Abstract
This paper reviews guidelines on how medical imaging analysis can be enhanced by Artificial Intelligence (AI) and Machine Learning (ML). In addition to outlining current and potential future developments, we also provide background information on chemical imaging and discuss the advantages of Explainable AI. We hypothesize that it is a matter of AI to find an invariably recurring parameter that has escaped human attention (e.g. due to noisy data). There is great potential in AI to illuminate the feature space of successful models.
We thank the organization CNPQ (Brazilian National Council for Scientific and Technological Development). This entity provided support that was invaluable to our research.
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References
Amoroso, N., et al.: Brain structural connectivity atrophy in Alzheimer’s disease. arXiv (2017)
Arel, I., Rose, D.C., Karnowski, T.P.: Deep machine learning - a new frontier in artificial intelligence research - research frontier. IEEE Comput. Intell. Mag. 5, 4 (2010). https://doi.org/10.1109/MCI.2010.938364
Bach, S., Binder, A., Montavon, G., Klauschen, F., Müller, K.R., Samek, W.: On pixel-wise explanations for non-linear classifier decisions by layer-wise relevance propagation. PloS one 10(7), e0130140 (2015)
Bartelle, B.B., Barandov, A., Jasanoff, A.: Molecular fMRI. J. Neurosci. 36(15), 4139–4148 (2016)
Baxt, W.G.: Use of an artificial neural network for the diagnosis of myocardial infarction. Ann. Intern. Med. 115, 11 (1991)
Bishop, C.M.: Pattern Recognition and Machine Learning. Springer, Heidelberg (2006)
Breiman, L.: Random forests. Mach. Learn. 45, 1 (2001). https://doi.org/10.1023/A:1010933404324
Bult, C.J.: Mouse tumor biology (MTB): a database of mouse models for human cancer. Nucleic Acids Res. 43, D818–D824 (2014). https://doi.org/10.1093/nar/gku987
Calhoun, V.D., Sui, J.: Multimodal fusion of brain imaging data: a key to finding the missing link(s) in complex mental illness. Biol. Psychiatry Cogn. Neurosci. Neuroimaging 1(3), 230–244 (2016)
Daffner, K.: Current approaches to the clinical diagnosis of Alzheimer’s disease. In: Scinto, L.F.M., Daffner, K.R. (eds.) Early Diagnosis of Alzheimer’s Disease. Current Clinical Neurology, pp. 29–64. Humana Press, Totowa (2000). https://doi.org/10.1007/978-1-59259-005-6_2
Furey, T.S., Cristianini, N., Duffy, N., Bednarski, D.W., Schummer, M., Haussler, D.: Support vector machine classification and validation of cancer tissue samples using microarray expression data. Bioinformatics 16, 10 (2000)
Gardiner, S.L., van Belzen, M.J., Boogaard, M.W., et al.: Huntingtin gene repeat size variations affect risk of lifetime depression. Transl. Psychiatry 7, 1277 (2017). https://doi.org/10.1038/s41398-017-0042-1
Gilpin, L.H., Bau, D., Yuan, B.Z., Bajwa, A., Specter, M., Kagal, L.: Explaining explanations: an overview of interpretability of machine learning. arXiv preprint arXiv:1806.00069 (2018)
Goodfellow, I., Bengio, Y., Courville, A.: Deep Learning. MIT Press, Cambridge (2016)
Greenspan, H., Van Ginneken, B., Summers, R.M.: Guest editorial deep learning in medical imaging: overview and future promise of an exciting new technique. IEEE Trans. Med. Imaging 35, 5 (2016)
Gupta, A., Ayhan, M., Maida, A.: In natural image bases to represent neuroimaging data. In: International Conference on Machine Learning, pp. 987–994 (2013)
Hadzi, T.C., et al.: Assessment of cortical and striatal involvement in 523 Huntington disease brains. Neurology 79, 1708–1715 (2012)
