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Items: 1 to 50 of 55

1.

diff_classifier: Parallelization of multi-particle tracking video analyses.

Curtis C, Rokem A, Nance E.

J Open Source Softw. 2019;4(36). pii: 989. doi: 10.21105/joss.00989. Epub 2019 Apr 10.

2.

A model of ganglion axon pathways accounts for percepts elicited by retinal implants.

Beyeler M, Nanduri D, Weiland JD, Rokem A, Boynton GM, Fine I.

Sci Rep. 2019 Jun 24;9(1):9199. doi: 10.1038/s41598-019-45416-4.

3.

Combining Citizen Science and Deep Learning to Amplify Expertise in Neuroimaging.

Keshavan A, Yeatman JD, Rokem A.

Front Neuroinform. 2019 May 8;13:29. doi: 10.3389/fninf.2019.00029. eCollection 2019.

4.

Evaluating arcuate fasciculus laterality measurements across dataset and tractography pipelines.

Bain JS, Yeatman JD, Schurr R, Rokem A, Mezer AA.

Hum Brain Mapp. 2019 Sep;40(13):3695-3711. doi: 10.1002/hbm.24626. Epub 2019 May 20.

PMID:
31106944
5.

Generating retinal flow maps from structural optical coherence tomography with artificial intelligence.

Lee CS, Tyring AJ, Wu Y, Xiao S, Rokem AS, DeRuyter NP, Zhang Q, Tufail A, Wang RK, Lee AY.

Sci Rep. 2019 Apr 5;9(1):5694. doi: 10.1038/s41598-019-42042-y.

6.

Forecasting future Humphrey Visual Fields using deep learning.

Wen JC, Lee CS, Keane PA, Xiao S, Rokem AS, Chen PP, Wu Y, Lee AY.

PLoS One. 2019 Apr 5;14(4):e0214875. doi: 10.1371/journal.pone.0214875. eCollection 2019.

7.

Applying microstructural models to understand the role of white matter in cognitive development.

Huber E, Henriques RN, Owen JP, Rokem A, Yeatman JD.

Dev Cogn Neurosci. 2019 Apr;36:100624. doi: 10.1016/j.dcn.2019.100624. Epub 2019 Feb 1.

8.

Generalized diffusion spectrum magnetic resonance imaging (GDSI) for model-free reconstruction of the ensemble average propagator.

Tian Q, Yang G, Leuze C, Rokem A, Edlow BL, McNab JA.

Neuroimage. 2019 Apr 1;189:497-515. doi: 10.1016/j.neuroimage.2019.01.038. Epub 2019 Jan 23.

PMID:
30684636
9.

Hack weeks as a model for data science education and collaboration.

Huppenkothen D, Arendt A, Hogg DW, Ram K, VanderPlas JT, Rokem A.

Proc Natl Acad Sci U S A. 2018 Sep 4;115(36):8872-8877. doi: 10.1073/pnas.1717196115. Epub 2018 Aug 20.

10.

Rapid and widespread white matter plasticity during an intensive reading intervention.

Huber E, Donnelly PM, Rokem A, Yeatman JD.

Nat Commun. 2018 Jun 8;9(1):2260. doi: 10.1038/s41467-018-04627-5.

11.

A browser-based tool for visualization and analysis of diffusion MRI data.

Yeatman JD, Richie-Halford A, Smith JK, Keshavan A, Rokem A.

Nat Commun. 2018 Mar 5;9(1):940. doi: 10.1038/s41467-018-03297-7.

12.

Reply.

Lee C, Rokem A, Lee A.

Ophthalmol Retina. 2018 Feb;2(2):e3. doi: 10.1016/j.oret.2017.11.006. Epub 2017 Dec 22. No abstract available.

PMID:
31047354
13.

Fully automated, deep learning segmentation of oxygen-induced retinopathy images.

Xiao S, Bucher F, Wu Y, Rokem A, Lee CS, Marra KV, Fallon R, Diaz-Aguilar S, Aguilar E, Friedlander M, Lee AY.

JCI Insight. 2017 Dec 21;2(24). pii: 97585. doi: 10.1172/jci.insight.97585.

14.

Mapping genetic variations to three-dimensional protein structures to enhance variant interpretation: a proposed framework.

