Publications


Supplementary online material for some papers can be found here.

Selected conference abstracts can be found here (more to come).

A few favourite papers 

Bogler C, Bode S, Haynes JD. Decoding successive computational stages of saliency processing. Curr Biol. 2011 Oct 11;21(19):1667-71. Epub 2011 Sep 29. PubMed PMID: 21962709.

Chen, Y,, Namburi, P., Elliott, L.T., Heinzle, J., Soon, C.S., Chee, M.W. & Haynes, J.D. (2010). Cortical surface-based searchlight decoding. Neuroimage 56, 582-92.

Haynes, J.D., Sakai, K., Rees, G., Gilbert, S., Frith, C. & Passingham, D. (2007). Reading hidden intentions in the human brain. Current Biology 17, 323-328.

Heinzle, J., Kahnt, T. & Haynes, J.D. Topographically specific functional connectivity between visual field maps in the human brain. Neuroimage 56, 1426-36.

Kahnt, T., Grueschow, M., Speck, O. & Haynes, J.D. (2011). Perceptual learning and decision-making in human medial frontal cortex. Neuron 70, 549-59.

Kahnt, T., Heinzle, J., Park, S.Q. & Haynes, J.D. (2010). The neural code of reward anticipation in human orbitofrontal cortex. Proceedings of the National Academy of Sciences of the USA 107, 6010-5.

Soon CS, He AH, Bode S, Haynes JD. (2013). Predicting free choices for abstract intentions. Proc Natl Acad Sci U S A 110(15):6217-22.

Soon, C.S., Brass, M., Heinze, H.J.& Haynes, J.D. (2008). Unconscious determinants of free decisions in the human brain. Nature Neuroscience 11, 543-5.

Tusche, A., Bode, S. & Haynes, J.D. (2010). Neural responses to unattended products predict later consumer choices. Journal of Neuroscience 30, 8024-31.



Full List of Original Work in Peer-Reviewed Journals 


Schuck NW, Gaschler R, Wenke D, Heinzle J, Frensch PA, Haynes JD, Reverberi C. Medial prefrontal cortex predicts internally driven strategy shifts. Neuron. 2015 Apr 8;86(1):331-40. doi: 10.1016/j.neuron.2015.03.015. Epub 2015 Mar 26.

Reverberi C, Kuhlen A, Abutalebi J, Greulich RS, Costa A, Seyed-Allaei S, Haynes JD. Language control in bilinguals: Intention to speak vs. execution of speech. Brain Lang. 2015 Apr 8;144:1-9. doi: 10.1016/j.bandl.2015.03.004.

Guggenmos M, Thoma V, Haynes JD, Richardson-Klavehn A, Cichy RM, Sterzer P. Spatial attention enhances object coding in local and distributed representations of the lateral occipital complex. Neuroimage. 2015 Apr 10. pii: S1053-8119(15)00282-7. doi: 10.1016/j.neuroimage.2015.04.004.

Koch SP, Hägele C, Haynes JD, Heinz A, Schlagenhauf F, Sterzer P. Diagnostic classification of schizophrenia patients on the basis of regional reward-related  FMRI signal patterns. PLoS One. 2015 Mar 23;10(3):e0119089. doi: 10.1371/journal.pone.0119089.

Weygandt M, Hummel HM, Schregel K, Ritter K, Allefeld C, Dommes E, Huppke P, Haynes JD, Wuerfel J, Gärtner J. MRI-based diagnostic biomarkers for early onset  pediatric multiple sclerosis. Neuroimage Clin. 2014 Jul 11;7:400-8. doi: 10.1016/j.nicl.2014.06.015.

Hebart MN, Görgen K, Haynes JD. The Decoding Toolbox (TDT): a versatile software package for multivariate analyses of functional imaging data. Front Neuroinform. 2015 Jan 6;8:88. doi: 10.3389/fninf.2014.00088. eCollection 2014.

Weygandt M, Mai K, Dommes E, Ritter K, Leupelt V, Spranger J, Haynes JD. Impulse control in the dorsolateral prefrontal cortex counteracts post-diet weight regain in obesity. Neuroimage. 2015 Apr 1;109:318-27. doi: 10.1016/j.neuroimage.2014.12.073.

