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Replace REFERENCES section by proper bibliography cell
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},
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"source": [
"# 1. INTRODUCTION\n",
"\n",
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"cell_type": "markdown",
"metadata": {},
"source": [
"# REFERENCES\n",
"\n",
"Badhiwala JH, Ahuja CS, Akbar MA, Witiw CD, Nassiri F, Furlan JC, Curt A, Wilson JR, Fehlings MG. 2020. Degenerative cervical myelopathy - update and future directions. Nat Rev Neurol 16:108–124.\n",
"\n",
"Bédard S. 2023. Contrast-agnostic segmentation of the spinal cord using deep learning.\n",
"\n",
"Bédard S, Cohen-Adad J. 2022. Automatic measure and normalization of spinal cord cross-sectional area using the pontomedullary junction. Frontiers in Neuroimaging 1:43.\n",
"\n",
"Cohen-Adad J, Alonso-Ortiz E, Abramovic M, Arneitz C, Atcheson N, Barlow L, Barry RL, Barth M, Battiston M, Büchel C, Budde M, Callot V, Combes AJE, De Leener B, Descoteaux M, de Sousa PL, Dostál M, Doyon J, Dvorak A, Eippert F, Epperson KR, Epperson KS, Freund P, Finsterbusch J, Foias A, Fratini M, Fukunaga I, Gandini Wheeler-Kingshott CAM, Germani G, Gilbert G, Giove F, Gros C, Grussu F, Hagiwara A, Henry P-G, Horák T, Hori M, Joers J, Kamiya K, Karbasforoushan H, Keřkovský M, Khatibi A, Kim J-W, Kinany N, Kitzler HH, Kolind S, Kong Y, Kudlička P, Kuntke P, Kurniawan ND, Kusmia S, Labounek R, Laganà MM, Laule C, Law CS, Lenglet C, Leutritz T, Liu Y, Llufriu S, Mackey S, Martinez-Heras E, Mattera L, Nestrasil I, O’Grady KP, Papinutto N, Papp D, Pareto D, Parrish TB, Pichiecchio A, Prados F, Rovira À, Ruitenberg MJ, Samson RS, Savini G, Seif M, Seifert AC, Smith AK, Smith SA, Smith ZA, Solana E, Suzuki Y, Tackley G, Tinnermann A, Valošek J, Van De Ville D, Yiannakas MC, Weber KA II, Weiskopf N, Wise RG, Wyss PO, Xu J. 2021a. Open-access quantitative MRI data of the spinal cord and reproducibility across participants, sites and manufacturers. Scientific Data 8:219.\n",
"\n",
"Cohen-Adad J, Alonso-Ortiz E, Abramovic M, Arneitz C, Atcheson N, Barlow L, Barry RL, Barth M, Battiston M, Büchel C, Budde M, Callot V, Combes AJE, De Leener B, Descoteaux M, de Sousa PL, Dostál M, Doyon J, Dvorak A, Eippert F, Epperson KR, Epperson KS, Freund P, Finsterbusch J, Foias A, Fratini M, Fukunaga I, Wheeler-Kingshott CAMG, Germani G, Gilbert G, Giove F, Gros C, Grussu F, Hagiwara A, Henry P-G, Horák T, Hori M, Joers J, Kamiya K, Karbasforoushan H, Keřkovský M, Khatibi A, Kim J-W, Kinany N, Kitzler H, Kolind S, Kong Y, Kudlička P, Kuntke P, Kurniawan ND, Kusmia S, Labounek R, Laganà MM, Laule C, Law CS, Lenglet C, Leutritz T, Liu Y, Llufriu S, Mackey S, Martinez-Heras E, Mattera L, Nestrasil I, O’Grady KP, Papinutto N, Papp D, Pareto D, Parrish TB, Pichiecchio A, Prados F, Rovira À, Ruitenberg MJ, Samson RS, Savini G, Seif M, Seifert AC, Smith AK, Smith SA, Smith ZA, Solana E, Suzuki Y, Tackley G, Tinnermann A, Valošek J, Van De Ville D, Yiannakas MC, Weber KA, Weiskopf N, Wise RG, Wyss PO, Xu J. 2021b. Generic acquisition protocol for quantitative MRI of the spinal cord. Nat Protoc 16:4611–4632.\n",