He, K., Zhang, X., Ren, S., Sun, J.: Delving deep into rectifiers: surpassing human-level performance on ImageNet classification. In: Proceedings of the IEEE International Conference on Computer Vision, pp. 1026–1034 (2015)
Heim, B., et al.: Magnetic resonance imaging for the diagnosis of Parkinson’s disease. J. Neural Transm. 124, 8 (2017)
Holzinger, A.: Introduction to machine learning and knowledge extraction (make). Mach. Learn. Knowl. Extr. 1(1), 1–20 (2017)
Holzinger, A., et al.: Machine learning and knowledge extraction in digital pathology needs an integrative approach. In: Holzinger, A., Goebel, R., Ferri, M., Palade, V. (eds.) Towards Integrative Machine Learning and Knowledge Extraction. LNCS (LNAI), vol. 10344, pp. 13–50. Springer, Cham (2017). https://doi.org/10.1007/978-3-319-69775-8_2
Holzinger, A., Carrington, A., Müller, H.: Measuring the quality of explanations: The system causability scale (scs). Comparing human and machine explanations. KI - Künstliche Intelligenz (German J. Artif. Intell.). Special Issue on Interactive Machine Learning, Edited by Kristian Kersting, TU Darmstadt 34(2) (2020). https://doi.org/10.1007/s13218-020-00636-z
Holzinger, A., Goebel, R., Palade, V., Ferri, M.: Towards integrative machine learning and knowledge extraction. In: Holzinger, A., Goebel, R., Ferri, M., Palade, V. (eds.) Towards Integrative Machine Learning and Knowledge Extraction. LNCS (LNAI), vol. 10344, pp. 1–12. Springer, Cham (2017). https://doi.org/10.1007/978-3-319-69775-8_1
Holzinger, A., Kieseberg, P., Weippl, E., Tjoa, A.M.: Current advances, trends and challenges of machine learning and knowledge extraction: from machine learning to explainable AI. In: Holzinger, A., Kieseberg, P., Tjoa, A.M., Weippl, E. (eds.) CD-MAKE 2018. LNCS, vol. 11015, pp. 1–8. Springer, Cham (2018). https://doi.org/10.1007/978-3-319-99740-7_1
Holzinger, A., Langs, G., Denk, H., Zatloukal, K., Mueller, H.: Causability and explainability of artificial intelligence in medicine. Wiley Interdisc. Rev. Data Min. Knowl. Disc. 9(4), e1312 (2019). https://doi.org/10.1002/widm.1312
Hyder, F., Rothman, D.: Advances in imaging brain metabolism. Ann. Rev. Biomed. Eng. 19, 485–515 (2017)
Jeanquartier, F., et al.: Machine learning for in silico modeling of tumor growth. In: Holzinger, A. (ed.) Machine Learning for Health Informatics. LNCS (LNAI), vol. 9605, pp. 415–434. Springer, Cham (2016). https://doi.org/10.1007/978-3-319-50478-0_21
Jeanquartier, F., Jean-Quartier, C., Schreck, T., Cemernek, D., Holzinger, A.: Integrating open data on cancer in support to tumor growth analysis. In: Renda, M.E., Bursa, M., Holzinger, A., Khuri, S. (eds.) ITBAM 2016. LNCS, vol. 9832, pp. 49–66. Springer, Cham (2016). https://doi.org/10.1007/978-3-319-43949-5_4
Job, D.E., et al.: A brain imaging repository of normal structural MRI across the life course: brain images of normal subjects (brains). NeuroImage 144, 299–304 (2017)
Klein, M., et al.: Brain imaging genetics in ADHD and beyond- mapping pathways from gene to disorder at different levels of complexity. Neurosci. Biobehav. Rev. 80, 115–155 (2017). https://doi.org/10.1016/j.neubiorev.2017.01.013
Klöppel, S., Abdulkadir, A., Jack, C.R., Koutsouleris, N., Mourāo-Miranda, J., Vemuri, P.: Diagnostic neuroimaging across diseases. Neuroimage 61(2), 457–463 (2012)
Lakkaraju, H., Kamar, E., Caruana, R., Leskovec, J.: Interpretable and explorable approximations of black box models. arXiv preprint arXiv:1707.01154 (2017)
Lecun, Y., Bengio, Y., Hinton, G.: Deep learning. Nature 521, 7553 (2015). https://doi.org/10.1038/nature14539
Lee, T., Cai, L.X., Lelyveld, V.S., Hai, A., Jasanoff, A.: Molecular-level functional magnetic resonance imaging of dopaminergic signaling. Science 344(6183), 533–535 (2014)