Guggenmos M, Thoma V, Cichy RM, Haynes JD, Sterzer P, Richardson-Klavehn A. Non-holistic coding of objects in lateral occipital complex with and without attention. Neuroimage. 2015 Feb 15;107:356-63. doi: 10.1016/j.neuroimage.2014.12.013.

Christophel TB, Cichy RM, Hebart MN, Haynes JD. Parietal and early visual cortices encode working memory content across mental transformations. Neuroimage. 2015 Feb 1;106:198-206. doi: 10.1016/j.neuroimage.2014.11.018.

Anders S, Heussen Y, Sprenger A, Haynes JD, Ethofer T. Social gating of sensory information during ongoing communication. Neuroimage. 2015 Jan 1;104:189-98. doi:10.1016/j.neuroimage.2014.10.007.

Guggenmos M, Rothkirch M, Obermayer K, Haynes JD, Sterzer P. A hippocampal signature of perceptual learning in object recognition. J Cogn Neurosci. 2015 Apr;27(4):787-97. doi: 10.1162/jocn_a_00735.

Ramírez FM, Cichy RM, Allefeld C, Haynes JD. The neural code for face orientation in the human fusiform face area. J Neurosci. 2014 Sep 3;34(36):12155-67. doi: 10.1523/JNEUROSCI.3156-13.2014.

Imamoglu F, Heinzle J, Imfeld A, Haynes JD. Activity in high-level brain regions reflects visibility of low-level stimuli. Neuroimage. 2014 Nov 15;102 Pt  2:688-94. doi:10.1016/j.neuroimage.2014.08.045.

Kuhlen AK, Bogler C, Swerts M, Haynes JD. Neural coding of assessing another  person's knowledge based on nonverbal cues. Soc Cogn Affect Neurosci. 2014 Aug 19.

Hebart MN, Schriever Y, Donner TH, Haynes JD. The Relationship between Perceptual Decision Variables and Confidence in the Human Brain. Cereb Cortex. 2014 Aug 11.

Wisniewski D, Reverberi C, Tusche A, Haynes JD. The Neural Representation of Voluntary Task-Set Selection in Dynamic Environments. Cereb Cortex. 2014 Jul 17.

Bogler C, Mehnert J, Steinbrink J, Haynes JD. Decoding vigilance with NIRS. PLoS One. 2014 Jul 17;9(7):e101729. doi: 10.1371/journal.pone.0101729.

Herrojo Ruiz M, Rusconi M, Brücke C, Haynes JD, Schönecker T, Kühn AA. Encoding of sequence boundaries in the subthalamic nucleus of patients with Parkinson's disease. Brain. 2014 Oct;137(Pt 10):2715-30. doi: 10.1093/brain/awu191.

Soon CS, Allefeld C, Bogler C, Heinzle J, Haynes JD. Predictive brain signals best predict upcoming and not previous choices. Front Psychol. 2014 May 8;5:406.  doi: 10.3389/fpsyg.2014.00406.

Accolla EA, Dukart J, Helms G, Weiskopf N, Kherif F, Lutti A, Chowdhury R, Hetzer S, Haynes JD, Kühn AA, Draganski B. Brain tissue properties differentiate between motor and limbic basal ganglia circuits. Hum Brain Mapp. 2014 Oct;35(10):5083-92. doi: 10.1002/hbm.22533.

Soon CS, He AH, Bode S, Haynes JD. (2013). Predicting free choices for abstract intentions. Proc Natl Acad Sci U S A 110(15):6217-22.

Bogler C, Bode S, Haynes JD. Orientation pop-out processing in human visual cortex. Neuroimage. 2013 May 17;81C:73-80.

Tusche A, Kahnt T, Wisniewski D, Haynes JD. Automatic processing of political preferences in the human brain. Neuroimage. 2013 May 15;72:174-82.

Reverberi C, Görgen K, Haynes JD. Distributed representations of rule identity and rule order in human frontal cortex and striatum. J Neurosci. 2012 Nov 28;32(48):17420-30.

Kuhlen AK, Allefeld C, Haynes JD. Content-specific coordination of listeners' to speakers' EEG during communication. Kuhlen AK, Allefeld C, Haynes JD. Front Hum Neurosci. 2012;6:266. doi: 10.3389/fnhum.2012.00266.