"\n",
"David G, Mohammadi S, Martin AR, Cohen-Adad J, Weiskopf N, Thompson A, Freund P. 2019. Traumatic and nontraumatic spinal cord injury: pathological insights from neuroimaging. Nat Rev Neurol 15:718–731.\n",
"\n",
"De Leener B, Fonov VS, Collins DL, Callot V, Stikov N, Cohen-Adad J. 2018. PAM50: Unbiased multimodal template of the brainstem and spinal cord aligned with the ICBM152 space. Neuroimage 165:170–179.\n",
"\n",
"De Leener B, Lévy S, Dupont SM, Fonov VS, Stikov N, Louis Collins D, Callot V, Cohen-Adad J. 2017. SCT: Spinal Cord Toolbox, an open-source software for processing spinal cord MRI data. Neuroimage 145:24–43.\n",
"\n",
"El Mendili MM, Verschueren A, Ranjeva J-P, Guye M, Attarian S, Zaaraoui W, Grapperon A-M. 2023. Association between brain and upper cervical spinal cord atrophy assessed by MRI and disease aggressiveness in amyotrophic lateral sclerosis. Neuroradiology. doi:10.1007/s00234-023-03191-0\n",
"\n",
"Engl C, Schmidt P, Arsic M, Boucard CC, Biberacher V, Röttinger M, Etgen T, Nunnemann S, Koutsouleris N, Reiser M, Meisenzahl EM, Mühlau M. 2013. Brain size and white matter content of cerebrospinal tracts determine the upper cervical cord area: evidence from structural brain MRI. Neuroradiology 55:963–970.\n",
"\n",
"Frostell A, Hakim R, Thelin EP, Mattsson P, Svensson M. 2016. A Review of the Segmental Diameter of the Healthy Human Spinal Cord. Front Neurol 7:238.\n",
"\n",
"Gorgolewski KJ, Auer T, Calhoun VD, Craddock RC, Das S, Duff EP, Flandin G, Ghosh SS, Glatard T, Halchenko YO, Handwerker DA, Hanke M, Keator D, Li X, Michael Z, Maumet C, Nichols BN, Nichols TE, Pellman J, Poline J-B, Rokem A, Schaefer G, Sochat V, Triplett W, Turner JA, Varoquaux G, Poldrack RA. 2016. The brain imaging data structure, a format for organizing and describing outputs of neuroimaging experiments. Scientific Data 3:160044.\n",
"\n",
"Gros C, De Leener B, Badji A, Maranzano J, Eden D, Dupont SM, Talbott J, Zhuoquiong R, Liu Y, Granberg T, Ouellette R, Tachibana Y, Hori M, Kamiya K, Chougar L, Stawiarz L, Hillert J, Bannier E, Kerbrat A, Edan G, Labauge P, Callot V, Pelletier J, Audoin B, Rasoanandrianina H, Brisset J-C, Valsasina P, Rocca MA, Filippi M, Bakshi R, Tauhid S, Prados F, Yiannakas M, Kearney H, Ciccarelli O, Smith S, Treaba CA, Mainero C, Lefeuvre J, Reich DS, Nair G, Auclair V, McLaren DG, Martin AR, Fehlings MG, Vahdat S, Khatibi A, Doyon J, Shepherd T, Charlson E, Narayanan S, Cohen-Adad J. 2019. Automatic segmentation of the spinal cord and intramedullary multiple sclerosis lesions with convolutional neural networks. Neuroimage 184:901–915.\n",
"\n",
"Guo S, Lin T, Wu R, Wang Z, Chen G, Liu W. 2022. The Pre-Operative Duration of Symptoms: The Most Important Predictor of Post-Operative Efficacy in Patients with Degenerative Cervical Myelopathy. Brain Sci 12. doi:10.3390/brainsci12081088\n",
"\n",
