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Journal Publications (reverse chrono)

* Equal contribution

  1. A David Edwards, Daniel Rueckert, Stephen M Smith, Sami Abo Seada, Amir Alansary, Jenie Almalbis, Joanna M Allsop, Tomoki Arichi, Jesper Andersson, Sophie Arulkumaran, Matteo Bastiani, Dafnis Batalle, Luke Baxter, Jelena Bozek, Eleanor Braithwaite, Jacqueline Brandon, Olivia Carney, Andrew Chew, Daan Christiaens, Raymond Chung, Kathleen Colford, Lucilio Cordero-Grande, Serena J Counsell, Harriet Cullen, John Cupitt, Charles Curtis, Alice Davison, Maria Deprez, Louise Dillon, Konstantina Dimitrakapoulou, Rali Dimitrova, Eugene Duff, Shona Falconer, Revzan Farahibozorgwe, Sean Fitzgibbon, Jianliang Gao, Andreia S Gaspar, Nicholas Harper, Samuel J Harrison, Emer Judith Hughes, Jana Hutter, Mark Jenkinson, Saad Jbabdi, Emily Jones, Vyacheslav Karolis, Vanessa Kyriakopoulou, Gregor Lenz, Antonis Makropoulos, Shaihan Malik, Filippo Mortari, Chiara Nosarti, Rita G. Nunes, Camilla O'Keefe, Jonathan O'Muircheartaigh, Hamel Patel, Jonathan Passerat-Palmbach, Maximillian Pietsch, Anthony N Price, Emma Robinson, Mary Ann Rutherford, Andreas Schuh, Stamatios Sotiropoulos, Johannes K Steinweg, Rui PAG Teixeira, Tencho Tenev, J-Donald Tournier, Nora Tusor, Alena Uus, Katy Vecchiato, Logan ZJ Williams, Robert Wright, Julia Wurie, Joseph V Hajnal (2022)
    The Developing Human Connectome Project Neonatal Data Release
    Frontiers in Neuroscience

  2. Tendler BC, Hanayik T, Ansorge O, Bangerter-Christensen S, Berns GS, Bertelsen MF, Bryant KL, Foxley S, Howard AFD, Huszar I, Khrapitchev AA, Leonte S, Manger PR, Menke RAL, Mollink J, Mortimer D, Pallebage-Gamarallage M, Roumazeilles L, Sallet J, Scott C, Smart A, Turner MR, Wang C, Jbabdi S*, Mars RB*, Miller KL* (2021)
    The Digital Brain Bank: an open access platform for post-mortem datasets
    eLife (preprint on Biorxiv)

  3. Douaud G, Lee S, Alfaro-Almagro F, Arthofer C, Wang C, McCarthy P, Lange F, Andersson JLR, Griffanti L, Duff E, Jbabdi S, Taschler B, Keating P, Winkler AM, Collins R, Matthews PM, Allen N, Miller KL, Nichols TE, Smith SM (2022)
    SARS-CoV-2 is associated with changes in brain structure in UK Biobank
    Nature (preprint on Medrxiv)

  4. Warrington S, Thompson E, Bastiani M, Dubois J, Baxter L, Slater R, Jbabdi S, Mars RB, Sotiropoulos SN (2022)
    Concurrent mapping of brain ontogeny and phylogeny within a common connectivity space

  5. Wu C, Ferreira F, Fox M, Harel N, Hattangadi-Gluth J, HornA, Jbabdi S, Kahan J, Oswal A, Sheth SA, Tie Y, Vakharia V, Zrinzo L and Akram H ((2021)
    Clinical Applications of Magnetic Resonance Imaging Based Functional and Structural Connectivity

  6. Farahibozorg S-R, Bijsterbosch JD, Gong W, Jbabdi S, Smith SM, Harrison SJ, Woolrich MW (2021)
    Hierarchical modelling of functional brain networks in population and individuals from big fMRI data
    Neuroimage (preprint on Biorxiv)

  7. Rafipoor H, Zheng YQ, Griffanti L, Jbabdi S, Cottaar M (2021)
    Identifying Microstructural Changes in Diffusion MRI; How to Break Parameter Degeneracy

  8. Zheng YQ, Farahibozorg Seyedeh-Rezvan, Gong W, Rafipoor H, Jbabdi S*, Stephen Smith SM* (2021)
    Accurate predictions of individual differences in task-evoked brain activity from resting-state fMRI using a sparse ensemble learner

  9. Dechent P*, Greenbank S*, Hildenbrand F, Jbabdi S, Sauer DU, Howey DA (2021)
    Estimation of Li-ion degradation test sample sizes required to understand cell-to-cell variability
    Batteries & Supercaps (preprint on Arxiv)

  10. Cottaar M, Wu W, Tendler BC, Nagy Z, Miller KL, Jbabdi S (2021)
    DIffusion-Prepared Phase Imaging (DIPPI): quantifying myelin in crossing fibres
    Magnetic Resonance in Medicine (preprint on Biorxiv)

  11. Mars RB, Jbabdi S*, Rushworth MFS* (2021)
    A Common Space Approach to Comparative Neuroscience
    Ann Rev Neurosci

  12. Cottaar M, Bastiani M, Boddu N, Glasser MF, Haber SN, Van Essen DC, Sotiropoulos SN*, Jbabdi S* (2021)
    Modelling white matter in gyral blades as a continuous vector field
    Neuroimage (preprint on Biorxiv)

  13. Haber SN, Yendiki A*, Jbabdi S* (2021)
    Four deep brain stimulation targets for obsessive-compulsive disorder: Are they different?
    Biological Psychiatry

  14. Clarke WT, Stagg SC, Jbabdi S (2021)
    FSL-MRS: An end-to-end spectroscopy analysis package
    Magnetic Resonance in Medicine (preprint on Biorxiv)

  15. Baxter L, Moultrie F, Fitzgibbon S, Aspbury M, Mansfield R, Bastiani M, Rogers R, Jbabdi S, Duff E, Slater R (2021)
    Functional and diffusion MRI reveal the functional and structural basis of infants' noxious-evoked brain activity
    Nature Communications (preprint on Biorxiv)

