetics association studies: Wnt signaling, GSK3beta substrates and major depression. NeuroImage, Vol.53 (No.3). pp. 908-917. doi:10.1016/j.neuroimage.2010.02.065

Nichols, Thomas E. (2010) To estimate or infer? Understanding and avoiding ”voodoo correlations” in imaging neuroscience. In: Experimental and Behavioural Forum, University of Warwick, Department of Economics, Oct 28, 2010 (Unpublished)

(2010) A multi-center randomized proof-of-concept clinical trial applying [18F]FDG-PET for evaluation of metabolic therapy with rosiglitazone XR in mild to moderate Alzheimer's disease. Journal of Alzheimer's Disease, Vol.22 (No.4). pp. 1241-1256. doi:10.3233/JAD-2010-100939

Nichols, Thomas E. (2010) Statistical contributions to clinical imaging. In: Statistical Contributions to Clinical Imaging, University Hospital, Department of Surgery, Padova, Italy, 9 Sep 2010 (Unpublished)

Smith, Stephen M., Miller, Karla L., Salimi-Khorshidi, Gholamreza, Webster, Matthew, Beckmann, Christian F., Nichols, Thomas E., Ramsey, Joseph D. and Woolrich, Mark W. (2010) Network modelling methods for FMRI. NeuroImage, Vol.54 (No.2). pp. 875-891. doi:10.1016/j.neuroimage.2010.08.063

Kriegeskorte, Nikolaus, Lindquist, Martin A., Nichols, Thomas E., Poldrack, Russell A. and Vul, Edward (2010) Everything you never wanted to know about circular analysis, but were afraid to ask. Journal of Cerebral Blood Flow and Metabolism, Vol.30 (No.9). pp. 1551-1557. doi:10.1038/jcbfm.2010.86

Nichols, Thomas E. (2010) Threshold-free cluster enhancement (TFCE) : improving power and stability of cluster size inference in brain imaging. In: Joint Statistical Meeting, Vancouver, Canada, Jul 31 - Aug 5, 2010 (Unpublished)

Nichols, Thomas E. (2010) Permutation tests for brain imaging - the interplay with parametric random field theory. In: Statistics for Complex Problems: The Multivariate Permutation Approach and Related Topics, Padova, Italy, Jun 14, 2010 (Unpublished)

Nichols, Thomas E. (2010) To estimate or infer? Lessons from genetics. In: Why Should I Believe Your Model? How To Be a Skeptical Neuroimager, Morning Workshop, 16th Annual Meeting of the Organization for Human Brain Mapping, Barcelona, Spain, 7 Jun 2010 (Unpublished)

Nichols, Thomas E. and Waldorp, L. (2010) Accurate and computationally efficient analysis of longitudinal fMRI data. In: 17th Annual Meeting of the Organization for Human Brain Mapping, Barcelona, Spain, 10-14 Jun 2010

Silver, Matt, Nichols, Thomas E. and Montana, Giovanni (2010) False positives in imaging genetics using nonstationary cluster-size inference. In: 17th Annual Meeting of the Organization for Human Brain Mapping, Barcelona, Spain, 10-14 Jun 2010

Kang, J. (Jian), Johnson, Timothy D., Wager, Tor D. and Nichols, Thomas E. (2010) Improving precision and interpretability of meta analyses with a Bayesian hierarchal spatial model. In: 17th Annual Meeting of the Organization for Human Brain Mapping, Barcelona, Spain, 10-14 Jun 2010

Salimi-Khorshidi, R., Nichols, Thomas E., Laird, Angela, Fox, Peter T. and Smith, Stephen M. (2010) Meta-analytic functional connectivity : finding brain regions’ multi-way interactions. In: 17th Annual Meeting of the Organization for Human Brain Mapping, Barcelona, Spain, 10-14 Jun 2010

Nichols, Thomas E. (2010) Inference on SPMs : random field theory & alternatives. In: SPM Course, Functional Imaging Laboratory, University of College London, May 13, 2010 (Unpublished)

