Matt, Please keep in mind Marta is using a 24ch coil, instead of a 32ch coil at 7T. I would recommend keeping 1.6 mm and evaluate IPAT2+MB3 or IPAT2+MB4 with the 24ch coil.
Gordon On Mar 24, 2015, at 11:07 AM, Glasser, Matthew <glass...@wusm.wustl.edu<mailto:glass...@wusm.wustl.edu>> wrote: I would get at least 30 min of resting state if not more so that your estimates are more stable. The faster your TR, the better you will be able to clean your data and the more robust multivariate statistics like ICA will be. I would recommend the spin echo field map approach (i.e. using topup). The extant HCP pipelines work fine for processing 7T data provided on has 3T anatomical data. Making a 7T structural pipeline would be its own research project that might become obsolete as soon as parallel transmit becomes more common at 7T. Peace, Matt. From: Marta Moreno <mmorenoort...@icloud.com<mailto:mmorenoort...@icloud.com>> Date: Tuesday, March 24, 2015 at 7:59 AM To: Matt Glasser <glass...@wusm.wustl.edu<mailto:glass...@wusm.wustl.edu>> Cc: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: Re: [HCP-Users] rsfMRI at 7 Tesla Matt, Want to keep 1.6. I am doing IPAT=2 Just for resting state, not tasks, for 20 min. Your recommendation would be MB5 with TR=962 better than MB4 with TR=1090? Fieldmap 1.6*1.6*2 is not working well enough. How did you acquire your Fieldmap? Any suggestion for improvement (see attachment if needed)? Finally, will be an available HCP pipeline online for 7 tesla sometime soon? I am using SPM now. Thank you very much for this communication!! Best wishes always, Leah Sent from my iPhone On Mar 24, 2015, at 6:53 AM, Glasser, Matthew <glass...@wusm.wustl.edu<mailto:glass...@wusm.wustl.edu>> wrote: We used ipat=2 MB=5 for 1.6mm isotropic data with TR=1s (for reasons of improving temporal cleanup, I might be inclined to do 2mm and shorten the TR further like the 3T HCP data, but there are still active investigations into whether the 1.6mm data allow us to see finer details). The main trick with the 7T HCP data is that we are using the 3T structural scans (T1w and T2w at 0.7mm). The 3D T2w SPACE is hard to get at 7T because of SAR issues, and T1w MPRAGEs are much more inhomgeneous in their flip angles than at 3T, though hopefully it will be more possible when parallel transmit becomes more standard. The grayordinatewise CNR is dramatically higher in the 7T HCP data, however. Peace, Matt. From: Marta Moreno <mmorenoort...@icloud.com<mailto:mmorenoort...@icloud.com>> Date: Tuesday, March 24, 2015 at 3:52 AM To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: [HCP-Users] rsfMRI at 7 Tesla Hi users, I am studying preliminary data in order to define my protocol at 7 Tesla following some comments I posted here some time ago. I am testing rsfMRI 1.6x1.6x1.6: 1. MB5 TR=962 vs MB4 TR=1090 2. B0Fieldmap vs Topups High order and degree shimming (1st and 2nd), 24channel coil. My conclusion is MB4 TR=1090 and Topups. Will test tomorrow high order and degree shimming (3rd and 4th degree), quadrature. Wanted to here some expert opinions… I would like to acquire data to be processed through the HCP whenever it is possible. I attached very preliminary protocol just in case you can take a look and give me some feedback. Thank you very much for your help in advance, Leah _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users<https://urldefense.proofpoint.com/v2/url?u=http-3A__lists.humanconnectome.org_mailman_listinfo_hcp-2Dusers&d=AwMF-g&c=4R1YgkJNMyVWjMjneTwN5tJRn8m8VqTSNCjYLg1wNX4&r=3I6-yvEg8KFim9hIErhCvm3QH8yehzFWJ6HsWQoeUT8&m=3DuPvrqJJ8mO17C1L59ex8HVPzQps0TmrZD4-bTAaqg&s=P8AZYLbcpxf1vS4Ty9254BsJTNUKzwRlcuuJ-39c7kc&e=> _______________ Marta Moreno-Ortega, Ph.D. Postdoctoral Research Fellow Division of Experimental Therapeutics New York State Psychiatric Institute Department of Psychiatry Columbia University College of Physicians and Surgeons ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. 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