  16. Howard AFD, Lange FJ, Mollink J, Cottaar M, Drakesmith M, Rudrapatna SU, Jones DK, Miller KL*, Jbabdi S* (2020)
    Estimating intra-axonal axial diffusivity in the presence of fibre orientation dispersion

  17. Bijsterbosch J, Harrison SJ, Jbabdi S, Woolrich M, Beckmann C, Smith S, Duff E (2020)
    Challenges and future directions for representations of functional brain organization
    Nature Neuroscience

  18. Thompson E, Mohammadi-Nejad A, Robinson EC, Glasser MF, Jbabdi S, Bastiani M, Sotiropoulos SN (2020)
    Non-Negative Data-Driven Mapping of Structural Connections with Application to the Neonatal Brain
    Neuroimage (preprint on Biorxiv)

  19. Tendler BC*, Foxley S*, Hernandez-Fernandez M, Cottaar M, Scott C, Ansorge O, Miller KL*, Jbabdi S* (2020)
    Use of multi-flip angle measurements to account for transmit inhomogeneity and non-Gaussian diffusion in DW-SSFP
    Neuroimage (preprint on Biorxiv)

  20. Roumazeilles L, Eichert N, Bryant KL, Folloni D, Sallet J, Vijayakumar S, Foxley S, Tendler BC, Jbabdi S, Reveley C, Verhagen L1, Dershowitz LB, Guthrie M, Flach E, Miller KL, Mars RB (2020)
    Longitudinal connections and the organization of the temporal cortex in macaques, great apes, and humans
    PLoS Biology

  21. Warrington S, Bryant KL, Khrapitchev AA, Sallet J, Charquero-Ballester M, Douaud G, Jbabdi S*, Mars RB*, Sotiropoulos SN* (2020)
    XTRACT - Standardised protocols for automated tractography and connectivity blueprints in the human and macaque brain
    Neuroimage (preprint on Biorxiv)

  22. Cottaar M, Szczepankiewicz F , Bastiani M, Hernandez-Fernandez M, Sotiropoulos SN, Nilsson M, Jbabdi S (2020)
    Improved fibre dispersion estimation using b-tensor encoding
    Neuroimage (preprint on Arxiv)

  23. Khalighinejad N, Priestley L, Jbabdi S, Rushworth MFS (2020)
    Human decisions about when to act originate within a basal forebrain-nigral circuit

  24. Autio JA, Glasser MF, Ose T, Donahue CJ, Bastiani M, Ohno M, Kawabata Y, Urushibata Y, Murata K, Nishigori K, Yamaguchi M, Hori Y, Yoshida A, Go Y, Coalson TS, Jbabdi S, Sotiropoulos SN, Smith S, Van Essen DC, Hayashi T (2020)
    Towards HCP-Style Macaque Connectomes: 24-Channel 3T Multi-Array Coil, MRI Sequences and Preprocessing
    Neuroimage (preprint on Biorxiv)

  25. Becker R, Vidaurre D, Quinn AJ, Abeysuriya R, Parker Jones O, Jbabdi S, Woolrich W (2020)
    Transient spectral events in resting state MEG predict individual time-frequency task responses
    Neuroimage (preprint on Biorxiv)

  26. Eichert N, Robinson EC, Bryant KL, Jbabdi S, Jenkinson M, Li L, Krug K, Watkins KE, Mars RB (2020)
    Cross-species cortical alignment identifies different types of neuroanatomical reorganization in higher primates
    eLife (preprint on Biorxiv)

  27. Kleinnijenhuis M, Johnson E, Mollink J, Jbabdi S, Miller KL (2020)
    A semi-automated approach to dense segmentation of 3D white matter electron microscopy

  28. Tendler BC, Foxley S, Cottaar M, Jbabdi S*, Miller KL* (2019)
    Modelling an equivalent b-value in diffusion-weighted steady-state free precession
    Magnetic Resonance in Medicine (preprint on Arxiv)

  29. Haber SN, Tang W, Choi EY, Yendiki A, Liu H, Jbabdi S, Versace A, Phillips M (2019)
    Circuits, Networks, and Neuropsychiatric Disease: Transitioning From Anatomy to Imaging
    Biological Psychiatry

  30. Tang W, Jbabdi S, Zhu Z, Cottaar M, Grisot G, Lehman JF, Yendiki A, Haber SN (2019)
    A connectional hub in the rostral anterior cingulate cortex links areas of emotion and cognitive control
    eLife - preprint on Biorxiv

  31. Mollink J, Smith SM, Elliott LT, Kleinnijenhuis M, Hiemstra M, Alfaro-Almagro F, Marchini J, van Cappellen van Walsum A, Jbabdi1 *, Miller KL* (2019)
    The spatial correspondence and genetic influence of inter-hemispheric connectivity with white matter microstructure
    Nature Neuroscience - preprint on Biorxiv

  32. Smith SM, Duff E, Groves A, Nichols T, Jbabdi S, Westlye LT, Tamnes C, Engvig A, Walhovd K, Fjell AM, Johansen-Berg H, Douaud G (2019)
    Structural variability in the human brain reflects fine-grained functional architecture at the population level
    Journal of Neuroscience

  33. Howard AFD, Mollink J, Kleinnijenhuis M, Pallebage Gamarallage M, Bastiani M, Cottaar M, Miller KL*, Jbabdi S* (2019)
    Joint modelling of diffusion MRI and microscopy
    Neuroimage - preprint on Biorxiv

  34. Mars RB, O'Muircheartaigh J, Folloni D, Li L, Glasser MF, Jbabdi S, Bryant KL (2018)
    Concurrent analysis of white matter bundles and grey matter networks in the chimpanzee
    Brain Structure and Function

  35. Bastiani M, Cottaar M, Fitzgibbon SF, Suri S, Alfaro-Almagro F, Sotiropoulos SN, Jbabdi S*, Andersson JL* (2018)
    Automated quality control for within and between studies diffusion MRI data using a non-parametric framework for movement and distortion correction