Bendfeldt, Kerstin, Egger, Hanspeter, Nichols, Thomas E., Loetscher, Patrick, Denier, Niklaus, Kuster, Pascal, Traud, Stefan, Mueller-Lenke, Nicole, Naegelin, Yvonne, Gass, Achim, Kappos, Ludwig, Radue, Ernst-Wilhelm and Borgwardt, Stefan (2010) Effect of immunomodulatory medication on regional gray matter loss in relapsing–remitting multiple sclerosis — a longitudinal MRI study. Brain Research, Vol.1325 . pp. 174-182. doi:10.1016/j.brainres.2010.02.035

Nichols, Thomas E. (2010) RFT in practice : head in the continuum, feet on the lattice. In: Welcome Department of Cognitive Neurology, Methods2 Seminar, University College London, London, U.K., Apr 13, 2010 (Unpublished)

Silver, Matt, Montana, Giovanni and Nichols, Thomas E. (2010) False positives in neuroimaging genetics using cluster-size inference. In: Europena Mathematical Genetics Meeting, University of Oxford, Mar 24-25, 2010 (Unpublished)

Nichols, Thomas E. (2010) Categorical data analysis. In: Tutorial, FMRIB Centre, Oxford University, Feb 10, 2010 (Unpublished)

Nichols, Thomas E. (2010) Mixed effects and group modeling for fMRI data. In: SPM Course, Institute for Empirical Research in Economics, University of Zurich, 18 Feb 2010 (Unpublished)

Bendfeldt, Kerstin, Blumhagen, Jan Ole, Egger, Hanspeter, Loetscher, Patrick, Denier, Niklaus, Kuster, Pascal, Traud, Stefan, Mueller-Lenke, Nicole, Naegelin, Yvonne, Gass, Achim, Hirsch, Jochen, Kappos, Ludwig, Nichols, Thomas E., Radue, Ernst-Wilhelm and Borgwardt, Stefan (2010) Spatiotemporal distribution pattern of white matter lesion volumes and their association with regional grey matter volume reductions in relapsing-remitting multiple sclerosis. Human Brain Mapping, Vol.31 (No.10). pp. 1542-1555. doi:10.1002/hbm.20951

Nichols, Thomas E. (2010) Advances in statistical methods in imaging genetics. In: Genetics, Cognition & Psychosis Program, National Institutes of Health, Jan 21, 2010 (Unpublished)

Nichols, Thomas E., Friston, K. J. (Karl J.), Roiser, Jonathan and Viding, Essi (2010) Dangers of using Falconer’s Heritability estimate with typical imaging genetic sample sizes. In: Poster Session at the 6th International Imaging Genetics Conference, Irvine, CA, U.S.A., Jan 18-19, 2010

Cole, D. M., Beckmann, C. F., Nichols, Thomas E., Searle, G. E., Tziortzi, A. C., Gunn, R. N., Matthews, Paul M., Rabiner, E. A. and Beaver, J. D. (2010) Dopamine D3 receptor availability explains orbitofrontal connectivity with cognitive networks. In: 17th Annual Meeting of the Organization for Human Brain Mapping, Barcelona, Spain, 10-14 Jun 2010

Cole, D. M., Beckmann, C. F., Nichols, Thomas E., Searle, G. E., Tziortizi, A. C., Gunn, R. N., Matthews, Paul M., Rabiner, E. A. and Beaver, J. D. (2010) Dopamine D3 receptor availability explains orbitofrontal connectivity with cognitive networks. In: 17th Annual Meeting of the Organization for Human Brain Mapping, Barcelona, Spain, 10-14 Jun 2010

Kang, J., Johnson, T. D., Nichols, Thomas E., Barrett, L. F. and Wager, Tor D. (2010) Meta analysis of functional neuroimaging data via Bayesian spatial point processes. In: ENAR Spring Meeting, New Orleans, 21-24 Mar 2010

Walton, R. (Rachel), Winkler, Anderson M., Blangero, John, Fox, Peter T., Glahn, David C. and Nichols, Thomas E. (2010) Reliable heritability clustering - finding distinct genetic factors that influence cortical thickness. In: 17th Annual Meeting of the Organization for Human Brain Mapping, Barcelona, Spain, 10-14 Jun 2010

