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Hello everyone,
Could anyone please help me to know which Atlas is used in the segmentation of corpus callosum, hippocampus, and fornix using freeSurfer from Brian MR images. I have gone through the literature but couldn't find it.
With Regards Ahsan --------------------------------------------- Ahsan Ali Ph.D Scholar Department of Applied Mechanics (Biomedical Engineering Group) Indian Institute of Technology Madras Chennai-600036, Tamil Nadu, INDIA Mob.:- +91-8899605552
---------- Forwarded message --------- From: Fischl, Bruce R.,PHD BFISCHL@mgh.harvard.edu Date: Wed, May 22, 2024, 10:52 PM Subject: RE: Atlas Used in FreeSurfer for Segmentation of Fornix, Corpus Callosum, Hippocampus To: Ahsan Ali ahsan889960@gmail.com
Can you please post to the list so that others can answer?
*From:* Ahsan Ali ahsan889960@gmail.com *Sent:* Wednesday, May 22, 2024 1:04 PM *To:* Fischl, Bruce R.,PHD BFISCHL@mgh.harvard.edu *Subject:* Re: Atlas Used in FreeSurfer for Segmentation of Fornix, Corpus Callosum, Hippocampus
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Dear sir,
It is not clear from these papers to me.
With Regards Ahsan --------------------------------------------- Ahsan Ali Ph.D Scholar Department of Applied Mechanics (Biomedical Engineering Group) Indian Institute of Technology Madras Chennai-600036, Tamil Nadu, INDIA Mob.:- +91-8899605552
On Wed, May 22, 2024, 8:19 PM Fischl, Bruce R.,PHD BFISCHL@mgh.harvard.edu wrote:
Mostly these:
https://secure-web.cisco.com/1DKaAagv5wrZcn_HucsSWH8TG1zknHKvHLkGgJhoy1pwq5h... https://secure-web.cisco.com/1HR13_22Yz_9WpJjcigfRprjowpMV_nRs6XlxrY4Yb6j-evXZPGWuDST9cxl5hrxqDnY36OO-DWh-DHSjC9WOyIdWgTfSivwYdntG4mLrhEbocZQg77rCDLRrqkGdC4dWr1XAk8WpbIxARclMD5q1amLPtLgHzr62m0sYbJf__P7pnOZtoEuK1057w9V7mi6qkL5etQsJbwrUvACGhLjQuWkDaxxo9qqitpcmukocz-fAPaBs2D8pKIeiiU1d7egRwVS8Nkx8q9jk3JGCtUAPQYOhElJt4Jlt0aKAKsEsIPaLOQ-Cg-OS_XVvpyAb80SOw-iFHYeilK24sF1yxOvsKg/https%3A%2F%2Fpubmed.ncbi.nlm.nih.gov%2F15501102%2F
https://secure-web.cisco.com/1XuxKv5CEuHRfXAdPzciFLM-HiNv8hX8h1hN2vYlGz0J9uz... https://secure-web.cisco.com/1uYxJbJpTbAO8ILMWce1OXOAM2VlXwJ80ARMpic7_Y4CDCd-TX029cOcV76RNwmJ1nX4ausAz1tjUF9_GxGxyGRCGgqgXBMiYXeLT7ZmxBcjHuOxap7AgRk-pC7cxm3aJTC4ZTj2M2hn-AX4UOibz9tM2KWaoWRHc6PmlqHukLdRoIj4Fd3IvbvmddW8OTAMAJvENkfreybAHGhjav3ERNfMCAe1MQIhc9H96lfgpLgC137ztsnIJvZHYAiSNFtc5a3gPsCCbuMHfMj4WU3_KUBmE2i0VtIdg_slM5HAyiVam1S2U3u_NEoSuiNC12r54hcfwryLRIZg9jDnyjvXnlw/https%3A%2F%2Fdoi.org%2F10.1016%2FS0896-6273%2802%2900569-X
cheers
Bruce
*From:* Ahsan Ali ahsan889960@gmail.com *Sent:* Wednesday, May 22, 2024 4:31 AM *To:* Freesurfer support list freesurfer@nmr.mgh.harvard.edu; Huang, Yujing YHUANG43@mgh.harvard.edu; Fischl, Bruce R.,PHD < BFISCHL@mgh.harvard.edu> *Subject:* Atlas Used in FreeSurfer for Segmentation of Fornix, Corpus Callosum, Hippocampus
* External Email - Use Caution *
Dear FreeSurfer Team,
After reviewing the literature, I have a question: which atlases are used in the segmentation of the fornix, corpus callosum, and hippocampus from magnetic resonance images using FreeSurfer? This is a significant question for me, and I would appreciate a clear and concise answer. Please provide some relevant references.