  36. Harms MP, Somerville L, Ances B, Andersson J, Barch D, Bastiani M, Bookheimer S, Brown T, Buckner R, Burgess G, Coalson T, Chappell M, Dapretto M, Douaud G, Fischl B, Glasser MF, Greve D, Hodge C, Jamison K, Jbabdi S; Kandala S, Li X, Mair R, Mangia S, Marcus D, Mascali D, Moeller S, Nichols T, Robinson E, Salat D, Smith S, Sotiropoulos S, Terpstra M, Thomas K, Tisdall MD, Ugurbil K, van der Kouwe A, Woods R, Zollei L, Van Essen D, Yacoub E (2018)
    Extending the Human Connectome Project across ages: Imaging protocols for the Lifespan Development and Aging projects

  37. Mars RB, Passingham RE, Jbabdi S (2018)
    Connectivity fingerprints: From areal descriptions to abstract spaces
    Trends in Cognitive Sciences

  38. Hernandez-Fernandez M, Reguly I, Jbabdi S, Giles M, Smith SM, Sotiropoulos SN (2018)
    Using GPUs to accelerate computational diffusion MRI: From microstructure estimation to tractography and connectomes
    Neuroimage - preprint on Biorxiv

  39. Bastiani M, Andersson JL, Cordero-Grande L, Murgasova M, Hutter J, Price AN, Makropoulos A, Fitzgibbon SP, Hughes E, Rueckert D, Victor S, Rutherford M, Edwards AD, Smith SM, Tournier JD, Hajnal JV, Jbabdi S, Sotiropoulos SN (2018)
    Automated processing pipeline for neonatal diffusion MRI in the developing Human Connectome Project

  40. Schmid AB, Campbell J, Hurley S, Jbabdi S, Andersson J, Baengerter N, Bennett D, Tracey I, Frost R, Clare S (2018)
    Feasibility of Diffusion Tensor and Morphologic Imaging of Peripheral Nerves at Ultra-High Field Strength
    Investigative Radiology

  41. Eichert N, Verhagen L, Folloni D, Jbabdi S, Khrapitchev AA, Sibson NR, Mantini D, Sallet J, Mars RB (2018)
    What is special about the human arcuate fasciculus? Lateralization, projections, and expansion

  42. Cottaar M, Bastiani M, Chen C, Dikranian K, Van Essen DC; Behrens TE, Sotiropoulos SN, Jbabdi S (2018)
    A gyral coordinate system predictive of fibre orientations

  43. Pallebage-Gamarallage M, Foxley S, Menke RA. Huszar IN; Jenkinson M, Tendler BC, Wang C, Jbabdi S, Turner MR, Miller KL, Ansorge O (2018)
    Dissecting the pathobiology of altered MRI signal in amyotrophic lateral sclerosis: A post mortem whole brain sampling strategy for the integration of ultra-high-field MRI and quantitative neuropathology
    BMC Neuroscience doi: 10.1186/s12868-018-0416-1

  44. Abeysuriya RG, Hadida J, Sotiropoulos SN, Jbabdi S, Becker R, Hunt BA, Brookes MJ, Woolrich MW (2018)
    A biophysical model of dynamic balancing of excitation and inhibition in fast oscillatory large-scale networks
    PLoS Computational Biology

  45. Mars RB, Sotiropoulos SN, Passingham RE, Sallet J, Verhagen L, Khrapitchev AA, Sibson N, Jbabdi S (2018)
    Whole brain comparative anatomy using connectivity blueprints
    eLife - preprint on Biorxiv

  46. Parker Jones O, Alfaro-Almagro F, Jbabdi S (2018)
    An empirical, 21st century evaluation of phrenology
    Cortex - preprint on Biorxiv

  47. Safadi Z, Grisot G, Lehman J, Jbabdi S, Behrens TE, Heilbronner S, McLaughlin N, Mandeville J, Versace A, Phillips M, Yendiki A, Haber SN (2018)
    Functional segmentation of the anterior limb of the internal capsule: linking white matter abnormalities to specific connections
    Journal of Neuroscience

  48. Craddock RC, Bellec P, Jbabdi S (2017)
    Neuroimage special issue on brain segmentation and parcellation - Editorial.
    Neuroimage (doi: 10.1016/j.neuroimage.2017.11.063)

  49. Mars RB, Verhagen L, Jbabdi S, Eichert N, Rushworth MF (2017)
    Connectivity and the search for specializations in the language-capable brain
    Current Opinion in Behavioral Sciences

  50. Hadida J, Sotiropoulos SN, Abeysuriya RG, Woolrich MW*, Jbabdi S* (2017)
    Bayesian Optimisation of Large-Scale Biophysical Networks
    Neuroimage - preprint on Biorxiv

  51. Parker AJ*, Coullon *, Sanchez-Panchuelo R, Francis S, Clare S, Kay D, Duff E, Minini L, Jbabdi S, Schluppeck D, Bridge H (2017)
    Geospatial statistics of high field functional MRI reveal topographical clustering for binocular stereo depth in early visual cortex
    Biorxiv (doi:

  52. Akram H, Sotiropoulos SN, Jbabdi S, Georgiev D, Mahlknecht P, Hyam J, Foltynie T, Limousin P, De Vita E, Jahanshahi M, Hariz M, Ashburner J, Behrens TE, Zrinzo L (2017)
    Subthalamic deep brain stimulation sweet spots and hyperdirect cortical connectivity in Parkinson's disease

  53. Bastiani M, Cottaar M, Kranian K, Ghosh A, Zhang H, Alexander DC, Behrens TE, Jbabdi S, Sotiropoulos SN (2017)
    Improved tractography using asymmetric fibre orientation distributions

  54. Mollink J, Kleinnijenhuis M,van Cappellen AM; Sotiropoulos SN, Cottaar M, Mirfin C, Heinrich MP, Jenkinson M, Pallebage-Gamarallage M, Ansorge O, Jbabdi S*, Miller KL* (2017)
    Evaluating fibre orientation dispersion in white matter: Comparison of diffusion MRI, histology and polarized light imaging

  55. O'Muircheartaigh J, Jbabdi S (2017)
    Concurrent white matter bundles and grey matter networks using independent component analysis

