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Updated June 25th 2017


Schaefer AL, Kong R, Gordon EM, Laumann TO, Zuo XN, Holmes AJ, Eickhoff SB, Yeo BTT. (In Press). Cerebral cortex parcellation by fusing local gradient and global clustering of resting-state functional connectivity MRI. Cerebral Cortex.

Ge T, Holmes AJ, Buckner RL, Smoller JW, Sabuncu MR. (2017). Heritability analysis with repeat measurements and its application to resting-state functional connectivity. Proceedings of the National Academy of Sciences USA, 114(21), 5521-5526. [pdf link]

Dal Monte O, Piva M, Anderson KA, Marios T, Holmes AJ, Chang SWC. (2017). Boosting the social effects of oxytocin with opioid antagonism. Proceedings of the National Academy of Sciences USA, 114(20), 5247-5252. [pdf]

Hibar DP, Adams HH, Jahanshad N, Chauhan G, Stein JL, Hofer E, et al. (2017). Novel genetic loci associated with hippocampal volume. Nature Communications, 8, 13264. [pdf]


Germine L, Robinson EB, Smoller JW, Calkins ME, Moore TM, Hakonarson H, et al. (2016). Association between polygenic risk for schizophrenia, neurocognition, and social cognition across development. Translational Psychiatry, 6, e924. [pdf]

Adams HH, Hibar DP, Chouraki V, Stein J, Nyquist P, Renteria E, et al. (2016). Novel genetic loci underlying human intracranial volume identified through genome-wide association. Nature Neuroscience, 19, 1569–1582. [pdf]

Lee PH, Baker J, Holmes AJ, Jahanshad N, Ge T, Jung J-Y, et al. (2016). Partitioning heritability analysis reveals a shared genetic basis of brain anatomy and schizophrenia. Molecular Psychiatry, 21, 1680-1689. [pdf]

Ge T, Reuter M, Winkler AM, Holmes AJ, Lee PH, Tirrell L, Roffman JL, Buckner RB, Smoller JW, Sabuncu MR. (2016). Multidimensional heritability analysis of neuroanatomical shape. Nature Communications, 7, 13291. [pdf]

Sabuncu M, Ge T, Holmes AJ, Smoller JW, Buckner RL, Fischl B. (2016). Morphometricity as a measure of the neuroanatomical signature of a trait. Proceedings of the National Academy of Sciences, 113(39), E5749-E5756. [pdf]

Mormino B, Sperling RA, Holmes AJ, Buckner RL, De Jager PL, Smoller JW, Sabuncu MR, for the ADNI Initiative. (2016). Polygenic risk of Alzheimer’s disease dementia is associated with early and late life processes within clinically normal individuals. Neurology, 87(5), 481-488. [pdf]

Holmes AJ, Hollinshead MO, Roffman JL, Smoller JW, Buckner RL. (2016). Individual differences in cognitive control circuit anatomy link sensation seeking, impulsivity, and substance use. Journal of Neuroscience, 36(14), 4038-4049. [pdf]

Chekroud AM, Ward EJ, Rosenberg MD, Holmes AJ. (2016). Patterns in the human brain mosaic discriminate males from females. Proceedings of the National Academy of Sciences, 113(14), E1968. [pdf] [letter in response to this paper]

Franke B, Stein J, Ripke S, Anttilla V, Hibar DP, Kimm JE, et al. (2016). Genetic influences on schizophrenia and subcortical brain volumes: large-scale proof of concept. Nature Neuroscience, 19(3), 420-431. [pdf]

Oscar-Berman M, Urban TA, Holmes AJ. (2016). Effects of Alcoholism on Neurological Function and Disease in Adulthood. The Oxford Handbook of Substance Use Disorders, Volume 2. Medicine-US. [link]


Wang D, Buckner RL, Fox MD, Holt DJ, Holmes AJ, Mueller S, Langs G, Pan R, Qian T, Baker J, Stufflebeam SM, Wang K, Wang X, Hong B, Liu H. (2015). Parcellating brain functional networks in the individual. Nature Neuroscience, 18(12), 1853–1860. [pdf] [Link to Journal/Supplemental Materials]

Holmes AJ, Yeo BTT. (2015). From phenotypic chaos to neurobiological order. Nature Neuroscience, 18(11), 1532-1534. [pdf] [news & views for this paper]

Holmes AJ, Hollinshead M, O’Keefe TM, Petrov VI, Fariello GR, Wald LL, Fischl B, Rosen BR, Mair RW, Roffman JL, Smoller JW, Buckner RL. (2015). Brain Genomics Superstruct Project initial data release with structural, functional, and behavioral measures. Scientific Data, 2, 150031. [pdf] [Link to Journal/Supplemental Materials]