With Regards Ahsan --------------------------------------------- Ahsan Ali Ph.D Scholar Department of Applied Mechanics and Biomedical Engineering (AMBE) Indian Institute of Technology Madras Chennai-600036, Tamil Nadu, INDIA Mob.:- +91-8899605552
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at https://secure-web.cisco.com/1OM4mcc50Qfe8k4W6OcHgaA943SBzfkdd7bNh8ZqMDtb9_j... https://secure-web.cisco.com/1N0MvKNFIBgTBpwH0_fE4Erq9GYA9l1dAIs9zS_j_cM3I1KwHZcznT-QI28TzxWJddrW_hSqNx2BvLW6l0qUl2wdSd9vir5weE8NZ9e_Owb_7Twe_oj4zza3gH6I0TDwQaqVI3Epiuc9WgwpXO9mBBMDy8fFbW9Eq2feDGE-yUfV0VhzMWlejduzO_JLyxzAvq4wnjwLAyyTOYZOOqFCxfCl6GRUo3v0Ykaj9VTAVRHVmD_BAMic4-Th3yZ_-Z-72DvOzXbt5RSuTcizHS2eB7cYi4YJXfRIeokb-VjM_nnFw_DHJGvwWyZ8z_61qbv-T/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline .
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at https://secure-web.cisco.com/1OM4mcc50Qfe8k4W6OcHgaA943SBzfkdd7bNh8ZqMDtb9_j... .
Mostly these:
https://pubmed.ncbi.nlm.nih.gov/15501102/
https://doi.org/10.1016/S0896-6273(02)00569-X
For a separate fornix seg, see https://surfer.nmr.mgh.harvard.edu/fswiki/ScLimbic
On 5/22/2024 1:34 PM, Ahsan Ali wrote:
External Email - Use Caution
Hello everyone,
Could anyone please help me to know which Atlas is used in the segmentation of corpus callosum, hippocampus, and fornix using freeSurfer from Brian MR images. I have gone through the literature but couldn't find it.
With Regards Ahsan
Ahsan Ali Ph.D Scholar Department of Applied Mechanics (Biomedical Engineering Group) Indian Institute of Technology Madras Chennai-600036, Tamil Nadu, INDIA Mob.:- +91-8899605552
---------- Forwarded message --------- From: *Fischl, Bruce R.,PHD* BFISCHL@mgh.harvard.edu Date: Wed, May 22, 2024, 10:52 PM Subject: RE: Atlas Used in FreeSurfer for Segmentation of Fornix, Corpus Callosum, Hippocampus To: Ahsan Ali ahsan889960@gmail.com
Can you please post to the list so that others can answer?
*From:*Ahsan Ali ahsan889960@gmail.com *Sent:* Wednesday, May 22, 2024 1:04 PM *To:* Fischl, Bruce R.,PHD BFISCHL@mgh.harvard.edu *Subject:* Re: Atlas Used in FreeSurfer for Segmentation of Fornix, Corpus Callosum, Hippocampus
* External Email - Use Caution *
Dear sir,
It is not clear from these papers to me.