  56. Alfaro-Almagro F, Jenkinson J, Bangerter NK, Andersson JL, Griffanti L, Douaud G, Sotiropoulos SN, Jbabdi S, Hernandez Fernandez M, Vallee E, Vidaurre D, Webster M, McCarthy PD, Rorden C, Daducci A, Alexander DC, Zhang H, Dragonu I, Matthews P, Miller KL, Smith SM (2017)
    Image Processing and Quality Control for the first 10,000 Brain Imaging Datasets from UK Biobank
    Neuroimage (doi: 10.1016/j.neuroimage.2017.10.034)

  57. Warnaby CE*, Sleigh J*, Hight D, Jbabdi S, Tracey I (2017)
    Identification of Slow Wave Activity Saturation during Surgical Anesthesia reveals a Signature of Neural Inertia in Humans

  58. Hutter J, Tournier JD, Price AN, Cordero-Grande L, Hughes EJ, Bastiani M, Steinweg J, Sotiropoulos S, Shaihan M, Jbabdi S, Andersson J, Edwards AD, Hajnal JV (2017)
    Time-efficient aand flexible design of optimised multi-shell HARDI diffusion
    Magnetic Resonance in Medicine

  59. Cardenas AM, Sarlls JE, Kwan JY, Bageac D, Gala ZS, Danielian LE, Ray-Chaudhury A, Wang H, Miller KL, Foxley S, Jbabdi S, Welsh RC, Floeter MK (2017)
    Pathology of callosal damage in ALS: an ex-vivo, 7T diffusion tensor MRI study
    Neuroimage Clinical

  60. Kleinnijenhuis M, Mollink J, Lam WW, Kinchesh P, Khrapitchev AA, Smart SC, Jbabdi S*, Miller KL* (2017)
    Choice of reference measurements affects quantification of long diffusion time behaviour using stimulated echoes
    Magnetic Resonance in Medicine

  61. Parker Jones O,Voets N, Adcock J, Stacey R, Jbabdi S (2016)
    Resting connectivity predicts task activation in pre-surgical populations
    Neuroimage Clinical

  62. Kolasinski J, Makin TR, Logan J, Jbabdi S, Clare S, Stagg CS, Johansen-Berg H (2016)
    Rapid remapping of human somatosensory cortex

  63. Miller KL, Alfaro-Almagro F, Bangerter NK, Thomas DL, Yacoub E, Xu J, Bartsch AJ, Jbabdi S, Sotiropoulos SN, Andersson JLR, Griffanti L, Douaud G, Okell TW, Weale P, Dragonu I, Garratt S, Hudson S, Collins R, Jenkinson M, Matthews PM, Smith SM (2016)
    Multimodal population brain imaging in the UK Biobank prospective epidemiological study
    Nature Neuroscience (doi: 10.1038/nn.4393)

  64. Kikkert S, Kolasinski J, Jbabdi S, Tracey I, Beckmann CF, Johansen-Berg H, Makin TR (2016)
    Revealing the neural fingerprints of a missing hand
    eLife (doi: 10.7554/eLife)

  65. Donahue C, Sotiropoulos SN, Jbabdi S, Hernandez-Fernandez M, Beherens TE, Dyrby T, Kennedy H, Knoblauch K, Coalson T, Glasser MF, Van Essen DC (2016)
    Using Diffusion Tractography to Predict Cortical Connection Strength and Distance: A Quantitative Comparison with Tracers in the Monkey
    Journal of Neuroscience 36(25):6758-70

  66. Tavor I, Parker Jones O, Mars RB, Smith SM, Behrens TE, Jbabdi S (2016)
    Task-free MRI Predicts Individual Differences in Brain Activity During Task Performance
    Science 352(6282):216-20

  67. Sotiropoulos SN, Hernandez-Fernandez M, Vu AT, Andersson JL, Moeller S, Yacoub E, Lenglet C, Ugurbil K, Behrens TE*, Jbabdi* (2016)
    Fusion in Diffusion MRI for Improved Fibre Orientation Estimation: An application to the 3T and 7T data of the Human Connectome Project
    Neuroimage 134:396-409

  68. Barron HC, Vogels TP, Emir UE, Makin TR, O'Shea J, Clare S, Jbabdi S, Dolan RJ, Behrens TE (2016)
    Unmasking latent inhibitory connections in human cortex to reveal dormant cortical memories
    Neuron S0896-6273(16)00168-9

  69. Kolasinski J, Makin T, Jbabdi S, Clare S, Stagg C, Johansen-Berg H (2015)
    Investigating the stability of fine-grain digit somatotopy in individual human participants
    Journal of Neuroscience 36(4):1113-27

  70. Warnaby CE, Seretny M, Ni Mhuircheartaigh R, Rogers R, Jbabdi S, Sleigh J, Tracey I (2015)
    Anaesthesia-induced suppression of human dorsal anterior insula responsivity at loss of volitional behavioral response
    Anesthesiology 124(4):766-78

  71. Mars RB, Foxley S, Jbabdi S, Sallet J, Noonan MP, Neubert FX, Andersson JL, Verhagen L, Croxson PL, Dunbar RIM, Khrapitchev AA, Sibson N, Miller KL, & Rushworth MFS (2015)
    The extreme capsule fiber complex in humans and macaques: A comparative diffusion MRI tractography study
    Brain Structure and Function (Epub)

  72. Jbabdi S, Sotiropoulos SN, Haber SN, Van Essen DC, Behrens TE (2015)
    Measuring macroscopic brain connections in vivo
    Nature Neuroscience 18(11):1546-55

  73. Mollink J, van Baarsen KM, Dederen PJWC, Foxley S, Miller KL, Jbabdi S, Slump CH, Grotenhuis JA, Kleinnijenhuis M, van Cappellen van Walsum AM (2015)
    Dentatorubrothalamic tract localization with post mortem MR Diffusion Tractography compared to histological 3D reconstruction
    Brain Structure and Function (Epub)

  74. van Baarsen K, Kleinnijenhuis M, Jbabdi S, Sotiropoulos SN, Grotenhuis A, van Cappellen van Walsum A (2015)
    A probabilistic atlas of the cerebellar white matter
    Neuroimage 124(Pt A):724-32