Lemm, S., Blankertz, B., Dickhaus, T., Mueller, K.R.: Introduction to machine learning for brain imaging. Neuroimage 10(1016), 387–399 (2011)
Li, C., Sun, H., Liu, Z., Wang, M., Zheng, H., Wang, S.: Learning cross-modal deep representations for multi-modal MR image segmentation. In: Shen, D., et al. (eds.) MICCAI 2019. LNCS, vol. 11765, pp. 57–65. Springer, Cham (2019). https://doi.org/10.1007/978-3-030-32245-8_7
Marcus, D.S., Wang, T.H., Parker, J., Csernansky, J.G., Morris, J.C., Buckner, R.L.: Open access series of imaging studies (OASIS): cross-sectional mri data in young, middle aged, nondemented, and demented older adults. J. Cogn. Neurosci. 19(9), 1498–1507 (2007)
Margaritis, D.: Learning Bayesian network model structure from data. Ph.D. thesis, Carnegie-Mellon University Pittsburgh PA School Of Computer Science (2003)
Marques, J.P., et al.: Studying cyto and myeloarchitecture of the human cortex at ultra-high field with quantitative imaging: R1, R2(*) and magnetic susceptibility. Neuroimage 147, 152 (2017)
Martino, D., et al.: The differential diagnosis of Huntington’s disease-like syndromes: ‘red flags’ for the clinician. J. Neurol. Neurosurg. Psychiatry 84, 650–656 (2013)
Di Martino, A., et al.: The autism brain imaging data exchange: towards a large-scale evaluation of the intrinsic brain architecture in autism. Mol. Psychiatry 19(6), 659–667 (2014)
Mellon, E.A., Beesam, R.S., Elliott, M.A., Reddy, R.: Mapping of cerebral oxidative metabolism with MRI. Proc. Nat. Acad. Sci. 107(26), 11787–11792 (2010)
Montavon, G., Binder, A., Lapuschkin, S., Samek, W., Müller, K.-R.: Layer-wise relevance propagation: an overview. In: Samek, W., Montavon, G., Vedaldi, A., Hansen, L.K., Müller, K.-R. (eds.) Explainable AI: Interpreting, Explaining and Visualizing Deep Learning. LNCS (LNAI), vol. 11700, pp. 193–209. Springer, Cham (2019). https://doi.org/10.1007/978-3-030-28954-6_10
Mormina, E., et al.: Cerebellum and neurodegenerative diseases: beyond conventional magnetic resonance imaging. World J. Radiol. 9(10), 371–388 (2017). https://doi.org/10.4329/wjr.v9.i10.371
Nasrallah, F.A.: Imaging brain deoxyglucose uptake and metabolism by glucoCEST MRI. J. Cereb. Blood Flow Metab. 33(8), 1270–1278 (2013)
Ngen, E.J., Artemov, D.: Advances in monitoring cell-based therapies with magnetic resonance imaging: future perspectives. Int. J. Mol. Sci. 18, 1 (2017)
Ngiam, J., Khosla, A., Kim, M., Nam, J., Lee, H., Ng, A.Y.: Multimodal deep learning. In: Proceedings of the 28th International Conference on Machine Learning (ICML-2011), pp. 689–696 (2011)
Nopoulos, P.C., et al.: Cerebral cortex structure in prodromal Huntington disease. Neurobiol. Dis. 40, 544–554 (2010). https://doi.org/10.4322/acr.2018.003
Ofori, E., Du, G., Babcock, D., Huang, X., Vaillancourt, D.E.: Parkinson’s disease biomarkers program brain imaging repository. Neuroimage 124, 1120–1124 (2016). https://doi.org/10.1186/s40708-019-0096-3
O’Sullivan, S., Holzinger, A., Zatloukal, K., Saldiva, P., Sajid, M.I., Wichmann, D.: Machine learning enhanced virtual autopsy. Autops. Case Rep. 7(4), 3–7 (2017). https://doi.org/10.4322/acr.2017.037
O’Sullivan, S., Holzinger, A., Wichmann, D., Saldiva, P., Sajid, M., Zatloukal, K.: Virtual autopsy: machine learning and artificial intelligence provide new opportunities for investigating minimal tumor burden and therapy resistance by cancer patients. Autops. Case Rep. 8, 1 (2018). https://doi.org/10.4322/acr.2018.003
O’Sullivan, S., et al.: The role of artificial intelligence and machine learning in harmonization of high-resolution post-mortem MRI (virtopsy) with respect to brain microstructure. Brain Inform. 6(1), 3 (2019). https://doi.org/10.1186/s40708-019-0096-3