Glusman G, Rose PW, Prlić A, Dougherty J, Duarte JM, Hoffman AS, Barton GJ, Bendixen E, Bergquist T, Bock C, Brunk E, Buljan M, Burley SK, Cai B, Carter H, Gao J, Godzik A, Heuer M, Hicks M, Hrabe T, Karchin R, Leman JK, Lane L, Masica DL, Mooney SD, Moult J, Omenn GS, Pearl F, Pejaver V, Reynolds SM, Rokem A, Schwede T, Song S, Tilgner H, Valasatava Y, Zhang Y, Deutsch EW.

Genome Med. 2017 Dec 18;9(1):113. doi: 10.1186/s13073-017-0509-y. Review.

15.

Deep-learning based, automated segmentation of macular edema in optical coherence tomography.

Lee CS, Tyring AJ, Deruyter NP, Wu Y, Rokem A, Lee AY.

Biomed Opt Express. 2017 Jun 23;8(7):3440-3448. doi: 10.1364/BOE.8.003440. eCollection 2017 Jul 1.

16.

Diffusion MRI microstructure models with in vivo human brain Connectome data: results from a multi-group comparison.

Ferizi U, Scherrer B, Schneider T, Alipoor M, Eufracio O, Fick RHJ, Deriche R, Nilsson M, Loya-Olivas AK, Rivera M, Poot DHJ, Ramirez-Manzanares A, Marroquin JL, Rokem A, Pötter C, Dougherty RF, Sakaie K, Wheeler-Kingshott C, Warfield SK, Witzel T, Wald LL, Raya JG, Alexander DC.

NMR Biomed. 2017 Sep;30(9). doi: 10.1002/nbm.3734. Epub 2017 Jun 23.

17.

Learning to see again: biological constraints on cortical plasticity and the implications for sight restoration technologies.

Beyeler M, Rokem A, Boynton GM, Fine I.

J Neural Eng. 2017 Oct;14(5):051003. doi: 10.1088/1741-2552/aa795e. Epub 2017 Jun 14. Review.

18.

The visual white matter: The application of diffusion MRI and fiber tractography to vision science.

Rokem A, Takemura H, Bock AS, Scherf KS, Behrmann M, Wandell BA, Fine I, Bridge H, Pestilli F.

J Vis. 2017 Feb 1;17(2):4. doi: 10.1167/17.2.4. Review.

19.

Gestational age within normal range and infants' health and temperament at 3-months of age.

Kaitz M, Mankuta D, Rokem AM, Faraone SV.

J Psychosom Obstet Gynaecol. 2017 Jun;38(2):111-120. doi: 10.1080/0167482X.2016.1271978. Epub 2017 Jan 11.

PMID:
28075190
20.

The brain imaging data structure, a format for organizing and describing outputs of neuroimaging experiments.

Gorgolewski KJ, Auer T, Calhoun VD, Craddock RC, Das S, Duff EP, Flandin G, Ghosh SS, Glatard T, Halchenko YO, Handwerker DA, Hanke M, Keator D, Li X, Michael Z, Maumet C, Nichols BN, Nichols TE, Pellman J, Poline JB, Rokem A, Schaefer G, Sochat V, Triplett W, Turner JA, Varoquaux G, Poldrack RA.

Sci Data. 2016 Jun 21;3:160044. doi: 10.1038/sdata.2016.44.

21.

Evaluating quantitative proton-density-mapping methods.

Mezer A, Rokem A, Berman S, Hastie T, Wandell BA.

Hum Brain Mapp. 2016 Oct;37(10):3623-35. doi: 10.1002/hbm.23264. Epub 2016 Jun 6.

22.

Dopamine receptor polymorphism modulates the relation between antenatal maternal anxiety and fetal movement.

Kaitz M, Mankuta D, Rokem AM, Faraone S.

Dev Psychobiol. 2016 Dec;58(8):980-989. doi: 10.1002/dev.21428. Epub 2016 May 19.

PMID:
27195896
23.

Brainhack: a collaborative workshop for the open neuroscience community.

Cameron Craddock R, S Margulies D, Bellec P, Nolan Nichols B, Alcauter S, A Barrios F, Burnod Y, J Cannistraci C, Cohen-Adad J, De Leener B, Dery S, Downar J, Dunlop K, R Franco A, Seligman Froehlich C, J Gerber A, S Ghosh S, J Grabowski T, Hill S, Sólon Heinsfeld A, Matthew Hutchison R, Kundu P, R Laird A, Liew SL, J Lurie D, G McLaren D, Meneguzzi F, Mennes M, Mesmoudi S, O'Connor D, H Pasaye E, Peltier S, Poline JB, Prasad G, Fraga Pereira R, Quirion PO, Rokem A, S Saad Z, Shi Y, C Strother S, Toro R, Q Uddin L, D Van Horn J, W Van Meter J, C Welsh R, Xu T.

