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Artificial Intelligence in Digital Pathology Image Analysis

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Editorial13 April 2023
Editorial: Artificial intelligence in digital pathology image analysis
Yi Liu, Xiaoyan Liu, Hantao Zhang, Junlin Liu, 3 more and Min Tang

In the 21st century, cancer is the top cause of death in hospitals and the key limitation of life expectancy in most countries [1]. The analysis of medical images including histopathological slides, radiological images such as magnetic resonance imaging (MRI) and computerized tomography (CT), and ultrasound images, etc. is an essential tool in cancer research, disease diagnosis and treatment. Moreover, the availability of faster networks and cheaper storage solutions make these images easier to manage and share, leading to the emergence of digital images. However, extracting important information from medical images for clinical use requires a big effort from pathologists and is also error-prone due to inexperience and fatigue. Recently, Artificial intelligence (AI) such as deep learning (DL) shows clear potential to mine image features from medical images, better quantitative model disease appearance and hence possibly improve prediction of disease aggressiveness and patient outcome. The application of AI not only reduces the burden on pathologists but also saves high costs and time, thus attracting great attention.

In this editorial, we presented an account of how AI has greatly facilitated digital pathology image analysis. This editorial is based on 11 research articles, 1 regular review and a methods article, shedding light on the power of AI to analyze digital pathology images including but not limited to whole slide imaging (WSI), MRI and CT images.

Five research articles use machine learning to construct prediction models based on pathological and radiological images. Wang et al. developed an automated machine-learning framework for predicting IDH1 mutation status in glioma. In their framework, a random forest algorithm is applied to select relevant features in regions of interest (ROIs) extracted from high-resolution pathology slides and multi-sequence MRI scans. The model integrating histopathological and radiological information can predict glioma IDH genotype with greater accuracy and reliability [2]. Zhao et al. used random forest combined with hyperparameter tuning for feature selection and prediction modeling to distinguish invasive adenocarcinoma (IAC) and minimal invasive adenocarcinoma (MIA) presenting as ground-glass nodules (GGNs). The result of ROC curve showed that their model effectively distinguished IAC from MIA presenting as GGNs and represented a noninvasive, low-cost, rapid, and reproducible preoperative prediction method for clinical application [3]. In Wang et al.’s study, Mann–Whitney U test and least absolute shrinkage and selection operator (LASSO) were applied for feature preselection and radiomic signature construction based on CT. SVM-linear models were trained by incorporating the radiomic signature with clinical characteristics. Importantly, they chose the optimal model to build a nomogram that could be useful to preoperatively predict histologic grade in pancreatic neuroendocrine tumors [4]. Hu et al. also selected radiomics signatures using LASSO. The Logistic algorithm and a combinatorial modeling approach were used to establish unimodal radiomics models and multimodal radiomics models respectively based on tumors and peritumor extracted from enhanced MRI images. The radiomics signatures of the dual regions for tumor and peritumor were found to be of significance to predict microvascular invasion risk grades in hepatocellular carcinoma preoperatively [5]. Furthermore, through multivariate logistic regression analysis and statistical analysis, Luo et al. found that shear wave elastography (SWE) examination can be used as a routine auxiliary method of conventional ultrasonic examination for axillary node metastasis and the elastic modulus values of SWE had no significant correlation with the molecular types of breast cancer [1].

Several research articles focus on the application of DL in image analysis for detection, feature extraction, and tissue classification. Based on whole slide imaging, Tao et al. used DL including AlexNet, VGG-16, Inception V3, DenseNet-121, ResNet-50, and MnasNet to classify bone tumors histopathologically in terms of aggressiveness. The results showed that DL can effectively classify bone tumors similar to senior pathologists, which is promising and would help expedite the future application of DL-assisted histopathological diagnosis for bone tumors [6]. The most of traditional DL models were also applied in the study of Guo et al. for automatically detecting circulating tumor cells (CTCs) which is a critical biomarker for cancer diagnosis and prognosis based on immunofluorescence in situ hybridization (imFISH) images. Additionally, they used transfer learning to improve the prediction performance and save computing resources. Both DL and transfer learning detected CTCs with high sensitivity [7]. Xu et al. evaluated DL model for predicting tumor invasiveness of ground-glass nodules (GGNs) through analyzing time series CT images (baseline CT and 3-month follow-up CT images). They also evaluated the effect of different ROIs on prediction. The DL model integrating full ROIs that contain both tumor and peritumor regions from serial CT images showed improved predictive performance, which could benefit the clinical management of GGNs [8]. Moreover, Berberine was found to Suppress stemness and tumorigenicity of colorectal cancer stem-like cells by inhibiting m6A methylation in Zhao et al.’s study by experiment [9].

