Stereology neuron counts correlate with deep learning estimates in the human hippocampal subregions.
Journal
Scientific reports
ISSN: 2045-2322
Titre abrégé: Sci Rep
Pays: England
ID NLM: 101563288
Informations de publication
Date de publication:
11 04 2023
11 04 2023
Historique:
received:
11
10
2022
accepted:
04
04
2023
medline:
13
4
2023
entrez:
11
4
2023
pubmed:
12
4
2023
Statut:
epublish
Résumé
Hippocampal subregions differ in specialization and vulnerability to cell death. Neuron death and hippocampal atrophy have been a marker for the progression of Alzheimer's disease. Relatively few studies have examined neuronal loss in the human brain using stereology. We characterize an automated high-throughput deep learning pipeline to segment hippocampal pyramidal neurons, generate pyramidal neuron estimates within the human hippocampal subfields, and relate our results to stereology neuron counts. Based on seven cases and 168 partitions, we vet deep learning parameters to segment hippocampal pyramidal neurons from the background using the open-source CellPose algorithm, and show the automated removal of false-positive segmentations. There was no difference in Dice scores between neurons segmented by the deep learning pipeline and manual segmentations (Independent Samples t-Test: t(28) = 0.33, p = 0.742). Deep-learning neuron estimates strongly correlate with manual stereological counts per subregion (Spearman's correlation (n = 9): r(7) = 0.97, p < 0.001), and for each partition individually (Spearman's correlation (n = 168): r(166) = 0.90, p <0 .001). The high-throughput deep-learning pipeline provides validation to existing standards. This deep learning approach may benefit future studies in tracking baseline and resilient healthy aging to the earliest disease progression.
Identifiants
pubmed: 37041300
doi: 10.1038/s41598-023-32903-y
pii: 10.1038/s41598-023-32903-y
pmc: PMC10090178
doi:
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Langues
eng
Sous-ensembles de citation
IM
Pagination
5884Subventions
Organisme : NIA NIH HHS
ID : R01 AG057672
Pays : United States
Organisme : NIA NIH HHS
ID : RF1 AG072056
Pays : United States
Informations de copyright
© 2023. The Author(s).
Références
J Comp Neurol. 1997 Mar 24;379(4):482-94
pubmed: 9067838
J Comp Neurol. 2013 Dec 15;521(18):4145-62
pubmed: 23839777
J Chem Neuroanat. 2019 Mar;96:94-101
pubmed: 30594529
Anat Embryol (Berl). 2005 Dec;210(5-6):343-52
pubmed: 16208455
Nat Commun. 2021 Sep 17;12(1):5519
pubmed: 34535659
Nat Rev Neurosci. 2007 Sep;8(9):663-72
pubmed: 17684513
Front Neuroanat. 2023 Feb 09;17:1114757
pubmed: 36843959
Nat Methods. 2021 Jan;18(1):100-106
pubmed: 33318659
Acta Neuropathol. 2000 May;99(5):579-82; discussion 583-4
pubmed: 10805104
Alzheimers Dement. 2012;8(2):105-13
pubmed: 22404852
Acta Neuropathol. 2022 Mar;143(3):331-348
pubmed: 34928427
Anat Rec. 1991 Dec;231(4):482-97
pubmed: 1793176
Science. 2006 Aug 25;313(5790):1093-7
pubmed: 16931756
Ann Neurol. 1997 Jan;41(1):17-24
pubmed: 9005861
Front Neuroanat. 2017 Oct 04;11:84
pubmed: 29046628
J Comp Neurol. 1990 Jun 1;296(1):1-22
pubmed: 2358525
Bipolar Disord. 2002 Apr;4(2):117-28
pubmed: 12071509
J Microsc. 1984 May;134(Pt 2):127-36
pubmed: 6737468
Cell Rep Med. 2021 Sep 23;2(9):100400
pubmed: 34622237
J Comp Neurol. 2015 Oct 15;523(15):2233-53
pubmed: 25872498
Neurobiol Aging. 1993 Jul-Aug;14(4):287-93
pubmed: 8367010
Ann Neurol. 2005 Apr;57(4):489-94
pubmed: 15786476
Arch Gen Psychiatry. 1998 May;55(5):433-40
pubmed: 9596046
Brain. 2009 Apr;132(Pt 4):1067-77
pubmed: 19251758
Neuron. 2002 Aug 15;35(4):625-41
pubmed: 12194864
PLoS One. 2019 Apr 17;14(4):e0210706
pubmed: 30995247
Bioinformatics. 2016 Nov 15;32(22):3532-3534
pubmed: 27412086
J Chem Neuroanat. 2019 Jul;98:1-7
pubmed: 30836126
J Alzheimers Dis. 2022;87(3):1379-1399
pubmed: 35491780
Brain Res. 2009 Aug 18;1285:42-57
pubmed: 19524554
Acta Neuropathol. 2006 Oct;112(4):389-404
pubmed: 16906426
Elife. 2020 Jan 24;9:
pubmed: 31976861
Front Neuroanat. 2019 Dec 17;13:98
pubmed: 31920567
Front Bioeng Biotechnol. 2020 Oct 06;8:558880
pubmed: 33117778
Sci Rep. 2019 Sep 25;9(1):13828
pubmed: 31554830
Brain Struct Funct. 2020 Apr;225(3):881-907
pubmed: 31955294
Neuroimage. 2011 Jun 1;56(3):851-7
pubmed: 21419225
J Digit Imaging. 2019 Feb;32(1):131-140
pubmed: 30066123
J Neurosci. 1996 Jul 15;16(14):4491-500
pubmed: 8699259
Rev Neurosci. 2004;15(5):333-51
pubmed: 15575490
Neurobiol Aging. 2004 Oct;25(9):1205-12
pubmed: 15312966
Behav Brain Res. 1999 Sep;103(2):123-33
pubmed: 10513581
Neuroscience. 1999;91(1):203-10
pubmed: 10336071
Int Psychogeriatr. 1997;9 Suppl 1:257-61; discussion 269-72
pubmed: 9447446
J Neuropathol Exp Neurol. 2003 Jan;62(1):55-67
pubmed: 12528818
Lancet. 1994 Sep 17;344(8925):769-72
pubmed: 7916070
Hippocampus. 2020 Jun;30(6):545-564
pubmed: 31675165
PLoS One. 2017 Jun 1;12(6):e0177544
pubmed: 28570557
N Engl J Med. 2009 May 28;360(22):2302-9
pubmed: 19474427
Brain. 2009 May;132(Pt 5):1324-34
pubmed: 19321462
BMC Bioinformatics. 2018 Oct 3;19(1):365
pubmed: 30285608
Alzheimers Dement. 2012 Jan;8(1):1-13
pubmed: 22265587
Sci Rep. 2021 Jun 3;11(1):11793
pubmed: 34083673
Acta Neuropathol Commun. 2021 Aug 21;9(1):141
pubmed: 34419154
Neurology. 1992 Sep;42(9):1681-8
pubmed: 1307688
J Neural Transm (Vienna). 1996;103(4):455-90
pubmed: 9617789
J Neuropathol Exp Neurol. 2021 Jan 20;80(2):102-111
pubmed: 33367843