Hibar D, Stein JL, Renteria ME, Arias-Vasquez A, Desrivières S, Jahanshad N, et al. (2015). Common genetic variants influence human subcortical brain structures. Nature, 520, 224-229. [pdf]

Ge T, Nichols TE, Lee PH, Holmes AJ, Roffman JL, Buckner RL, Sabuncu M, Smoller JW. (2015). Massively expedited genome-wide heritability analysis (MEGHA). Proceedings of the National Academy of Sciences, 112(8), 2479–2484. [pdf]

Treadway MT, Waskom ML, Dillon DG, Holmes AJ, Park MTM, Chakravarty MM, Dutra SJ, Polli FE, Iosifescu DV, Fava M, Gabrieli JDE, Pizzagalli DA. (2015). Illness progression, recent stress, and morphometry of hippocampal subfields and medial prefrontal cortex in major depression. Biological Psychiatry, 77, 285-294. [pdf]

Admon R, Nickerson LD, Dillon DG, Holmes AJ, Bogdan R, Kumar P, et al. (2015). Dissociable cortico-striatal connectivity abnormalities in major depression in response to monetary gains and penalties. Psychological Medicine, 45, 121-131. [pdf]


Zuo XN, Anderson J, Bellec P, Birn RM, Biswal BB, Blautzik J, et al. (2014). An open science resource for establishing reliability and reproducibility in functional connectomics. Scientific Data, 1, 140049. [pdf]

Smoller JW, Gallagher PJ, Duncan LE, McGrath L, Haddad S, Holmes AJ, et al. (2014). The human ortholog of acid-sensing ion channel gene ASIC1a is associated with panic disorder and amygdala structure and function. Biological Psychiatry, 76, 902-910. [pdf]

Thomson PM, Stein JL, Medland SE, Hibar DP, Vasquez AA, Renteria M, et al. (2014) The ENIGMA Consortium: large-scale collaborative analyses of neuroimaging and genetic data. Brain Imaging and Behavior, 8 (2), 153-182. [pdf]

Pearson-Fuhrhop KM, Dunn EC, Mortero S, Devan WJ, Falcone GJ, Holmes AJ, et al. (2014). Dopamine gene score predicts depressive symptoms in healthy adults and adults with depression. PLoS ONE, 9, 5, e93772. [pdf]

Baker JT, Holmes AJ, Masters G, Yeo BT, Krienen F, Buckner RL, Öngür D. (2014). Disruption of cortical association networks in schizophrenia and psychotic bipolar disorder. JAMA Psychiatry, 71, 2, 109-118. [pdf]


Holmes AJ, Lee PH, Hollinshead M, Bakst L, Roffman JL, Smoller JW, Buckner RL. (2012). Individual differences in amygdala-medial prefrontal anatomy link negative affect, impaired social functioning, and polygenic depression risk. Journal of Neuroscience, 32, 50, 18087-18100. [pdf]

Bis JC, DeCarli C, Smith AV, van der Lijn F, Crivello F, Fornage M, et al. (2012). Common variants at 12q14 and 12q24 are associated with hippocampal volume. Nature Genetics, 44, 5, 545-551. [pdf]

Stein JL, Medland SE, Vasquez AA, Hibar DP, Senstad RE, Winkler AM, et al. (2012). Identification of common variants associated with human hippocampal and intracranial volumes. Nature Genetics, 44, 5, 552-561. [pdf]

Santesso DL, Bogdan R, Birk JL, Goetz EL, Holmes AJ, Pizzagalli DA. (2012). Neural responses to negative feedback are related to negative emotionality in healthy adults. Social Cognitive and Affective Neuroscience, 7, 7, 794-803. [pdf]


Pizzagalli DA, Dillon DG, Bogdan R, Holmes A. (2011). Reward and punishment processing in the human brain: Clues from affective neuroscience and implications for depression research. In: O. Vartanian and D. Mandel (Eds.), Neuroscience of Decision Making. New York: Psychology Press, pp. 199-220.