  75. Boccard SG, Fernandes H, Jbabdi S, Hartvelt TJ, Kringelbach ML, Quaghebeur G, Moir L, Mancebo VP, Pereira EA, Fitzgerald JJ, Green AL, Stein J, Aziz TZ (2015)
    A tractography study of Deep Brain Stimulation of the Anterior Cingulate Cortex in chronic pain: a key to improve the targeting
    World Neurosurgery 86:361-370

  76. Vu AT, Auerbach E, Lenglet C, Moeller S, Sotiropoulos SN, Jbabdi S, Anderson J, Yacoub E, Ugurbil K (2015)
    High resolution whole brain diffusion imaging at 7T for the Human Connectome Project
    Neuroimage 15;122:318-31

  77. Berns GS, Cook PF, Foxley S, Jbabdi S, Miller KL, Marino L (2015)
    Diffusion tensor imaging of dolphin brains reveals direct auditory pathway to temporal lobe.
    Proc Royal Society B 282(1811)

  78. Ezra M, Faull OK, Jbabdi S, Pattinson KTS (2015)
    Connectivity based segmentation of the periaqueductal gray matter in human with brainstem optimised diffusion MRI
    Human Brain Mapping 36(9):3459-71

  79. Voets NL, Menke RAL, Jbabdi S, Husain M, Stacey R, Carpenter K, Adcock JE (2015)
    Thalamo-cortical disruption contributes to short-term memory deficits in patients with medial temporal lobe damage
    Cerebral Cortex 25(11):4584-95

  80. Kochunov P, Jahanshad N, Marcus D, Winkler A, Sprooten E, Nichols TE, Wright SN, Hong LE, Patel B, Behrens T, Jbabdi S, Andersson J, Lenglet C, Yacoub E, Moeller S, Auerbach E, Ugurbil K, Sotiropoulos SN, Brouwer RM, Landman B, Lemaitre H, den Braber A, Zwiers MP, Ritchie S, van Hulzen K, Almasy L, Curran J, deZubicaray GI, Duggirala R, Fox P, Martin NG, McMahon KL, Mitchell B, Olvera RL, Peterson C, Starr J, Sussmann J, Wardlaw J, Wright M, Boomsma DI, Kahn R, de Geus EJ, Williamson DE, Hariri A, van 't Ent D, Bastin ME, McIntosh A, Deary IJ, Hulshoff Pol HE, Blangero J, Thompson PM, Glahn DC, Van Essen DC.(2015)
    Heritability of fractional anisotropy in human white matter: A comparison of Human Connectome Project and ENIGMA-DTI data
    Neuroimage 111:300-11

  81. Foxley S, Jbabdi S, Clare S, Lam WW, Ansorge O, Douaud G, Miller KL (2014)
    Improving diffusion-weighted imaging of post-mortem human brains: SSFP at 7T
    Neuroimage 102 Pt 2:579-89

  82. Wiech K, Jbabdi S, Lin CS, Andersson JL, Tracey I (2014)
    Differential structural and resting state connectivity between insular subbdivisions and other pain-related brain regions
    Pain 155(10):2047-55

  83. Lam WW, Jbabdi S*, Miller KL* (2014)
    A Model for Extra-axonal Diffusion Spectra with Frequency-Dependent Restriction
    Magnetic Resonance in Medicine doi: 10.1002/mrm.25363

  84. Robinson EC, Jbabdi S*, Glasser MF*; Andersson J, Burgess GC, Harms MP, Smith SM, Van Essen DC, Jenkinson M (2014)
    MSM: a new flexible framework for Multimodal Surface Matching
    Neuroimage 100:414-26

  85. Sampaio-Baptista C, Khrapitchev A, Foxley S, Schlagheck T, Scholz J, Jbabdi S, De Luca G, Miller KLM, Taylor A, Thomas N, Kleim J, Sibson N, Bannerman DM, Johansen-Berg H (2013)
    Motor skill learning induces changes in white matter microstructure and myelination
    Journal of Neuroscience 33(50):19499-503

  86. Fogel SM, Albouy GA, Vien C, Popovicci R, King BR, Hoge R, Jbabdi S, Benali H, Karni A, Maquet P, Carrier J, Doyon J (2013)
    FMRI and sleep correlates of the age-related impairment in motor memory consolidation
    Human Brain Mapping 35(8):3625-45

  87. Mhuircheartaigh RN*, Warnaby C*, Rogers R, Jbabdi S, Tracey I (2013)
    Slow Wave Activity Saturation And Thalamocortical Isolation During Propofol Anaesthesia In Humans
    Science Transl Med 208ra148

  88. Jbabdi S & Behrens TE (2013)
    Long-range connectomics
    Ann N Y Acad Sci 1305(1):83-93

  89. O'Reilly JX, Jbabdi S, Rushworth MF, Behrens TE (2013)
    Brain Systems for Probabilistic and Dynamic Prediction: Computational Specificity and Integration
    PLoS Biology 11(9):e1001662

  90. O'Reilly JX*, Croxson PL*, Jbabdi S, Sallet J, Noonan MP, Mars RB, Browning PG, Wilson CR, Mitchell AS, Miller KL, Rushworth MFS, Baxter MG (2013)
    Causal effect of disconnection lesions on interhemispheric functional connectivity in rhesus monkeys
    PNAS 110(34):13982-7

  91. Sallet J, Mars RB, Noonan MP, Jbabdi S, O'Reilly JX, Filippini N, Smith SM, Johansen-Berg H, Rushworth MF (2013)
    The organization of dorsal frontal cortex in humans and macaques
    Journal of Neuroscience 33(30):12255-74

  92. Craddock RC, Jbabdi S*, Yan CG*, Vogelstein J, Castellanos FX, Di Martino A, Kelly C, Heberlein K, Colcombe S, Milham MP (2013)
    Imaging connectomes at the macroscale
    Nature Methods 10(6):524-39