Walton, Richard I., Winkler, A., Blangero, J., Fox, P., Glahn, D. and Nichols, Thomas E. (2010) Reliable heritability clustering - finding distinct genetic factors that influence cortical thinking. In: 17th Annual Meeting of the Organization for Human Brain Mapping, Barcelona, Spain, 10-14 Jun 2010

Inkster, Becky, Rao, Anil W., Ridler, Khanum, Nichols, Thomas E., Saemann, Philipp G., Auer, Dorothee P., Holsboer, Florian, Tozzi, Federica, Muglia, Pierandrea, Merlo-Pich, Emilio and Matthews, Paul M. (2010) Structural brain changes in patients with recurrent major depressive disorder presenting with anxiety symptoms. Journal of Neuroimaging, Vol.21 (No.4). pp. 375-382. doi:10.1111/j.1552-6569.2010.00515.x

2009

Nichols, Thomas E. (2009) A hierarchical spatial Bayesian model for functional MRI. In: Signal and Image Processing Group Seminars, Department of Computer Science, University of Warwick, Coventry, U.K., Dec 10, 2009 (Unpublished)

Xu, L., Johnson, Timothy D., Nichols, Thomas E. and Nee, Derek E. (2009) Modeling inter-subject variability in fMRI activation location: a Bayesian hierarchical spatial model. Biometrics, Vol.65 (No.4). pp. 1041-1051. doi:10.1111/j.1541-0420.2008.01190.x

Nichols, Thomas E., Xu, L. and Johnson, T. D. (2009) A hierarchical spatial Bayesian model for multisubject functional MRI data. In: Oxford-Warwick Statistics Seminar, University of Warwick, Coventry, UK, 5 Nov 2009 (Unpublished)

Nichols, Thomas E. (2009) Random field theory. In: SPM Short Course, Functional Imaging Laboratory, University College London, Oct 22, 2009 doi:10.1016/j.neuroimage.2008.08.017 (Unpublished)

Mumford, Jeanette A. and Nichols, Thomas E. (2009) Simple group fMRI modeling and inference. NeuroImage, Vol.47 (No.4). pp. 1469-1475. doi:10.1016/j.neuroimage.2009.05.034

Mumford, Jeanette A. and Nichols, Thomas E. (2009) Simple group fMRI modeling and inference. NeuroImage, 47 (4). pp. 1469-1475. doi:10.1016/j.neuroimage.2009.05.034

Nichols, Thomas E. (2009) Tools for statistical inference in functional & structural brain imaging. In: International Digital Lab Seminar, Warwick Manufacturing Group, University of Warwick, Coventry, U.K., Oct 13, 2009 (Unpublished)

Woolrich, Mark W., Beckmann, C. F., Nichols, Thomas E. and Smith, Stephen M. (2009) Statistical analysis of fMRI data. In: Filippi, Massimo, (ed.) fMRI techniques and protocols. Neuromethods (Vol.41). New York ; London : Humana Press, Inc., pp. 179-236. ISBN 9781603279185

Nichols, Thomas E. (2009) Statistical opportunities in brain imaging: a case study with neuroimaging meta analysis. In: RSS Conference, Edinburgh, Scotland, Sep 7-11, 2009 (Unpublished)

Inkster, Becky, Nichols, Thomas E., Saemann, Philipp G., Auer, Dorothee P., Holsboer, Florian, Muglia, Pierandrea and Matthews, Paul M. (2009) Association of GSK3β polymorphisms with brain structural changes in major depressive disorder. Archives of General Psychiatry, Vol.66 (No.7). pp. 721-728. doi:10.1001/archgenpsychiatry.2009.70

Nichols, Thomas E. and Poline, Jean-Baptiste (2009) Commentary on Vul et al.'s (2009) "Puzzlingly high correlations in fMRI studies of emotion, personality, and social cognition". Perspectives on Psychological Science, Vol.4 (No.3). pp. 291-293. doi:10.1111/j.1745-6924.2009.01126.x

