A highly parallelized framework for computationally intensive MR data analysis

Magnetic Resonance Materials in Physics, Biology and Medicine

Volumn 25, Issue 4, 2012, Pages 313-320

  Boubela, Roland N ^a,b,c   Huf, Wolfgang ^a,b,c   Kalcher, Klaudius ^a,b,c   Sladky, Ronald ^a   Filzmoser, Peter ^c   Pezawas, Lukas ^b   Kasper, Siegfried ^b   Windischberger, Christian ^a   Moser, Ewald ^a  

^a Christian Doppler Laboratory for Innovative Optical Imaging and its Translation to Medicine   (Austria)

^b MEDICAL UNIVERSITY OF VIENNA   (Austria)

^c VIENNA UNIVERSITY OF TECHNOLOGY   (Austria)

Author keywords

FMRI; High performance computing; Magnetic resonance imaging; Statistical computing

Indexed keywords

ALGORITHM; ARTICLE; BIOSTATISTICS; BRAIN; COMPUTER ASSISTED DIAGNOSIS; COMPUTER PROGRAM; HISTOLOGY; HUMAN; NUCLEAR MAGNETIC RESONANCE IMAGING; STATISTICAL ANALYSIS; STATISTICS;

ALGORITHMS; BIOSTATISTICS; BRAIN; DATA INTERPRETATION, STATISTICAL; HUMANS; IMAGE INTERPRETATION, COMPUTER-ASSISTED; MAGNETIC RESONANCE IMAGING; SOFTWARE;

EID: 84864981423     PISSN: 09685243     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10334-011-0290-7     Document Type: Article

References (33)