Bode S, Bogler C, Haynes JD. Similar neural mechanisms for perceptual guesses and free decisions. Neuroimage. 2013 Jan 15;65:456-65. doi: 10.1016/j.neuroimage.2012.09.064. Epub 2012 Oct 3. PubMed PMID: 23041528.

Christophel TB, Hebart MN, Haynes JD. Decoding the contents of visual short-term memory from human visual and parietal cortex. J Neurosci. 2012 Sep 19;32(38):12983-9. PubMed PMID: 22993415.

Hebart MN, Donner TH, Haynes JD. Human visual and parietal cortex encode visual choices independent of motor plans. Neuroimage. 2012 Nov 15;63(3):1393-403. doi: 10.1016/j.neuroimage.2012.08.027. Epub 2012 Aug 16. PubMed PMID: 22922368.

Weygandt M, Schaefer A, Schienle A, Haynes JD. Diagnosing different binge-eating disorders based on reward-related brain activation patterns. Hum Brain Mapp. 2012 Sep;33(9):2135-46. doi: 10.1002/hbm.21345. Epub 2011 Aug 30. PubMed PMID: 22887826.

Imamoglu F, Kahnt T, Koch C, Haynes JD. Changes in functional connectivity support conscious object recognition. Neuroimage. 2012 Dec;63(4):1909-17. doi: 10.1016/j.neuroimage.2012.07.056. Epub 2012 Aug 2. PubMed PMID: 22877578.

Heinzle J, Wenzel MA, Haynes JD. Visuomotor functional network topology predicts upcoming tasks. J Neurosci. 2012 Jul 18;32(29):9960-8. doi: 10.1523/JNEUROSCI.1604-12.2012. PubMed PMID: 22815510.

Kahnt T, Chang LJ, Park SQ, Heinzle J, Haynes JD. Connectivity-based parcellation of the human orbitofrontal cortex. J Neurosci. 2012 May 2;32(18):6240-50. doi: 10.1523/JNEUROSCI.0257-12.2012. PubMed PMID: 22553030.

Hackmack K, Paul F, Weygandt M, Allefeld C, Haynes JD. Multi-scale classification of disease using structural MRI and wavelet transform. Neuroimage. 2012 Aug 1;62(1):48-58.

Herrmann B, Maess B, Kalberlah C, Haynes JD, Friederici AD. Auditory perception and syntactic cognition: brain activity-based decoding within and across subjects. Eur J Neurosci. 2012 Apr 17. doi: 10.1111/j.1460-9568.2012.08053.x


Hackmack K, Weygandt M, Wuerfel J, Pfueller CF, Bellmann-Strobl J, Paul F, Haynes JD. Can we overcome the 'clinico-radiological paradox' in multiple sclerosis? J Neurol. 2012 Mar 24.


Momennejad I, Haynes JD. Human anterior prefrontal cortex encodes the 'what' and 'when' of future intentions. Neuroimage. 2012 Mar 6. [Epub ahead of print] PubMed PMID: 22418393.


Kotz SA, Kalberlah C, Bahlmann J, Friederici AD, Haynes JD. Predicting vocal emotion expressions from the human brain. Hum Brain Mapp. 2012 Feb 27. doi: 10.1002/hbm.22041. [Epub ahead of print] PubMed PMID: 22371367. 


Cichy RM, Sterzer P, Heinzle J, Elliott LT, Ramirez F, Haynes JD. Probing principles of large-scale object representation: Category preference and location encoding. Hum Brain Mapp. 2012 Feb 27. doi: 10.1002/hbm.22020. [Epub ahead of print] PubMed PMID: 22371355.


Weygandt M, Blecker CR, Schäfer A, Hackmack K, Haynes JD, Vaitl D, Stark R, Schienle A. fMRI pattern recognition in obsessive-compulsive disorder. Neuroimage. 2012 Apr 2;60(2):1186-93. Epub 2012 Jan 17. PubMed PMID: 22281674.


Heinzle J, Allefeld C, Haynes JD. Information flow, dynamical systems theory and the human brain: Comment on "Information flow dynamics in the brain" by M.I. Rabinovich et al. Phys Life Rev. 2012 Mar;9(1):78-9. Epub 2011 Dec 28. PubMed PMID: 22237168.