Albin, R. L., Koeppe, Robert Allen, Wernette, K., Zhuang, W., Nichols, Thomas E., Kilbourn, M. R. and Frey, K. A. (2009) Striatal [11C]dihydrotetrabenazine and [11C]methylphenidate binding in Tourette syndrome. Neurology, Vol.72 (No.16). pp. 1390-1396. doi:10.1212/WNL.0b013e3181a187dd

Salimi-Khorshidi, Gholamreza, Smith, Stephen M., Keltner, John R., Wager, Tor D. and Nichols, Thomas E. (2009) Meta-analysis of neuroimaging data: a comparison of image-based and coordinate-based pooling of studies. NeuroImage, Vol.45 (No.3). pp. 810-823. doi:10.1016/j.neuroimage.2008.12.039

Bendfeldt, Kerstin, Kuster, Pascal, Traud, Stefan, Egger, Hanspeter, Winklhofer, Sebastian, Mueller-Lenke, Nicole, Naegelin, Yvonne, Gass, Achim, Kappos, Ludwig, Matthews, Paul M., Nichols, Thomas E., Radue, E.-W. (Ernst-Wilhelm) and Borgwardt, Stefan (2009) Association of regional gray matter volume loss and progression of white matter lesions in multiple sclerosis — a longitudinal voxel-based morphometry study. NeuroImage, Vol.45 (No.1). pp. 60-67. doi:10.1016/j.neuroimage.2008.10.006

Johnson, T. D., Xu, Lei, Nichols, Thomas E. and Wager, T. (2009) Spatial point process modelling of group fMRI data analysis. In: ENAR Spring Meeting, San Antonio, TX, U.S.A., Mar 15-18, 2009. Published in: Final program of the 2009 ENAR Spring Meeting p. 56.

Zhang, Hui, Nichols, Thomas E. and Johnson, Timothy D. (2009) Cluster mass inference via random field theory. NeuroImage, Vol.44 (No.1). pp. 51-61. doi:10.1016/j.neuroimage.2008.08.017

Smith, Stephen M. and Nichols, Thomas E. (2009) Threshold-free cluster enhancement: addressing problems of smoothing, threshold dependence and localisation in cluster inference. NeuroImage, Vol.44 (No.1). pp. 83-98. doi:10.1016/j.neuroimage.2008.03.061

Pantazis, Dimitrios, Simpson, Gregory V., Weber, Darren L., Dale, Corby Leslie, Nichols, Thomas E. and Leahy, Richard M. (2009) A novel ANCOVA design for analysis of MEG data with application to a visual attention study. NeuroImage, Vol.44 (No.1). pp. 164-174. doi:10.1016/j.neuroimage.2008.07.012

Salimi-Khorshidi, Gholamreza, Smith, Stephen M. and Nichols, Thomas E. (2009) Adjusting the neuroimaging statistical inferences for nonstationarity. Medical Image Computing and Computer-Assisted Intervention – MICCAI 2009 12th International Conference, London, UK, September 20-24, 2009, Proceedings, Part I, Vol.5761 . pp. 992-999. doi:10.1007/978-3-642-04268-3_122

Nichols, Thomas E. (2009) Statistical perspective on fMRI data analysis: beyond mass-univariate modelling. In: MICCAI, 12th International Conference, London, U.K., Sep 24, 2009 (Unpublished)

2008

Carter, Cameron S., Heckers, Stephan, Nichols, Thomas E., Pine, Daniel S. and Strother, Stephen (2008) Optimizing the design and analysis of clinical functional magnetic resonance imaging research studies. Biological Psychiatry, Vol.64 (No.10). pp. 842-849. doi:10.1016/j.biopsych.2008.06.014

Filippini, Nicola, Rao, Anil, Wetten, Sally, Gibson, Rachel A., Borrie, Michael, Guzman, Danilo, Kertesz, Andrew, Loy-English, Inge, Williams, Julie, Nichols, Thomas E., Whitcher, Brandon and Matthews, Paul M. (2008) Anatomically-distinct genetic associations of APOE ɛ4 allele load with regional cortical atrophy in Alzheimer's disease. NeuroImage, Vol.44 (No.3). pp. 724-728. doi:10.1016/j.neuroimage.2008.10.003

Purkayastha, Sumitra, Wager, Tor D. and Nichols, Thomas E. (2008) Inferring individual differences in fMRI : finding brain regions with significant within subject correlation. Statistica Sinica, Vol.18 . pp. 1483-1500.