With Regards Ahsan
Ahsan Ali Ph.D Scholar Department of Applied Mechanics (Biomedical Engineering Group) Indian Institute of Technology Madras Chennai-600036, Tamil Nadu, INDIA Mob.:- +91-8899605552
On Wed, May 22, 2024, 8:19 PM Fischl, Bruce R.,PHD BFISCHL@mgh.harvard.edu wrote:
Mostly these: *MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://pubmed.ncbi.nlm.nih.gov/15501102/ <https://secure-web.cisco.com/1HR13_22Yz_9WpJjcigfRprjowpMV_nRs6XlxrY4Yb6j-evXZPGWuDST9cxl5hrxqDnY36OO-DWh-DHSjC9WOyIdWgTfSivwYdntG4mLrhEbocZQg77rCDLRrqkGdC4dWr1XAk8WpbIxARclMD5q1amLPtLgHzr62m0sYbJf__P7pnOZtoEuK1057w9V7mi6qkL5etQsJbwrUvACGhLjQuWkDaxxo9qqitpcmukocz-fAPaBs2D8pKIeiiU1d7egRwVS8Nkx8q9jk3JGCtUAPQYOhElJt4Jlt0aKAKsEsIPaLOQ-Cg-OS_XVvpyAb80SOw-iFHYeilK24sF1yxOvsKg/https%3A%2F%2Fpubmed.ncbi.nlm.nih.gov%2F15501102%2F> *MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://doi.org/10.1016/S0896-6273(02)00569-X <https://secure-web.cisco.com/1uYxJbJpTbAO8ILMWce1OXOAM2VlXwJ80ARMpic7_Y4CDCd-TX029cOcV76RNwmJ1nX4ausAz1tjUF9_GxGxyGRCGgqgXBMiYXeLT7ZmxBcjHuOxap7AgRk-pC7cxm3aJTC4ZTj2M2hn-AX4UOibz9tM2KWaoWRHc6PmlqHukLdRoIj4Fd3IvbvmddW8OTAMAJvENkfreybAHGhjav3ERNfMCAe1MQIhc9H96lfgpLgC137ztsnIJvZHYAiSNFtc5a3gPsCCbuMHfMj4WU3_KUBmE2i0VtIdg_slM5HAyiVam1S2U3u_NEoSuiNC12r54hcfwryLRIZg9jDnyjvXnlw/https%3A%2F%2Fdoi.org%2F10.1016%2FS0896-6273%2802%2900569-X> cheers Bruce *From:*Ahsan Ali <ahsan889960@gmail.com> *Sent:* Wednesday, May 22, 2024 4:31 AM *To:* Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>; Huang, Yujing <YHUANG43@mgh.harvard.edu>; Fischl, Bruce R.,PHD <BFISCHL@mgh.harvard.edu> *Subject:* Atlas Used in FreeSurfer for Segmentation of Fornix, Corpus Callosum, Hippocampus * External Email - Use Caution * Dear FreeSurfer Team, After reviewing the literature, I have a question: which atlases are used in the segmentation of the fornix, corpus callosum, and hippocampus from magnetic resonance images using FreeSurfer? This is a significant question for me, and I would appreciate a clear and concise answer. Please provide some relevant references. With Regards Ahsan --------------------------------------------- Ahsan Ali Ph.D Scholar Department of Applied Mechanics and Biomedical Engineering (AMBE) Indian Institute of Technology Madras Chennai-600036, Tamil Nadu, INDIA Mob.:- +91-8899605552 The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at *MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://www.massgeneralbrigham.org/complianceline <https://secure-web.cisco.com/1N0MvKNFIBgTBpwH0_fE4Erq9GYA9l1dAIs9zS_j_cM3I1KwHZcznT-QI28TzxWJddrW_hSqNx2BvLW6l0qUl2wdSd9vir5weE8NZ9e_Owb_7Twe_oj4zza3gH6I0TDwQaqVI3Epiuc9WgwpXO9mBBMDy8fFbW9Eq2feDGE-yUfV0VhzMWlejduzO_JLyxzAvq4wnjwLAyyTOYZOOqFCxfCl6GRUo3v0Ykaj9VTAVRHVmD_BAMic4-Th3yZ_-Z-72DvOzXbt5RSuTcizHS2eB7cYi4YJXfRIeokb-VjM_nnFw_DHJGvwWyZ8z_61qbv-T/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline> .The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at *MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://www.massgeneralbrigham.org/complianceline https://secure-web.cisco.com/1OM4mcc50Qfe8k4W6OcHgaA943SBzfkdd7bNh8ZqMDtb9_jvuilZRW1dV7MlF5scCEeXVv8QQ278LnqqhoaSlRhSgv4-5LzZMq5hrd1bVpaFitwDoruFqqiM6aOS1l4Xa3jkj6p1-khEqDPxGMqRcD6Ey49IrdAXAp6YurpvRscxOQfSram7PnlPjtf5TwrZdjiyzyXiMajP4C4Lprj1dbV9Vmm-c452TpexgWjd_tZMmSXRXhK0AJsrClQQmGoo-IKNQj3fJc6V87HUt4YB-QZmZzmpx4GOdIIb-7lJzwcp0TxenxikM5p9_slsXKiVJQoY5xbSapkreoCsd45h2Sg/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline .
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