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Citations

Citations

HyperASHS

If you use HyperASHS, please cite:

Li Y, Khandelwal P, Jena R, Xie L, Duong MT, Denning AE, Brown CA, Wisse LEM, Das SR, Wolk DA, Yushkevich PA. Achieving detailed medial temporal lobe segmentation with upsampled isotropic training from implicit neural representation. NeuroImage 342:122294, 2026. doi:10.1016/j.neuroimage.2026.122294 · PubMed 42880559

@article{li2026hyperashs,
  title   = {Achieving detailed medial temporal lobe segmentation with upsampled
             isotropic training from implicit neural representation},
  author  = {Li, Yue and Khandelwal, Pulkit and Jena, Rohit and Xie, Long and
             Duong, Michael Tran and Denning, Amanda E. and Brown, Christopher A. and
             Wisse, Laura E. M. and Das, Sandhitsu R. and Wolk, David A. and
             Yushkevich, Paul A.},
  journal = {NeuroImage},
  volume  = {342},
  pages   = {122294},
  year    = {2026},
  doi     = {10.1016/j.neuroimage.2026.122294}
}

Each HyperASHS model also lists the papers describing its segmentation protocol. Run hrashs desc <model_id> to see them, and please cite them as well:

  • PMC_Atlas and PMC_T1_Atlas: Yushkevich et al., 2015 and Xie et al., 2019 (below), and Sadeghpour N., et al. Developing an anatomically valid segmentation protocol for anterior regions of the medial temporal lobe for neurodegenerative diseases. Hippocampus 35(5):e70027, 2025.
  • HSG_Body_Atlas (HSG harmonized protocol): Daugherty A.M., Carr V., Canada K.L., et al. Harmonized Protocol for Subfield Segmentation in the Hippocampal Body on High-Resolution In Vivo MRI From the Hippocampal Subfields Group (HSG). Hippocampus 36(2):e70073, 2026. doi:10.1002/hipo.70073

ASHS Classic

Please cite this paper for the ASHS software and the UPenn PMC atlas:

  • Yushkevich PA, Pluta J, Wang H, Ding SL, Xie L, Gertje E, Mancuso L, Kliot D, Das SR and Wolk DA. Automated Volumetry and Regional Thickness Analysis of Hippocampal Subfields and Medial Temporal Cortical Structures in Mild Cognitive Impairment. Human Brain Mapping 36(1):258–287, 2015. PubMed 25181316

Please cite these papers when using the ASHS-PMC-T1 atlas:

  • Xie L, Wisse LEM, Manjón JV, Wang H, Das SR, Wolk DA, Yushkevich PA. Accounting for the Confound of Meninges in Segmenting Entorhinal and Perirhinal Cortices in T1-weighted MRI. Medical Image Computing and Computer-Assisted Intervention – MICCAI 2016, pp. 564–571. Springer International Publishing.
  • Xie L, Wisse LEM, Pluta J, de Flores R, Piskin V, Manjón JV, Wang H, Das SR, Ding SL, Wolk DA, Yushkevich PA. Automated segmentation of medial temporal lobe subregions on in vivo T1-weighted MRI in early stages of Alzheimer's disease. Human Brain Mapping 40(12):3431–3451, 2019.

Please cite this paper when using the 7T Utrecht atlas:

  • Wisse LE, Kuijf HJ, Honingh AM, Wang H, Pluta JB, Das SR, Wolk DA, Zwanenburg JJ, Yushkevich PA and Geerlings MI. Automated hippocampal subfield segmentation at 7T MRI. American Journal of Neuroradiology 37(6):1050–1057, 2016. PubMed 26846925

Additional citations

Papers describing the earlier version of ASHS (2010) and the VACIND atlas:

  • Yushkevich PA, Wang H, Pluta J, Das SR, Craige C, Avants BB, Weiner MW and Mueller S. Nearly automatic segmentation of hippocampal subfields in in vivo focal T2-weighted MRI. NeuroImage 53(4):1208–1224, 2010. PMC2939190
  • Pluta J, Yushkevich P, Das S and Wolk D. In vivo analysis of hippocampal subfield atrophy in mild cognitive impairment via semi-automatic segmentation of T2-weighted MRI. Journal of Alzheimer's Disease 31(1):85–99, 2012. PMC3391337