Wager, Tor D., Lindquist, Martin A., Nichols, Thomas E., Kober, Hedy and Van Snellenberg, Jared X. (2008) Evaluating the consistency and specificity of neuroimaging data using meta-analysis. NeuroImage, Vol.45 (No.1). S210-S221. doi:10.1016/j.neuroimage.2008.10.061

Mumford, Jeanette A. and Nichols, Thomas E. (2008) Power calculation for group fMRI studies accounting for arbitrary design and temporal autocorrelation. NeuroImage, Vol.39 (No.1). pp. 261-268. doi:10.1016/j.neuroimage.2007.07.061

2007

Poldrack, Russell A., Fletcher, Paul C., Henson, Richard N., Worsley, Keith J., Brett, M. (Matthew) and Nichols, Thomas E. (2007) Guidelines for reporting an fMRI study. NeuroImage, Vol.40 (No.2). pp. 409-414. doi:10.1016/j.neuroimage.2007.11.048

Smith, Stephen M., Johansen-Berg, Heidi, Jenkinson, Mark, Rueckert, Daniel, Nichols, Thomas E., Miller, Karla L., Robson, Matthew D., Jones, Derek K., Klein, Johannes C., Bartsch, Andreas J. and Behrens, Timothy E. J. (2007) Acquisition and voxelwise analysis of multi-subject diffusion data with Tract-Based Spatial Statistics. Nature Protocols, Vol.2 (No.3). pp. 499-503. doi:10.1038/nprot.2007.45

2006

Mumford, Jeanette A., Hernandez-Garcia, Luis, Lee, Gregory R. and Nichols, Thomas E. (2006) Estimation efficiency and statistical power in arterial spin labeling fMRI. NeuroImage, Vol.33 (No.1). pp. 103-114. doi:10.1016/j.neuroimage.2006.05.040

Smith, Stephen M., Jenkinson, Mark, Johansen-Berg, Heidi, Rueckert, Daniel, Nichols, Thomas E., Mackay, Clare E., Watkins, Kate E., Ciccarelli, Olga, Cader, M. Zaheer, Matthews, Paul M. and Behrens, Timothy E. J. (2006) Tract-based spatial statistics : voxelwise analysis of multi-subject diffusion data. NeuroImage, Vol.31 (No.4). pp. 1487-1505. doi:10.1016/j.neuroimage.2006.02.024

Zhang, H., Luo, Wen-Lin and Nichols, Thomas E. (2006) Diagnosis of single-subject and group fMRI data with SPMd. Human Brain Mapping, Vol.27 (No.5). pp. 442-451. doi:10.1002/hbm.20253

Mumford, Jeanette A. and Nichols, Thomas E. (2006) Modeling and inference of multisubject fMRI data. IEEE Engineering in Medicine and Biology Magazine, Vol.25 (No.2). pp. 42-51. doi:10.1109/MEMB.2006.1607668

Friston, K. J. (Karl J.), Penny, William D., Ashburner, John, Kiebel, Stefan J. and Nichols, Thomas E. (2006) Statistical parametric mapping : the analysis of functional brain images. London: Academic Press. ISBN 9780123725608

2005

Lund, Torben E., Madsen, Kristoffer H., Sidaros, Karam, Luo, Wen-Lin and Nichols, Thomas E. (2005) Non-white noise in fMRI : Does modelling have an impact? NeuroImage, Vol.29 (No.1). pp. 54-66. doi:10.1016/j.neuroimage.2005.07.005

Nichols, Thomas E., Brett, M. (Matthew), Andersson, Jesper, Wager, Tor D. and Poline, Jean-Baptiste (2005) Valid conjunction inference with the minimum statistic. NeuroImage, Vol.25 (No.3). pp. 653-660. doi:10.1016/j.neuroimage.2004.12.005