Pathak, D., Krahenbuhl, P., Darrell, T.: Constrained convolutional neural networks for weakly supervised segmentation. In: Proceedings of the IEEE International Conference on Computer Vision, pp. 1796–1804 (2015)
Poldrack, R.A., Gorgolewski, K.J.: Making big data open: data sharing in neuroimaging. Nature Neurosci. 17(11), 1510–1517 (2014)
Rajalingam, B., Priya, R.: Multimodal medical image fusion based on deep learning neural network for clinical treatment analysis. Int. J. Chem. Tech. Res. CODEN (USA) IJCRGG 11, 0974–4290 (2018). ISSN
Rajpurkar, P., et al.: Chexnet: radiologist-level pneumonia detection on chest x-rays with deep learning. arXiv preprint arXiv:1711.05225 (2017)
Ramachandram, D., Taylor, G.W.: Deep multimodal learning: a survey on recent advances and trends. IEEE Signal Process. Mag. 34(6), 96–108 (2017)
Ribeiro, M.T., Singh, S., Guestrin, C.: Why should i trust you?: Explaining the predictions of any classifier. In: Proceedings of the 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, pp. 1135–1144. ACM (2016)
Sawiak, S.J., Morton, A.J.: The cambridge MRI database for animal models of Huntington disease. NeuroImage 124, 1260–1262 (2016)
Sertbas, M., Ulgen, K.O.: Unlocking human brain metabolism by genome-scale and multiomics metabolic models: relevance for neurology research, health, and disease. OMICS 22(7), 455–467 (2018)
Sirinukunwattana, K., Raza, S.E.A., Tsang, Y.W., Snead, D.R., Cree, I.A., Rajpoot, N.M.: Locality sensitive deep learning for detection and classification of nuclei in routine colon cancer histology images. IEEE Trans. Med. Imaging 35, 5 (2016)
Smilkov, D., Thorat, N., Kim, B., Viégas, F., Wattenberg, M.: SmoothGrad: removing noise by adding noise. arXiv preprint arXiv:1706.03825 (2017)
Szolovits, P., Patil, R.S., Schwartz, W.B.: Artificial intelligence in medical diagnosis. Ann. Intern. Med. 108, 1 (1988)
Tabrizi, S.J., et al.: Biological and clinical manifestations of Huntington’s disease in the longitudinal TRACK-HD study: cross-sectional analysis of baseline data. Lancet Neurol. 8(9), 791–801 (2009). https://doi.org/10.1016/S1474-4422(09)70170-X
Thompson, P.M., et al.: The enigma consortium: large-scale collaborative analyses of neuroimaging and genetic data. Brain Imaging Behav. 8(2), 153–182 (2014)
Wang, J., et al.: Magnetic resonance imaging of glucose uptake and metabolism in patients with head and neck cancer. Sci. Rep. 6, 30618 (2016)
Yaneske, E., Angione, C.: The poly-omics of ageing through individual-based metabolic modelling. BMC Bioinform. 19(14), 415 (2018)
Yang, H., Rudin, C., Seltzer, M.: Scalable Bayesian rule lists. arXiv preprint arXiv:1602.08610 (2016)
Zampieri, G., Vijayakumar, S., Yaneske, E., Angione, C.: Machine and deep learning meet genome-scale metabolic modeling. PLoS Comput. Biol. 15(7), e1007084 (2019)
Zhang, X., et al.: PET/MR imaging: new frontier in Alzheimer’s disease and other dementias. Front. Mol. Neurosci. 10, 343 (2017)
Zhou, T., Ruan, S., Canu, S.: A review: deep learning for medical image segmentation using multi-modality fusion. Array 3–4, 100004 (2019)
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O’Sullivan, S. et al. (2020). Developments in AI and Machine Learning for Neuroimaging. In: Holzinger, A., Goebel, R., Mengel, M., Müller, H. (eds) Artificial Intelligence and Machine Learning for Digital Pathology. Lecture Notes in Computer Science(), vol 12090. Springer, Cham. https://doi.org/10.1007/978-3-030-50402-1_18
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