Gigascience. 2016 Mar 31;5:16. doi: 10.1186/s13742-016-0121-x. eCollection 2016. Review.

24.

Q-space truncation and sampling in diffusion spectrum imaging.

Tian Q, Rokem A, Folkerth RD, Nummenmaa A, Fan Q, Edlow BL, McNab JA.

Magn Reson Med. 2016 Dec;76(6):1750-1763. doi: 10.1002/mrm.26071. Epub 2016 Jan 13.

25.

Human blindsight is mediated by an intact geniculo-extrastriate pathway.

Ajina S, Pestilli F, Rokem A, Kennard C, Bridge H.

Elife. 2015 Oct 20;4. pii: e08935. doi: 10.7554/eLife.08935.

26.

Correction: Evaluating the Accuracy of Diffusion MRI Models in White Matter.

Rokem A, Yeatman JD, Pestilli F, Kay KN, Mezer A, van der Walt S, Wandell BA.

PLoS One. 2015 Sep 22;10(9):e0139150. doi: 10.1371/journal.pone.0139150. eCollection 2015. No abstract available.

27.

Relation between maternal antenatal anxiety and infants' weight depends on infants' sex: A longitudinal study from late gestation to 1-month post birth.

Kaitz M, Mankuta D, Rokem AM, Faraone SV.

J Psychosom Res. 2015 Dec;79(6):620-7. doi: 10.1016/j.jpsychores.2015.07.006. Epub 2015 Jul 17.

28.

Evaluating the accuracy of diffusion MRI models in white matter.

Rokem A, Yeatman JD, Pestilli F, Kay KN, Mezer A, van der Walt S, Wandell BA.

PLoS One. 2015 Apr 16;10(4):e0123272. doi: 10.1371/journal.pone.0123272. eCollection 2015. Erratum in: PLoS One. 2015;10(9):e0139150.

29.

A Major Human White Matter Pathway Between Dorsal and Ventral Visual Cortex.

Takemura H, Rokem A, Winawer J, Yeatman JD, Wandell BA, Pestilli F.

Cereb Cortex. 2016 May;26(5):2205-2214. doi: 10.1093/cercor/bhv064. Epub 2015 Mar 31.

30.
31.

The vertical occipital fasciculus: a century of controversy resolved by in vivo measurements.

Yeatman JD, Weiner KS, Pestilli F, Rokem A, Mezer A, Wandell BA.

Proc Natl Acad Sci U S A. 2014 Dec 2;111(48):E5214-23. doi: 10.1073/pnas.1418503111. Epub 2014 Nov 17.

32.

Moderate antenatal anxiety symptoms and birth outcomes of boys and girls.

Kaitz M, Mankuta D, Rokem AM, Faraone SV.

J Psychosom Obstet Gynaecol. 2014 Dec;35(4):116-23. doi: 10.3109/0167482X.2014.952279. Epub 2014 Sep 10.

PMID:
25204367
33.

Evaluation and statistical inference for human connectomes.

Pestilli F, Yeatman JD, Rokem A, Kay KN, Wandell BA.

Nat Methods. 2014 Oct;11(10):1058-63. doi: 10.1038/nmeth.3098. Epub 2014 Sep 7.

34.

Dipy, a library for the analysis of diffusion MRI data.

Garyfallidis E, Brett M, Amirbekian B, Rokem A, van der Walt S, Descoteaux M, Nimmo-Smith I; Dipy Contributors.

Front Neuroinform. 2014 Feb 21;8:8. doi: 10.3389/fninf.2014.00008. eCollection 2014.

35.

GLMdenoise: a fast, automated technique for denoising task-based fMRI data.

Kay KN, Rokem A, Winawer J, Dougherty RF, Wandell BA.

Front Neurosci. 2013 Dec 17;7:247. doi: 10.3389/fnins.2013.00247. eCollection 2013.

36.

Exposure to childhood traumas ups the odds of giving birth to daughters.

Kaitz M, Rokem AM, Mankuta D, Davidov M, Faraone SV.

Arch Womens Ment Health. 2014 Apr;17(2):159-66. doi: 10.1007/s00737-013-0394-3. Epub 2013 Nov 13.