Pantazis, Dimitrios, Nichols, Thomas E., Baillet, Sylvain and Leahy, Richard M. (2005) A comparison of random field theory and permutation methods for the statistical analysis of MEG data. NeuroImage, Vol.25 (No.2). pp. 383-394. doi:10.1016/j.neuroimage.2004.09.040

2004

Hayasaka, Satoru and Nichols, Thomas E. (2004) Combining voxel intensity and cluster extent with permutation test framework. NeuroImage, Vol.23 (No.1). pp. 54-63. doi:10.1016/j.neuroimage.2004.04.035

Hayasaka, Satoru, Phan, K. Luan, Liberzon, Israel, Worsley, Keith J. and Nichols, Thomas E. (2004) Nonstationary cluster-size inference with random field and permutation methods. NeuroImage, Vol.22 (No.2). pp. 676-687. doi:10.1016/j.neuroimage.2004.01.041

Pantazis, Dimitrios, Leahy, Richard M., Nichols, Thomas E. and Styner, Martin Andreas (2004) Statistical surface-based morphometry using a nonparametric approach. In: Symposium on Biomedical Imaging 2004, Arlington, VA, USA, 15th-18th April 2004. Published in: Biomedical Imaging: Nano to Macro, 2004. IEEE International Symposium, Vol.2 pp. 1283-1286. ISSN 1945-8452. doi:10.1109/ISBI.2004.1398780

Nichols, Thomas E. and Luo, Wen-Lin (2004) Data exploration through model diagnosis. NeuroImage, Vol.13 (No.6). p. 208. doi:10.1016/S1053-8119(01)91551-4

Hayasaka, Satoru and Nichols, Thomas E. (2004) Combining voxel intensity and cluster extent with a permutation test framework. In: 2004 IEEE International Symposium on Biomedical Imaging : From Nano to Macro, Arlington, VA, 15-18 April 2004. Published in: Biomedical Imaging: Nano to Macro, 2004. IEEE International Symposium ISSN 1945-8452. doi:10.1109/ISBI.2004.1398673

2003

Hayasaka, Satoru and Nichols, Thomas E. (2003) Validating cluster size inference : random field and permutation methods. NeuroImage, Vol.20 (No.4). pp. 2343-2356. doi:10.1016/j.neuroimage.2003.08.003

Luo, Wen-Lin and Nichols, Thomas E. (2003) Diagnosis and exploration of massively univariate neuroimaging models. NeuroImage, Vol. 19 (No. 3). pp. 1014-1032. doi:10.1016/S1053-8119(03)00149-6

Wager, Tor D. and Nichols, Thomas E. (2003) Optimization of experimental design in fMRI : a general framework using a genetic algorithm. NeuroImage, Vol.18 (No.2). pp. 293-309. doi:10.1016/S1053-8119(02)00046-0

Phan, K. Luan, Taylor, Stephan F., Welsh, Robert C., Decker, Laura R., Noll, Douglas C., Nichols, Thomas E., Britton, Jennifer C. and Liberzon, Israel (2003) Activation of the medial prefrontal cortex and extended amygdala by individual ratings of emotional arousal : a fMRI study. Biological Psychiatry, Vol.53 (No.3). pp. 211-215. doi:10.1016/S0006-3223(02)01485-3

Nichols, Thomas E. and Hayasaka, Satoru (2003) Controlling the familywise error rate in functional neuroimaging : a comparative review. Statistical Methods in Medical Research, Vol.12 (No.5). pp. 419-446. doi:10.1191/0962280203sm341ra

Jonides, John, Ching-Yune C., Sylvester, Lacey, Steven C., Wager, Tor D., Nichols, Thomas E. and Awh, Edward (2003) Modules of working memory. In: Kluwe, Rainer and Lüer, Gerd, 1938- and Rösler, Frank, (eds.) Principles of Learning and Memory. New York: Springer, pp. 113-134. ISBN 978-3-7643-6699-5

Pantazis, Dimitrios, Nichols, Thomas E., Baillet, Sylvain and Leahy, Richard M. (2003) Spatiotemporal localization of significant activation in MEG using permutation tests. Lecture Notes in Computer Science, Vol.2732 . pp. 512-523. doi:10.1007/978-3-540-45087-0_43