Kahnt T, Heinzle J, Park SQ, Haynes JD. Decoding the formation of reward predictions across learning. J Neurosci. 2011 Oct 12;31(41):14624-30. PubMed PMID: 21994378.


Bogler C, Bode S, Haynes JD. Decoding successive computational stages of saliency processing. Curr Biol. 2011 Oct 11;21(19):1667-71. Epub 2011 Sep 29. PubMed PMID: 21962709.


Bode S, Bogler C, Soon CS, Haynes JD. The neural encoding of guesses in the human brain. Neuroimage. 2012 Jan 16;59(2):1924-31. Epub 2011 Sep 10. PubMed PMID: 21933719.


Reverberi C, Görgen K, Haynes JD. Compositionality of Rule Representations in Human Prefrontal Cortex. Cereb Cortex. 2011 Aug 4. [Epub ahead of print] PubMed PMID: 21817092.


Bode S, He AH, Soon CS, Trampel R, Turner R, Haynes JD. Tracking the unconscious generation of free decisions using ultra-high field fMRI. PLoS One. 2011;6(6):e21612. Epub 2011 Jun 27. PubMed PMID: 21760881; PubMed Central PMCID: PMC3124546. 


Kahnt, T., Grueschow, M., Speck, O. & Haynes, J.D. (2011). Perceptual learning and decision-making in human medial frontal cortex. Neuron 70, 549-59.

 

Cichy, R.M., Heinzle, J. & Haynes, J.D. (2011). Imagery and Perception Share Cortical Representations of Content and Location. Cerebral Cortex [Epub ahead of print] PubMed PMID: 21666128.

 

Bode, S., He, A.H., Soon, C.S., Trampel, R., Turner, R. & Haynes, J.D. (2011). Tracking the Unconscious Generation of Free Decisions Using UItra-High Field fMRI. PLoS One 6, e21612.

 

Weygandt, M., Hackmack, K., Pfüller, C., Bellmann-Strobl, J., Paul, F., Zipp, F. & Haynes, J.D. (2011). MRI pattern recognition in multiple sclerosis normal-appearing brain areas. PLoS One 6, e21138.

 

Gomez, A., Rothkirch, M., Kaul, C., Weygandt, M., Haynes, J.D., Rees, G. & Sterzer, P. (2011). Emotion modulates the effects of endogenous attention on retinotopic visual processing. Neuroimage 57, 1542-51.

 

Herrmann, B., Obleser, J., Kalberlah, C., Haynes, J.D. & Friederici, A.D. (2011). Dissociable neural imprints of perception and grammar in auditory functional imaging. Human Brain Mapping. [Epub ahead of print] PubMed PMID: 21391281.

 

Heinzle, J., Kahnt, T. & Haynes, J.D. Topographically specific functional connectivity between visual field maps in the human brain. Neuroimage 56, 1426-36.

 

Cichy, R.M., Chen, Y. & Haynes, J.D. (2011). Encoding the identity and location of objects in human LOC. Neuroimage 54, 2297-307.

 

Lizier, J.T., Heinzle, J., Horstmann, A., Haynes, J.D. & Prokopenko M. (2011). Multivariate information-theoretic measures reveal directed information structure and task relevant changes in fMRI connectivity. Journal of Computational Neuroscience 30, 85-107.

 

Chen, Y,, Namburi, P., Elliott, L.T., Heinzle, J., Soon, C.S., Chee, M.W. & Haynes, J.D. (2010). Cortical surface-based searchlight decoding. Neuroimage 56, 582-92.

 

Anders, S., Heinzle, J., Weiskopf, N., Ethofer, T. & Haynes, J.D. (2011). Flow of affective information between communicating brains. Neuroimage 54, 439-46.

 

Kahnt, T., Heinzle, J., Park, S.Q. & Haynes, J.D. (2011). Decoding different roles for vmPFC and dlPFC in multi-attribute decision making. Neuroimage 56, 709-15.

 

Kahnt, T., Heinzle, J., Park, S.Q. & Haynes, J.D. (2010). The neural code of reward anticipation in human orbitofrontal cortex. Proceedings of the National Academy of Sciences of the USA 107, 6010-5.

 

Tusche, A., Bode, S. & Haynes, J.D. (2010). Neural responses to unattended products predict later consumer choices. Journal of Neuroscience 30, 8024-31.