"Horáková M, Horák T, Valošek J, Rohan T, Koriťáková E, Dostál M, Kočica J, Skutil T, Keřkovský M, Kadaňka Z Jr, Bednařík P, Svátková A, Hluštík P, Bednařík J. 2022. Semi-automated detection of cervical spinal cord compression with the Spinal Cord Toolbox. Quant Imaging Med Surg 12:2261–2279.\n",
"\n",
"Horsfield MA, Sala S, Neema M, Absinta M, Bakshi A, Sormani MP, Rocca MA, Bakshi R, Filippi M. 2010. Rapid semi-automatic segmentation of the spinal cord from magnetic resonance images: Application in multiple sclerosis. Neuroimage 50:446–455.\n",
"\n",
"Kadanka Z, Adamova B, Kerkovsky M, Kadanka Z, Dusek L, Jurova B, Vlckova E, Bednarik J. 2017. Predictors of symptomatic myelopathy in degenerative cervical spinal cord compression. Brain Behav 7:e00797.\n",
"\n",
"Kato F, Yukawa Y, Suda K, Yamagata M, Ueta T. 2012. Normal morphology, age-related changes and abnormal findings of the cervical spine. Part II: magnetic resonance imaging of over 1,200 asymptomatic subjects. Eur Spine J.\n",
"\n",
"Keřkovský M, Bednařík J, Jurová B, Dušek L, Kadaňka Z, Kadaňka Z, Němec M, Kovaľová I, Šprláková-Puková A, Mechl M. 2017. Spinal Cord MR Diffusion Properties in Patients with Degenerative Cervical Cord Compression. J Neuroimaging 27:149–157.\n",
"\n",
"Kesenheimer EM, Wendebourg MJ, Weigel M, Weidensteiner C, Haas T, Richter L, Sander L, Horvath A, Barakovic M, Cattin P, Granziera C, Bieri O, Schlaeger R. 2021. Normalization of Spinal Cord Total Cross-Sectional and Gray Matter Areas as Quantified With Radially Sampled Averaged Magnetization Inversion Recovery Acquisitions. Front Neurol 12. doi:10.3389/fneur.2021.637198\n",
"\n",
"Kovalova I, Kerkovsky M, Kadanka Z, Kadanka Z, Nemec M, Jurova B, Dusek L, Jarkovsky J, Bednarik J. 2016. Prevalence and imaging characteristics of nonmyelopathic and myelopathic spondylotic cervical cord compression. Spine 41:1908–1916.\n",
"\n",
"Losseff NA, Webb SL, O’Riordan JI, Page R, Wang L, Barker GJ, Tofts PS, McDonald WI, Miller DH, Thompson AJ. 1996. Spinal cord atrophy and disability in multiple sclerosis. A new reproducible and sensitive MRI method with potential to monitor disease progression. Brain 119 ( Pt 3):701–708.\n",
"\n",
"Martin AR, De Leener B, Cohen-Adad J, Cadotte DW, Kalsi-Ryan S, Lange SF, Tetreault L, Nouri A, Crawley A, Mikulis DJ, Ginsberg H, Fehlings MG. 2017a. A novel MRI biomarker of spinal cord white matter injury: T2∗-weighted white matter to gray matter signal intensity ratio. AJNR Am J Neuroradiol 38:1266–1273.\n",
"\n",
"Martin AR, De Leener B, Cohen-Adad J, Cadotte DW, Kalsi-Ryan S, Lange SF, Tetreault L, Nouri A, Crawley A, Mikulis DJ, Ginsberg H, Fehlings MG. 2017b. Clinically Feasible Microstructural MRI to Quantify Cervical Spinal Cord Tissue Injury Using DTI, MT, and T2*-Weighted Imaging: Assessment of Normative Data and Reliability. AJNR Am J Neuroradiol 38:1257–1265.\n",
"\n",
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"\n",
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"```{bibliography}\n",
":filter: docname in docnames\n",
"```"
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],
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