2002

Sylvester, Ching-Yune C., Wager, Tor D., Lacey, Steven C., Hernandez, Luis, Nichols, Thomas E., Smith, Edward E. and Jonides, John (2002) Switching attention and resolving interference: fMRI measures of executive functions. Neuropsychologia, Vol. 41 (No. 3). pp. 357-370. doi:10.1016/S0028-3932(02)00167-7

Genovese, Christopher R., Lazar, Nicole A. and Nichols, Thomas E. (2002) Thresholding of statistical maps in functional neuroimaging using the false discovery rate. NeuroImage, Vol.15 (No.4). pp. 870-878. doi:10.1006/nimg.2001.1037

Derbyshire, Stuart W. G., Nichols, Thomas E., Firestone, Leonard L., Townsend, David W., Ph.D. and Jones, Anthony K. P. (2002) Gender differences in patterns of cerebral activation during equal experience of painful laser stimulation. The Journal of Pain, Vol.3 (No.5). pp. 401-411. doi:10.1054/jpai.2002.126788

Nichols, Thomas E. and Holmes, Andrew P. (2002) Nonparametric permutation tests for functional neuroimaging : a primer with examples. Human Brain Mapping, 15 (1). pp. 1-25. doi:10.1002/hbm.1058

Ossadtchi, Alex, Brown, Vanessa M., Khan, Arshad H., Cherry, Simon R., Nichols, Thomas E., Leahy, Richard M. and Smith, Desmond James (2002) Statistical analysis of multiplex brain gene expression images. Neurochemical Research, Vol.27 (No.10). pp. 1113-1121. doi:10.1023/A:1020965107124

1999

Nofzinger, Eric A., Nichols, Thomas E. , Meltzer, Carolyn C. , Price, Julie, Steppe, Doris A. , Miewald, Jean M. , Kupfer, David J. and Moore , Robert Y. (1999) Changes in forebrain function from waking to REM sleep in depression: preliminary analyses [of 18F]FDG PET studies. Psychiatry Research: Neuroimaging, Vol. 91 (No. 2). pp. 59-78. doi:10.1016/S0925-4927(99)00025-6

Nichols, Thomas E., Qi, Jinyi and Leahy, Richard M. (1999) Continuous time dynamic PET imaging using list mode data. In: IPMI '99 : 16th International Conference on Information Processing in Medical Imaging, Visegrad, Hungary, June 28 - July 2, 1999. Published in: IPMI '99 Proceedings of the 16th International Conference on Information Processing in Medical Imaging pp. 98-111.

Petersson, K. M., Nichols, Thomas E., Poline, Jean-Baptiste and Holmes, Andrew P. (1999) Statistical limitations in functional neuroimaging II. Signal detection and statistical inference. Philosophical Transactions of the Royal Society B: Biological Sciences, Vol.354 (No.1387). pp. 1261-1281. doi:10.1098/rstb.1999.0478

Petersson, K. M. and Nichols, Thomas E. (1999) Statistical limitations in functional neuroimaging. I. Non-inferential methods and statistical models. Philosophical Transactions of the Royal Society B: Biological Sciences, Vol.354 (No.1387). pp. 1239-1260. doi:10.1098/rstb.1999.0477

1998

Smith, Gwenn S., Price, Julie C., Lopresti, Brian J., Huang, Yiyun, Simpson, N. (Norman), Holt, D. (Daniel), Mason, N. Scott, Meltzer, Carolyn Cidis, Sweet, Robert A., Nichols, Thomas E., Sashin, Donald and Mathis, Chester A. (1998) Test-retest variability of serotonin 5-HT2A receptor binding measured with positron emission tomography and [18F]altanserin in the human brain. Synapse, Vol.30 (No.4). pp. 380-392. doi:10.1002/(SICI)1098-2396(199812)30:4<380::AID-SYN5>3.0.CO;2-U

Holmes, Andrew P., Watson, John D. G. and Nichols, Thomas E. (1998) Holmes and Watson on 'Sherlock'. Journal of Cerebral Blood Flow & Metabolism, Vol.18 (No.6). p. 697. doi:10.1097/00004647-199806000-00012