  93. Ugurbil K, Xu J, Auerbach EJ, Moeller S, Vu A, Duarte-Carvajalino JM, Lenglet C, Wu X, Schmitter S, Van de Moortele P, Strupp J, Sapiro G, De Martino F, Wang D, Harel N, Garwood M, Chen L, Feinberg DA, Smith SM, Miller KL, Sotiropoulos SN, Jbabdi S, Andersson JL, Behrens TE, Glasser MF, Van Essen D, Yacoub E - for the WU-Minn HCP Consortium (2013)
    Pushing spatial and temporal resolution for functional and diffusion MRI in the Human Connectome Project
    Neuroimage S1053-8119(13)00506

  94. Sotiropoulos SN, Jbabdi S, Xu J, Andersson JL, Moeller S, Auerbach EJ, Glasser MF, Sapiro G, Jenkinson M, Feinberg D, Yacoub E, Lenglet C, Van Essen D, Ugurbil K and Behrens TE - for the WU-Minn HCP Consortium (2013)
    Advances in diffusion MRI acquisition and processing in the Human Connectome Project
    Neuroimage S1053-8119(13)00551

  95. Glasser MF, Sotiropoulos SN, Wilson JA, Coalson TS, Fischl B, Andersson JL, Xu J, Jbabdi S, Webster M, Polimeni JR, Van Essen DC, Jenkinson M - for the WU-Minn HCP Consortium (2013)
    The Minimal Preprocessing Pipelines for the Human Connectome Project
    Neuroimage S1053-8119(13)00505

  96. Bartsch AJ, Geletneky K, Jbabdi S (2013)
    The Temporo-parietal Fiber Intersection Area (TPFIA) and Wernicke's Perpendicular Fasciculus (WpF)
    Neurosurgery 73(2):E381-2

  97. Hernàndez M, Guerrero GD, Cecilia JM, García JM, Inuggi A, Jbabdi S, Behrens TE, Sotiropoulos SN (2013)
    Accelerating Fibre Orientation Estimation from Diffusion Weighted Magnetic Resonance Imaging using GPUs
    PLoS ONE 8(4):e61892

  98. Blumensath T, Jbabdi S, Glasser MF, Van Essen DC, Ugurbil K, Behrens TE, Smith SM (2013)
    Spatially constrained hierarchical parcellation of the brain with resting-state FMRI
    Neuroimage 76:313-24

  99. Menke RA, Szewczyk-Krolikowski K, Jbabdi S, Jenkinson M, Mackay CE, Hu M (2013)
    Comprehensive Morphometry of Sub-cortical Grey Matter Structures in Early-stage Parkinson's Disease
    Human Brain Mapping doi: 10.1002/hbm.22282

  100. Jbabdi S, Lehman JF, Haber SN*, Behrens TE* (2013)
    Human and monkey ventral prefrontal fibers use the same organizational principles to reach their targets: tracing versus tractography
    Journal of Neuroscience 33(7):3190-201

  101. Tziortzi AC, Haber SN, Searle G, Tsoumpas C, Long C, Shotbolt P, Douaud G, Jbabdi S, Behrens TE, Rabiner EA, Jenkinson M, Gunn RN (2013)
    Connectivity-based functional analysis of dopamine release in the striatum using DWI-MRI and Positron Emission Tomography
    Cereb Cortex (Epub)

  102. Sotiropoulos SN, Moeller S, Jbabdi S, Xu J, Andersson JL, Auerbach EJ, Yacoub E, Feinberg D, Setsompop K, Wald LL, Behrens TE, Ugurbil K, Lenglet C (2013)
    Effects of Image Reconstruction on Fibre Orientation Mapping from Multi-channel Diffusion MRI: Reducing the Noise Floor Using SENSE
    Magnetic Resonance in Medicine [doi: 10.1002/mrm.24623]

  103. Jbabdi S, Sotiropoulos SN, Behrens TE (2013)
    The topographic Connectome
    Curr Opin Neurobiol 23(2)207-215

  104. Sotiropoulos SN, Jbabdi S, Andersson JL, Woolrich MW, Ugurbil K, Behrens TE (2013)
    RubiX: Combining Spatial Resolutions for Bayesian Inference of Crossing Fibres in Diffusion MRI
    IEEE TMI 32(6):969-82

  105. Homola GA, Jbabdi S, Beckmann CF, Bartsch AJ (2012)
    A Brain Network Processing the Age of Faces
    PLoS ONE 7(11): e49451

  106. Jbabdi S and Behrens TE (2012)
    Specialization: The connections have it
    Nature Neuroscience 15(2)171:172 [News and Views]

  107. Jbabdi S, Sotiropoulos SN, Savio AM, Graña M, Behrens TE (2012)
    Model-based analysis of multi-shell diffusion MR data for tractography: How to get over fitting problems
    Magnetic Resonance in Medicine 68(6):1846-55

  108. Sotiropoulos S, Behrens TE, Jbabdi S (2012)
    Ball and Rackets: Inferring Fibre Fanning from Diffusion-weighted MRI
    Neuroimage 60(2)1412:1425

  109. O'Reilly JX, Jbabdi S, Behrens TE (2012)
    How can a Bayesian approach inform neuroscience?
    European Journal of Neuroscience 35 1169:1179

  110. Tomassini V, Johansen-Berg H, Jbabdi S, Wise RG, Pozzilli C, Palace J, Matthews PM (2012)
    Relating brain damage to brain plasticity in patients with multiple sclerosis
    Neurorehabil Neural Repair 26(6):581-93

  111. Rilling J, Glasser MF, Jbabdi S, Andersson J, Preuss TM (2012)
    Continuity, divergence and the evolution of brain language pathways
    Frontiers in Evolutionary Neuroscience 3(11)1:6

  112. Sallet J, Mars RB, Noonan MP, Andersson J, O'Reilly JX, Jbabdi S, Croxson PL, Miller KL, Jenkinson M, & Rushworth MFS (2011)
    Social network size affects neural circuits in macaques
    Science 334(6056):697-700

  113. Yendiki A, Panneck P, Srinivasan P, Stevens A, Zöllei L, Augustinack J, Wangrscript R, Salat D, Ehrlich S, Behrens T, Jbabdi S, Gollub R, Fischl B (2011)
    Automated probabilistic reconstruction of white-matter pathways in health and disease using an atlas of the underlying anatomy
    Frontiers in Neuroinformatics 2011;5:23