 

Howard, J.D., Plailly, J., Grueschow, M., Haynes, J.D. & Gottfried, J.A. (2009). Odor quality  coding and categorization in human posterior piriform cortex. Nature Neuroscience 12, 932-938.

 

Corney, D., Haynes, J.D., Rees, G. & Lotto, R.B. (2009). The brightness of colour. PLoS One 4, e5091.

 

Bode, S. & Haynes, J.D. (2009). Decoding sequential stages of task preparation in the human brain. Neuroimage 45, 606-613.

 

Bengtsson, S.L., Haynes, J.D., Sakai, K., Buckley, M.J. & Passingham, R.E. (2009). The representation of abstract task rules in the human prefrontal cortex. Cerebral Cortex 19, 1929 1936.

 

Soon, C.S., Brass, M., Heinze, H.J.& Haynes, J.D. (2008). Unconscious determinants of free decisions in the human brain. Nature Neuroscience 11, 543-5.

 

Sterzer, P., Haynes, J.D. & Rees, G. (2008). Fine-scale patterns in high-level visual areas encode the category of invisible objects. Journal of Vision 8, 1-12.

 

Eger, E., Ashburner, J., Haynes, J.D., Dolan, R.J., Rees, G. (2008). FMRI activity patterns in human LOC carry information about object exemplars within category. Journal of Cognitive Neuroscience 20, 356-70.

 

Wright, N.D., Mechelli, A., Noppeney, U., Veltman, D.J., Rombouts, S.A., Glensman, J., Haynes, J.D., Price, C.J. (2008). Selective activation around the left occipito-temporal sulcus for words relative to pictures: individual variability or false positives? Human Brain Mapping 29, 986-1000.

 

Sumner, P., Anderson, E.J., Sylvester, R., Haynes, J.D. & Rees, G. (2008). Combined orientation and colour information in human V1 for both L-M and S-cone chromatic axes. Neuroimage 15, 814-824.

 

Haynes, J.D., Sakai, K., Rees, G., Gilbert, S., Frith, C. & Passingham, D. (2007). Reading hidden intentions in the human brain. Current Biology 17, 323-328.

 

Weil, R.S., Kilner, J.M., Haynes, J.D. & Rees, G. (2007). Neural correlates of perceptual filling in of an artificial scotoma in humans. Proceedings of the National Academy of Sciences of the USA 104, 5211-5216.

 

Watkins, S., Shams, L., Haynes, J.D. & Rees, G. (2006). Sound-induced illusory flash perception modulates V1 activity. Neuroimage 31, 1247-1256.

 

Ruff, C., Blankenburg, F., Bjoertolmt, O., Bestmann, S., Freeman, E., Haynes, J.D., Rees, G., Josephs, O., Deichmann, R. & Driver, J. (2006). Remote influences of frontal and parietal areas on human retinotopic visual cortex revealed by concurrent TMS-fMRI. Current Biology 16, 1479-1488.

 

Sterzer, P., Haynes, J.D. & Rees, G. (2006) Primary visual cortex activation on the path of apparent motion is meridated by feedback from hMT+/V5. Neuroimage 32, 1308-1316.

 

Haynes, J.D., Deichmann, R. & Rees, G. (2005) Eye-specific suppression in human LGN reflects perceptual dominance during binocular rivalry. Nature 438, 496-499.

 

Haynes, J.D., Tregellas, J. & Rees, G. (2005). Attentional integration between anatomically distinct stimulus representations in early visual cortex. Proceedings of the National Academy of Sciences of the USA 102, 14925-14930.

 

Haynes, J.D. & Rees, G. (2005). Predicting the stream of consciousness from activity in early visual cortex. Current Biology 15, 1301-1307.

 

Bristow, D., Haynes JD, Sylvester, R., Frith, C. & Rees, G. (2005). Two distinct effects of blinking on human neural processing. Current Biology 15, 1296-1300.

 

Haynes, J.D. & Rees, G. (2005). Predicting the orientation of invisible stimuli from activity in human primary visual cortex. Nature Neuroscience 8, 686-691.

 

Haynes, J.D., Driver, J. & Rees, G. (2005). Visibility Reflects Dynamic Changes of Effective Connectivity between V1 and Fusiform Cortex. Neuron 46, 811-821.