Holmes AJ, Pizzagalli D. (2010). Effects of task-relevant incentives on the electrophysiological correlates of error processing in major depressive disorder. Cognitive Affective and Behavioral Neuroscience, 10, 1, 119-128. [pdf]

Holmes AJ, Bogdan R, Pizzagalli D. (2010). Serotonin transporter genotype and action monitoring dysfunction: A possible substrate underlying increased vulnerability to depression. Neuropsychopharmacology, 35, 1186-1197. [pdf]

Janes AC, Pizzagalli DA, Richard S, Frederick BB, Holmes AJ, Sousa A, Fava M, Evins AE, Kaufman M. (2010). Neural substrates of attentional bias for smoking-related cues: An fMRI study. Neuropsychopharmacology, 35, 12, 2339-2345. [pdf]

Janes AC, Pizzagalli DA, Richardt S, Frederick BB, Chuzi S, Pachas G, Culhane MA, Holmes AJ, Fava M, Evins AE, Kaufman M. (2010). Brain reactivity to smoking cues prior to smoking cessation predicts ability to maintain tobacco abstinence. Biological Psychiatry, 67, 722-729. [pdf]

Petersen, T, Pava J, Buchin J, Matthews J, Nierenberg A, Holmes AJ, Bogdan R, Graves L, Harley R, Fava M. (2010). The role of cognitive-behavioral therapy and fluoxetine in prevention of recurrence of major depressive disorder. Cognitive Therapy and Research, 34, 1, 13-23. [pdf]

Dillon DG, Bogdan R, Fagerness J, Holmes AJ, Perlis RH, Pizzagalli DA. (2010). Variation in TREK1 gene linked to depression-resistant phenotype is associated with potentiated neural responses to rewards in humans. Human Brain Mapping, 31, 210-221. [pdf]


Dillon DG, Holmes AJ, Birk JL, Brooks N, Lyons-Ruth K, Pizzagalli DA. (2009). Childhood adversity is associated with left basal ganglia dysfunction during reward anticipation in adulthood. Biological Psychiatry, 66, 206-213. [pdf]

Pizzagalli DA, Holmes AJ, Dillon DG, Goetz EL, Birk JL, Bogdan R, Dougherty DD, Iosifescu DV, Rauch SL, Fava M. (2009). Reduced caudate and nucleus accumbens response to rewards in unmedicated subjects with major depressive disorder. American Journal of Psychiatry, 166, 702-710. [pdf]


Holmes AJ, Pizzagalli DA. (2008). Response conflict and frontocingulate dysfunction in unmedicated participants with major depression. Neuropsychologia, 46, 2904-2913. [pdf]

Chiu P, Holmes AJ, Pizzagalli DA. (2008) Neural dynamics of affective response inhibition: Dissociable recruitment of rostral anterior cingulate and inferior frontal cortex. NeuroImage, 42, 988-997. [pdf]

Holmes AJ, Pizzagalli DA. (2008). Spatiotemporal dynamics of action monitoring dysfunctions in major depressive disorder. Archives of General Psychiatry, 65, 2, 179-188. [pdf]

Meites TM, Deveney CM, Steele KT, Holmes AJ, Pizzagalli DA. (2008). Implicit depression and hopelessness in remitted depressed individuals. Behaviour Research and Therapy, 46, 1078-1084. [pdf]

Dillon DG, Holmes AJ, Jahn AL, Bogdan R, Wald L, Pizzagalli DA. (2008). Dissociation of neural regions associated with anticipatory versus consummatory phases of incentive processing. Psychophysiology, 45, 36-49. [pdf]

Santesso DL, Dillon DG, Birk JL, Holmes AJ, Goetz E, Bogdan R, Pizzagalli DA. (2008). Individual differences in reinforcement learning: Behavioral, electrophysiological, and neuroimaging correlates. NeuroImage, 42, 807-816. [pdf]

Santesso DL, Steele KT, Bogdan R, Holmes AJ, Deveney CM, Meites TM, Pizzagalli DA (2008) Enhanced negative feedback responses in remitted depression. NeuroReport, 19, 1045-1048. [pdf]


Holmes AJ, Pizzagalli DA. (2007) Task feedback effects on conflict monitoring and executive control: Relationship to subclinical measures of mood. Emotion, 7, 1, 68-76. [pdf]

Peterson T, Feldman G, Harley R, Fresco D, Graves L, Holmes A, Bogdan R, Papakostas G, Bohn L, Lury A, Fava M, Segal Z. (2007) Extreme response style in recurrent and chronically depressed patients: Change with antidepressant administration and stability during continuation treatment. Journal of Consulting and Clinical Psychology, 75, 1, 145-153. [pdf]


Holmes AJ, MacDonald AW, Carter C S, Barch D M, Stenger AV, Cohen JD. (2005). Prefrontal functioning during context processing in schizophrenia and major depression: An event-related fMRI study. Schizophrenia Research, 76, 199-206. [pdf]

MacDonald AW, Carter CS, Kerns JG, Ursu S, Barch DB, Holmes AJ, Stenger AV, Cohen JD. (2005). Specificity of prefrontal dysfunction and context processing deficits to schizophrenia in never medicated first-episode patients with first episode psychosis. American Journal of Psychiatry, 62, 475-484. [pdf]