  114. Miller KL, McNab JA, Jbabdi S, Douaud G (2011)
    Diffusion tractography of post-mortem human brains: Optimization and comparison of spin echo and steady-state free precession techniques
    Neuroimage 59(3)2284:97

  115. Mars RB, Sallet J, Schüffelgen U, Jbabdi S, Toni I, Rushworth MF (2011)
    Connectivity-based subdivisions of the human right 'temporoparietal junction area' (TPJ): Evidence for different areas participating in different cortical networks
    Cerebral Cortex 22(8):1894-903

  116. Jbabdi S and Johansen-Berg H (2011)
    Tractography: Where do we go from here?
    Brain Connectivity 1(3)169:183.

  117. Cerliani L, Thomas RM, Jbabdi S, Siero JC, Nanetti L, Crippa A, Gazzola V, D'Arceuil H, Keysers C (2011)
    Probabilistic tractography recovers a rostrocaudal trajectory of connectivity variability in the human insular cortex.
    Hum Brain Mapp [doi: 10.1002/hbm.21338]

  118. Bosnell RA, Kincses T, Stagg CJ, Tomassini V, Kischka U, Jbabdi S, Woolrich MW, Andersson J, Matthews PM, Johansen-Berg H (2011)
    Motor Practice Promotes Increased Activity in Brain Regions Structurally Disconnected After Subcortical Stroke
    Neurorehabil Neural Repair 25(7):607-16.

  119. Miller KL, Stagg CJ, Douaud G, Jbabdi S, Smith SM, Behrens TE, Jenkinson M, Chance SA, Esiri MM, Voets NL, Jenkinson N, Aziz TZ, Turner M, Johansen-Berg H, McNab JA (2011)
    Diffusion imaging of whole, post-mortem human brains on a clinical MRI scanner
    Neuroimage 57(1):167-81.

  120. Mars RB, Jbabdi S, Sallet J, O'Reilly JX, Croxson P, Olivier E, Noonan M, Bergmann C, Mitchell A, Baxter M, Behrens TE, Johannsen-Berg H, Tomassini V, Miller K and Rushworth M (2011)
    Diffusion-weighted imaging tractography-based parcellation of the human parietal cortex and comparison with human and macaque resting state functional connectivity
    Journal of Neuroscience 31(11):4087-100.

  121. Douaud G, Jbabdi S, Behrens TE, Menke R, Gass A, Monsch A, Rao A, Whitcher B, Kindlmann G, Matthews PM, Smith SM (2011)
    DTI measures in crossing-fibre areas: Increased diffusion anisotropy reveals early white matter alteration in MCI and mild Alzheimer's disease
    Neuroimage 55(3):880-90.

  122. Crofts JJ, Higham DJ, Bosnell R, Jbabdi S, Matthews PM, Behrens TE, Johansen-Berg H (2011)
    Network analysis detects changes in the contralesional hemisphere following stroke
    Neuroimage 1;54(1):161-9.

  123. Tomassini V, Johansen-Berg H, Leonardi L, Paixão L, Jbabdi S, Palace J, Pozzilli C, Matthews PM (2010)
    Preservation of motor skill learning in patients with multiple sclerosis
    Mult Scler 17(1):103-15.

  124. Menke RA, Jbabdi S, Miller KL, Matthews PM, Zarei M (2010)
    Connectivity-based segmentation of the substantia nigra in human and its implications in Parkinson's disease
    Neuroimage 52(4):1175-80.

  125. Mhuircheartaigh RN, Rosenorn-Lanng D, Wise R, Jbabdi S, Rogers R, Tracey I (2010)
    Cortical and subcortical connectivity changes during decreasing levels of consciousness in humans: an FMRI study using propofol
    Journal of Neuroscience 30(27):9095-102.

  126. Eickhoff SB, Jbabdi S, Caspers S, Laird AR, Fox PT, Zilles K, Behrens TE (2010)
    Anatomical and Functional Connectivity of Cytoarchitectonic Areas within the Human Parietal Operculum
    Journal of Neuroscience 30(18):6409-6421.

  127. Tomassini V, Jbabdi S, Kincses ZT, Bosnell R, Douaud G, Pozzilli C, Matthews PM, Johansen-Berg H (2010)
    Structural and functional bases for individual differences in motor learning
    Hum Brain Mapp 32(3):494-508.

  128. Jbabdi S, Behrens TE, Smith SM (2010)
    Crossing fibres in tract-based spatial statistics
    Neuroimage 49(1):249-56.

  129. Nagy Z, Ashburner J, Andersson J, Jbabdi S, Draganski B, Skare S, Böhm B, Smedler AC, Forssberg H, Lagercrantz H. (2009)
    Structural correlates of preterm birth in the adolescent brain
    Pediatrics 124(5):e964-72.

  130. Menke RA, Scholz J, Miller KL, Deoni S, Jbabdi S, Matthews PM, Zarei M. (2009)
    MRI Characteristics of the Substantia Nigra in Parkinson's Disease: A Combined Quantitative T1 and DTI Study
    Neuroimage 15;47(2):435-41

  131. Douaud G, Behrens TE, Poupon C, Cointepas Y, Jbabdi S, Gaura V, Golestani N, Krystkowiak P, Verny C, Damier P, Bachoud-Lévi AC, Hantraye P, Remy P. (2009)
    In vivo evidence for the selective subcortical degeneration in Huntington's disease
    Neuroimage 15;46(4):958-66

  132. McNab JA, Jbabdi S, Deoni SC, Douaud G, Behrens TE, Miller KL. (2009)
    High Resolution Tractography in Fixed Human Brain Using Diffusion-Weighted Steady State Free Precession
    Neuroimage 46(3):775-85

  133. Woolrich MW, Jbabdi S, Patenaude B, Chappell M, Makni S, Behrens T, Beckmann C, Jenkinson M, Smith SM. (2009)
    Bayesian Analysis of Neuroimaging data in FSL
    Neuroimage 45(1 Suppl):S173-86