 

Sylvester, R., Haynes, J.D. & Rees, G. (2005). Saccades differentially modulate human LGN and V1 responses in the presence and absence of visual stimulation. Current Biology 15, 37-41.

 

Haynes, J.D., Lotto, R.B. & Rees, G. (2004). Responses of human visual cortex to uniform surfaces. Proceedings of the National Academy of Sciences of the USA. 101, 4286-91.

 

Haynes, J.D., Roth, G., Stadler, M. & Heinze, H.J. (2003). Neuromagnetic correlates of perceived contrast in primary visual cortex. Journal of Neurophysiology 89, 2655-66.

 

Otterpohl, J.R., Haynes, J.D., Emmert-Streib, F., Vetter, G. & Pawelzik, K. (2000). Extracting the dynamics of perceptual switching from 'noisy' behaviour: an application of hidden Markov modelling to pecking data from pigeons. Journal of Physiology [Paris] 94, 555-67.

 

Vetter, G., Haynes, J.D. & Pfaff, S. (2000). Evidence for multistability in the visual perception of pigeons. Vision Research 40, 2177-86.

 


Preprints

Allefeld C, Soon CS, Bogler C, Heinzle J, Haynes JD. (2013). Sequential dependencies between trials in free choice tasks. ArXiv:1311.0753v1. November 4th 2013 (http://arxiv.org/abs/1311.0753).



 

Reviews, Editorials, Opinions (in Journals)

 

Kiefer M, Ansorge U, Haynes JD, Hamker F, Mattler U, Verleger R, Niedeggen M. Neuro-cognitive mechanisms of conscious and unconscious visual perception: From a plethora of phenomena to general principles. Adv Cogn Psychol. 2011;7:55-67. Epub 2011 Dec 1. PubMed PMID: 22253669; PubMed Central PMCID: PMC3259028.


Haynes, J.D. (2011). Decoding and predicting intentions. Annals of the New York Academy of Sciences 1224, 9-21.

 

Haynes, J.D. (2011). Multivariate decoding and brain reading: introduction to the special issue. Neuroimage. 56, 385-6.

 

Haynes, J.D. (2009). Decoding the contents of visual consciousness from human brain activity. Trends in Cognitive Sciences 13, 194-202.

 

Haynes, J.D. (2008). Detecting deception from neuroimaging signals--a data-driven perspective. Trends in Cognitive Sciences 12, 126-7.

 

Bles, M. & Haynes, J.D. (2008). Detecting concealed information using brain-imaging technology. Neurocase 14, 82-92.

 

Haynes, J.D. & Rees, G. (2006) Decoding mental states from brain activity in humans. Nature Reviews Neuroscience 7, 523-534.

 

Haken, H., Stadler, M., Ditzinger, T. & Haynes, J.D. (2005). Synergetics of perception and consciousness. Gestalt Theory 27, 8-28.

 

Haynes, J.D. & Rees, G. (2004). Causal or representational holism? Discussion of Alva Noë and Evan Thompson: “Are there neural correlates of consciousness?”. J Consciousness Studies 11, 42-45.

 

Herrmann, M. & Haynes, J.D. (2002). What’s behind a scoopy title? Expectation and dopamine release: Mechanism of the placebo effect in Parkinson’s disease. Research in Complementary and Classical Natural Medicine 9, 237-239.

 

Cleeremans, A. & Haynes, J. D. (1999). Correlating consciousness: A view from empirical science. International Review of Philosophy (Revue Internationale de Philosophie) 3/1999,    387-420.

 

Haynes, J. D. (1999). Freiheit, Indeterminismus oder Unprognostizierbarkeit? Comment on Mario von Cranach and Alex Ammann: Die Annahme der Willensfreiheit und ihre Konsequenzen für die Sozialwissenschaften. Ethik und Sozialwissenschaften 10, 289.

 

Haynes, J. D., Roth, G., Schwegler, H. & Stadler, M. (1999). Die funktionale Rolle des bewußt Erlebten. Gestalt Theory 20, 186-213.

 

Vetter, G., Stadler, M. & Haynes, J. D. (1997). Phase transitions in learning. Journal of Mind and Behavior 18, 335-350.