1. Biswal BB, Mennes M, Zuo XN, Gohel S, Kelly C, Smith SM, Beckmann CF, Adelstein JS, Buckner RL, Colcombe S, Dogo-nowski AM, Ernst M, Fair D, Hampson M, Hoptman MJ, Hyde JS, Kiviniemi VJ, Kötter R, Li SJ, Lin CP, Lowe MJ, Mackay C, Madden DJ, Madsen KH, Margulies DS, Mayberg HS, McMahon K, Monk CS, Mostofsky SH, Nagel BJ, Pekar JJ, Peltier SJ, Petersen SE, Riedl V, Rombouts SARB, Rypma B, Schlaggar BL, Schmidt S, Seidler RD, Siegle GJ, Sorg C, Teng GJ, Veijola J, Villringer A, Walter M, Wang L, Weng XC, Whitfield-Gabrieli S, Williamson P, Windischberger C, Zang YF, Zhang HY, Castellanos FX, Milham MP (2010) Toward discovery science of human brain function. Proc Natl Acad Sci USA 107:4734-4739
2. van den Heuvel MP, Pol HEH (2010) Exploring the brain network: A review on resting-state fMRI functional connectivity. Eur Neuropsychopharmacol 20:519-534
3. Weissenbacher A, Kasess C, Gerstl F, Lanzenberger R, Moser E, Windischberger C (2009) Correlations and anticorrelations in resting-state functional connectivity MRI: A quantitative comparison of preprocessing strategies. Neuroimage 47:1408-1416
4. Sladky R, Friston KJ, Tröstl J, Cunnington R, Moser E, Windi-schberger C (2011) Slice-timing effects and their correction in functional MRI. Neuroimage 58:588-594
5. Cox RW (1996) AFNI: Software for analysis and visualization of functional magnetic resonance neuroimages. Comput Biomed Res 29:162-173 (Pubitemid 26266657)
6. Penny, WD, Friston, KJ, Ashburner, JT, Kiebel, SJ, Nichols, TE (eds) (2007) Statistical parametric mapping: The analysis of functional brain images. Academic Press, London
7. Beckmann CF, Smith SM (2004) Probabilistic independent component analysis for functional magnetic resonance imaging. IEEE Trans Med Imaging 23:137-152
8. Beckmann CF, DeLuca M, Devlin JT, Smith SM (2005) Investigations into resting-state connectivity using independent component analysis. Philos Trans R Soc Lond B Biol Sci 360: 1001-1013 (Pubitemid 41672861)
9. R Development Core Team (2011) R: A language and environment for statistical computing. ISBN 3-900051-07-0
10. Tomasi D, Volkow ND (2011) Gender differences in brain functional connectivity density. Hum Brain Mapp. doi:10.1002/hbm.21252
11. Rubinov M, Sporns O (2011) Weight-conserving characterization of complex functional brain networks. Neuroimage 56:2068-2079
12. Tomasi D, Volkow ND (2010) Functional connectivity density mapping. Proc Natl Acad Sci USA 107:9885-9890
13. Parallel SPM. http://sourceforge.net/projects/parallelspm/
14. NVIDIA Corporation (2011) CUDA API Reference Manual
15. R Development Core Team (2011) Writing R extensions. R foundation for statistical computing. Austria, Vienna
16. Lowe MJ (2010) A historical perspective on the evolution of resting-state functional connectivity with MRI. Magn Reson Mater Phy 23:279-288
17. Moser E, Ranjeva JP (2010) In vivo MR imaging of brain networks: Illusion or revolution?. Magn Reson Mater Phy 23: 275-277
18. Damoiseaux JS, Rombouts SARB, Barkhof F, Scheltens P, Stam CJ, Smith SM, Beckmann CF (2006) Consistent resting-state networks across healthy subjects. Proc Natl Acad Sci USA 103: 13848-13853 (Pubitemid 44413996)
19. Fox MD, Snyder AZ, Vincent JL, Corbetta M, Essen DCV, Raichle ME (2005) The human brain is intrinsically organized into dynamic, anticorrelated functional networks. Proc Natl Acad Sci USA 102:9673-9678 (Pubitemid 40981739)
20. Robinson S, Basso G, Soldati N, Sailer U, Jovicich J, Bruzzone L, Kryspin-Exner I, Bauer H, Moser E (2009) A resting state network in the motor control circuit of the basal ganglia. BMC Neurosci 10:137
21. Schöpf V, Kasess CH, Lanzenberger R, Fischmeister F, Windi-schberger C, Moser E (2010) Fully exploratory network ICA (FENICA) on resting-state fMRI data. J Neurosci Methods 192:207-213
22. Granert O (2010) Rniftilib: Rniftilib-R Interface to NIFTICLIB (V1.1.0). R package version 0.0-29
23. Kane MJ, Emerson JW (2010) bigmemory: Manage massive matrices with shared memory and memory-mapped files. R package version 4.2.3
24. Knaus J (2010) snowfall: Easier cluster computing (based on snow). R package version 1.84
25. da Silva ARF (2010) cudaBayesreg: Bayesian computation in CUDA. The R Journal 2/2:48-55
26. da Silva ARF (2011) A Bayesian multilevel model for fMRI data analysis. Comput Methods Programs Biomed 102:238-252
27. NVIDIA Corporation (2011) NVIDIA CUDA C Programming Guide
28. Schöpf V, Windischberger C, Robinson S, Kasess CH, Fischmeister FPhS, Lanzenberger R, Albrecht J, Kleemann AM, Kopietz R, Wiesmann M, Moser E (2011) Model-free fMRI group analysis using FENICA. Neuroimage 55:185-193
29. Yu H (2010). Interface (wrapper) to MPI (message-passing interface). Package version 0.5-9
30. Eidelberg D (2009) Metabolic brain networks in neurodegenerative disorders: A functional imaging approach. Trends Neurosci 32:548-557
31. Huf W, Kalcher K, Pail G, Friedrich ME, Filzmoser P, Kasper S (2011) Meta-analysis: Fact or fiction? How to interpret metaanalyses. World J Biol Psychiatry 12:188-200
32. Provencher SW (1993) Estimation of metabolite concentrations from localized in vivo proton NMR spectra. Magn Reson Med 30:672-679 (Pubitemid 23360802)
33. Damoiseaux JS, Greicius MD (2009) Greater than the sum of its parts: A review of studies combining structural connectivity and resting-state functional connectivity. Brain Struct Funct 213:525-533