  134. Pattinson KT, Mitsis GD, Harvey AK, Jbabdi S, Dirckx S, Mayhew SD, Rogers R, Tracey I, Wise RG. (2009)
    Determination of the human brainstem respiratory control network and its cortical connections in vivo using functional and structural imaging
    Neuroimage 44:295-305

  135. Jbabdi S, Woolrich MW, Behrens TE (2009)
    Multiple-subjects connectivity-based parcellation using hierarchical Dirichlet process mixture models
    Neuroimage 44:373-384

  136. Bridge H, Thomas O, Jbabdi S, Cowey A (2008)
    Changes in connectivity after visual cortical brain damage underlie altered visual function
    Brain 131:1433-1444

  137. Jbabdi S, Bellec P, Toro R, Daunizeau J, Pélégrini-Issac M, Benali H. (2008)
    Accurate anisotropic fast marching for diffusion-based geodesic tractography
    International Journal of Biomedical Imaging 2008:320195

  138. Mitsis GD, Jbabdi S (2008)
    Bayesian model order selection for nonlinear system function expansions
    Conf Proc IEEE Eng Med Biol Soc. 2008;2008:2165-8

  139. Tomassini V, Jbabdi S, Klein JC, Behrens TE, Pozzilli C, Matthews PM, Rushworth MF, Johansen-Berg H. (2007)
    DWI tractography-based parcellation of the human lateral premotor cortex identifies dorsal and ventral sub-regions with anatomical and functional specializations
    Journal of Neuroscience 27:10259-10269

  140. Jbabdi S, Woolrich MW, Andersson JL, Behrens TE (2007)
    A Bayesian framework for global tractography
    Neuroimage 37:116-129

  141. Chesneau S, Jbabdi S, Champagne-Lavau M, Giroux F, Ska B. (2007)
    Comprehension de texte, ressources cognitives et viellissement
    Revue de Psychologie et Neuropsychiatrie 5:47-64

  142. Daunizeau J, Grova C, Marrelec G, Mattout J, Jbabdi S, Pélégrini-Issac M, Lina JM, Benali H. (2007)
    Symmetrical event-related EEG/fMRI information fusion in a variational Bayesian framework
    Neuroimage 36:69-87

  143. Behrens TE, Johansen-Berg H, Jbabdi S, Rushworth MF, Woolrich MW. (2007)
    Probabilistic diffusion tractography with multiple fibre orientations: What can we gain?
    Neuroimage 34:144-55

  144. Mandonnet E, Jbabdi S, Taillandier L, Galanaud D, Benali H, Capelle L, Duffau H. (2007)
    Preoperative estimation of residual volume for WHO grade II glioma operated with intraoperative functional mapping
    NeuroOncology 9:63-69

  145. Bellec P, Perlbarg V, Jbabdi S, Pélégrini-Issac M, Anton JL, Doyon J, Benali H. (2006)
    Identification of large-scale networks in the brain using fMRI
    Neuroimage 29:1231-1243

  146. Jbabdi S, Mandonnet E, Duffau H, Capelle L, Swanson KR, Pélégrini-Issac M, Guillevin R, Benali H. (2005)
    Simulation of anisotropic growth of low-grade gliomas using diffusion tensor imaging
    Magnetic Resonance in Medicine 54:616-624

Books and chapters

  1. Smith SM, Kindlmann G, Jbabdi S.
    Tract-Based Spatial Statistics and Other Approaches for Cross-Subject Comparison of Local Diffusion MRI Parameters.
    Brain Mapping: An encyclopaedic reference, Elsevier, 2015.

  2. Jbabdi S.
    Imaging Structure and Function.
    In H. Johansen-Berg and T. Behrens (Eds.), Imaging brain pathways - Diffusion MRI: from quantitative measurement to in-vivo neuroanatomy. 2nd edition, Elsevier, 2013.

  3. Smith SM, Kindlmann G, Jbabdi S.
    Cross-Subject Comparison of Local Diffusion MRI Parameters
    In H. Johansen-Berg and T. Behrens (Eds.), Imaging brain pathways - Diffusion MRI: from quantitative measurement to in-vivo neuroanatomy. 2nd edition, Elsevier, 2013.

  4. Behrens TE, Sotiropoulos SN, Jbabdi S.
    MR Diffusion tractography.
    In H. Johansen-Berg and T. Behrens (Eds.), Imaging brain pathways - Diffusion MRI: from quantitative measurement to in-vivo neuroanatomy. 2nd edition, Elsevier, 2013.

  5. Van Essen DC, Jbabdi S, Sotiropoulos SN, Chen C, Dikranian K, Coalson T, Harwell J, Behrens TE, Glasser MF
    Mapping Connections in Humans and Nonhuman Primates: Aspirations and Challenges for Diffusion Imaging.
    In H. Johansen-Berg and T. Behrens (Eds.), Imaging brain pathways - Diffusion MRI: from quantitative measurement to in-vivo neuroanatomy. 2nd edition, Elsevier, 2013.

  6. Jbabdi S,
    Imaging Structure and Function.
    In H. Johansen-Berg and T. Behrens (Eds.), Imaging brain pathways - Diffusion MRI: from quantitative measurement to in-vivo neuroanatomy. Elsevier, 2009.

  7. Behrens TE and Jbabdi S,
    MR Diffusion tractography.
    In H. Johansen-Berg and T. Behrens (Eds.), Imaging brain pathways - Diffusion MRI: from quantitative measurement to in-vivo neuroanatomy. Elsevier, 2009.

  8. Johansen-Berg H, Behrens TE, Jbabdi S, Watkins KE,
    Integration of Measures of Functional and Structural MRI.
    In M. Filippi (Ed.), fMRI Techniques and Protocols. Series: Neuromethods, Vol. 41, 2009.

  9. Behrens TE, Klein J, Jbabdi S, and Johansen Berg H,
    Connectivity-based parcellation of grey matter.
    In D.K. Jones (Ed), Diffusion MRI. Theory, Methods and Applications. Oxford Universty Press, 2010.

  10. Jbabdi S (2006),
    Modeling cerebral connectivity and propagation of low grade gliomas using diffusion MR imaging.
    PhD Thesis submitted to Ecole Centrale Paris (in French). [PDF]