37.

Windows to the soul: vision science as a tool for studying biological mechanisms of information processing deficits in schizophrenia.

Yoon JH, Sheremata SL, Rokem A, Silver MA.

Front Psychol. 2013 Oct 31;4:681. doi: 10.3389/fpsyg.2013.00681. Review.

38.

Sex differences in sleep-dependent perceptual learning.

McDevitt EA, Rokem A, Silver MA, Mednick SC.

Vision Res. 2014 Jun;99:172-9. doi: 10.1016/j.visres.2013.10.009. Epub 2013 Oct 17.

39.

The benefits of cholinergic enhancement during perceptual learning are long-lasting.

Rokem A, Silver MA.

Front Comput Neurosci. 2013 May 29;7:66. doi: 10.3389/fncom.2013.00066. eCollection 2013.

40.

A two-stage cascade model of BOLD responses in human visual cortex.

Kay KN, Winawer J, Rokem A, Mezer A, Wandell BA.

PLoS Comput Biol. 2013;9(5):e1003079. doi: 10.1371/journal.pcbi.1003079. Epub 2013 May 30.

41.

Cholinergic enhancement reduces orientation-specific surround suppression but not visual crowding.

Kosovicheva AA, Sheremata SL, Rokem A, Landau AN, Silver MA.

Front Behav Neurosci. 2012 Sep 18;6:61. doi: 10.3389/fnbeh.2012.00061. eCollection 2012.

42.

Broader visual orientation tuning in patients with schizophrenia.

Rokem A, Yoon JH, Ooms RE, Maddock RJ, Minzenberg MJ, Silver MA.

Front Hum Neurosci. 2011 Nov 4;5:127. doi: 10.3389/fnhum.2011.00127. eCollection 2011.

43.

Modulation of inhibition of return by the dopamine D2 receptor agonist bromocriptine depends on individual DAT1 genotype.

Rokem A, Landau AN, Prinzmetal W, Wallace DL, Silver MA, D'Esposito M.

Cereb Cortex. 2012 May;22(5):1133-8. doi: 10.1093/cercor/bhr185. Epub 2011 Jul 28.

44.

Cholinergic enhancement augments magnitude and specificity of visual perceptual learning in healthy humans.

Rokem A, Silver MA.

Curr Biol. 2010 Oct 12;20(19):1723-8. doi: 10.1016/j.cub.2010.08.027. Epub 2010 Sep 16.

45.

Cholinergic enhancement increases the effects of voluntary attention but does not affect involuntary attention.

Rokem A, Landau AN, Garg D, Prinzmetal W, Silver MA.

Neuropsychopharmacology. 2010 Dec;35(13):2538-44. doi: 10.1038/npp.2010.118. Epub 2010 Sep 1.

46.

GABA concentration is reduced in visual cortex in schizophrenia and correlates with orientation-specific surround suppression.

Yoon JH, Maddock RJ, Rokem A, Silver MA, Minzenberg MJ, Ragland JD, Carter CS.

J Neurosci. 2010 Mar 10;30(10):3777-81. doi: 10.1523/JNEUROSCI.6158-09.2010.

47.

Bursts generate a non-reducible spike-pattern code.

Eyherabide HG, Rokem A, Herz AV, Samengo I.

Front Neurosci. 2009 May 1;3(1):8-14. doi: 10.3389/neuro.01.002.2009. eCollection 2009 May.

48.

Diminished orientation-specific surround suppression of visual processing in schizophrenia.

Yoon JH, Rokem AS, Silver MA, Minzenberg MJ, Ursu S, Ragland JD, Carter CS.

Schizophr Bull. 2009 Nov;35(6):1078-84. doi: 10.1093/schbul/sbp064. Epub 2009 Jul 20.

49.

A model of encoding and decoding in V1 and MT accounts for motion perception anisotropies in the human visual system.

Rokem A, Silver MA.

Brain Res. 2009 Nov 24;1299:3-16. doi: 10.1016/j.brainres.2009.07.005. Epub 2009 Jul 30.

PMID:
19595992
50.

Interactions of cognitive and auditory abilities in congenitally blind individuals.

Rokem A, Ahissar M.

Neuropsychologia. 2009 Feb;47(3):843-8. doi: 10.1016/j.neuropsychologia.2008.12.017. Epub 2008 Dec 24.

PMID:
19138693

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