1997

Ganguli, Rohan, Carter, Cameron S., Mintun, Mark A., Brar, Jaspreet, Becker, James T., Sarma, Raj, Nichols, Thomas E. and Bennington, Elizabeth (1997) PET brain mapping study of auditory verbal supraspan memory versus visual fixation in schizophrenia. Biological Psychiatry, Vol. 41 (No. 1). pp. 33-42. doi:10.1016/S0006-3223(96)00206-5

Carter, Cameron S., Mintun, Mark A., Nichols, Thomas E. and Cohen, Jonathan D. (1997) Anterior cingulate gyrus dysfunction and selective attention deficits in schizophrenia: [15O]H2O PET study during single-trial stroop task performance. The American Journal of Psychiatry, Vol.154 . pp. 1670-1675.

1996

Herbster, A. N., Nichols, Thomas E., Wiseman, Marybeth, Mintun, Mark A., DeKosky, Steven T. and Becker, James T. (1996) Functional connectivity in auditory–verbal short-term memory in Alzheimer's disease. NeuroImage, Vol.4 (No.2). pp. 67-77. doi:10.1006/nimg.1996.0030

Nichols, Thomas E., Palmer, A. and Becker, James T. (1996) Meta-analysis of auditory verbal short-term memory using positron emission tomography. In: 48th Annual Meeting of the American Academy of Neurology, San Francisco, USA, March 23-30, 1996. Published in: American Academy of Neurology 48th Annual meeting program, Vol.46 (No.2).

Carter, Cameron S., Mintun, Mark A., Cohen, Jonathan D., Nichols, Thomas E. and Wiseman, Marybeth (1996) Anterior cingulate gyrus dysfunction and attentional pathology in schizophrenia [Abstract]. NeuroImage, Vol.3 (No.3). S477. doi:10.1016/S1053-8119(96)80479-4

Becker, James T., Mintun, Mark A., Aleva, K., Wiseman, Marybeth, Nichols, Thomas E. and DeKosky, Steven T. (1996) Compensatory reallocation of brain resources supporting verbal episodic memory in Alzheimer's disease. Neurology, Vol.46 . pp. 692-700.

Mann, J. John (Joseph John), Malone, Kevin M., Diehl, David J., Perel, James, Nichols, Thomas E. and Mintun, Mark A. (1996) Positron emission tomographic imaging of serotonin activation effects on prefrontal cortex in healthy volunteers. Journal of Cerebral Blood Flow & Metabolism, Vol.16 . pp. 418-426. doi:10.1097/00004647-199605000-00008

1995

Clark, Stuart, Dickinson, Mark R. , King, Terence A., Jones, A. (Anthony), Chen, Andrew, Derbyshire, Stuart, Townsend, David W., Ph.D., Kinahan, Paul E. , Mintun, Mark A. and Nichols, Thomas E. (1995) Laser stimulation for pain research. In: Biomedical Optoelectronics in Clinical Chemistry and Biotechnology, Barcelona, Spain, 12 September 1995. Published in: Proceedings of SPIE - International Society for Optical Engineering, Vol.197 pp. 197-205. ISSN 0277-786X. doi:10.1117/12.229532

Baumann, Stephen B., Noll, Douglas C., Kondziolka, D., Schneider, W., Nichols, Thomas E., Mintun, Mark A., Lewine, Jeffery D., Yonas, Howard, Orrison, William W. and Sclabassi, Robert (1995) Comparison of functional magnetic resonance imaging with positron emission tomography and magnetoencephalography to identify the motor cortex in a patient with an arteriovenous malformation. Computer Aided Surgery, Vol.1 (No.4). pp. 191-197. doi:10.3109/10929089509106324

1994

Diehl, David J., Keshavan, Matcheri S., Kanal, Emanuel, Nebes, R. D., Nichols, Thomas E. and Gillen, Joseph S. (1994) Post-ECT increases in MRI regional T2 relaxation times and their relationship to cognitive side effects : a pilot study. Psychiatry Research, Vol.54 (No.2). pp. 177-184. doi:10.1016/0165-1781(94)90005-1