Notably, four articles proposed novel DL models to better analyze medical images based on an existing algorithm. Luan et al. proposed a neural network (S-Net) that obtained more semantic information with the introduction of an attention mechanism and long jump connection, thus effectively improving the effect of liver tumors’ automated segmentation from CT images [10]. Xu et al. built a DL core-needle biopsy (DL-CNB) model on the attention-based multiple instance-learning frameworks to predict axillary lymph node metastasis in early breast cancer utilizing the DL features, which were extracted from the cancer areas of WSIs of breast CNB specimens annotated by two pathologists. And the interpretation of DL-CNB model showed that the top signatures most predictive of ALN metastasis were characterized by the nucleus features [11]. Based on the Residual Network (ResNet) model, Liu et al. proposed a deep learning method, DeepHE. On images of tissue, DeepHE can efficiently identify and analyze characteristics of tumor cells to predict the Tumor mutational burden (TMB) avoiding whole-exome sequencing which is a standard but a costly and inefficient method to measure TMB [12]. Yang et al. proposed a novel DL framework to predict the benign and malignant thyroid nodules accurately. They first trained a ResNet18 model with an ultrasound image dataset. Gradient-weighted Class Activation Mapping (Grad-CAM) was then proposed to highlight sensitive regions, extracting the sensitive regions and analyzing their shape features. Shape features of the sensitive regions were helpful in diagnosis to a great extent [13].

Finally, the only review article summarized the process and key steps of current pathological image processing including image preprocessing, image segmentation, feature extraction and model construction, to help researchers choose more suitable medical image processing methods and predict cancer-related biomarkers more accurately [14].

In conclusion, the articles on this research topic show how AI is applied to analyze digital pathology images. For fully utilizing data from various pathological and radiological images to gain insights into disease, the applications of AI are becoming more relevant daily.

3,451 views

5 citations

Ultrasound Image Classification of Thyroid Nodules Based on Deep Learning
A thyroid nodule, which is defined as abnormal growth of thyroid cells, indicates excessive iodine intake, thyroid degeneration, inflammation and other diseases. Although thyroid nodules are always non-malignant, the malignancy likelihood of a thyroid nodule grows steadily every year. In order to reduce the burden on doctors and avoid unnecessary fine needle aspiration (FNA) and surgical resection, various studies have been done to diagnose thyroid nodule through deep-learning based image recognition analysis. In this study, to predict the benign and malignant thyroid nodules accurately, a novel deep learning framework is proposed. 508 ultrasound images were collected from the Third Hospital of Hebei Medical University in China for model training and validation. First, a ResNet18 model, pre-trained on ImageNet, was trained by ultrasound images dataset, and a random sampling of training dataset was applied ten times to avoid accidental errors. The results show that our model has a good performance, the average area under curve (AUC) of ten times is 0.997, the average accuracy is 0.984, the average recall is 0.978, the average precision is 0.939 and the average F1 score is 0.957. Second, Gradient-weighted Class Activation Mapping (Grad-CAM) was proposed to highlight sensitive regions in an ultrasound image during the learning process. Grad-CAM is able to extract the sensitive regions and analyze their shape features. Based on the results, there are obvious differences between benign and malignant thyroid nodules, therefore, shape features of the sensitive regions are helpful in diagnosis to a great extent. Overall, the proposed model demonstrated the feasibility of employing deep learning and ultrasound images to estimate benign and malignant thyroid nodules.

9,540 views

56 citations

ORIGINAL RESEARCH
24 May 2022
Prediction of Tumor Mutation Load in Colorectal Cancer Histopathological Images Based on Deep Learning
Yongguang Liu, 3 more and Wei Gao

3,365 views

19 citations

ORIGINAL RESEARCH
12 May 2022
Predictive Efficacy of a Radiomics Random Forest Model for Identifying Pathological Subtypes of Lung Adenocarcinoma Presenting as Ground-Glass Nodules
Fen-hua Zhao, 9 more and Zhao-hui Huang

3,451 views

17 citations

ORIGINAL RESEARCH
22 March 2022
Preoperative Prediction of Microvascular Invasion Risk Grades in Hepatocellular Carcinoma Based on Tumor and Peritumor Dual-Region Radiomics Signatures
Fang Hu, 7 more and Jian Wang

4,180 views

31 citations

ORIGINAL RESEARCH
16 February 2022
Circulating Tumor Cell Identification Based on Deep Learning
Zhifeng Guo, 4 more and Fanlong Kong
Circulating Tumor Cell Identification Based on Deep Learning
As a major reason for tumor metastasis, circulating tumor cell (CTC) is one of the critical biomarkers for cancer diagnosis and prognosis. One the one hand, CTC count is closely related to the prognosis of tumor patients; on the other hand, as a simple blood test with the advantages of safety, low cost and repeatability, CTC test has an important reference value in determining clinical results and studying the mechanism of drug resistance. However, the determination of CTC usually requires a big effort from pathologist and is also error-prone due to inexperience and fatigue. In this study, we developed a novel convolutional neural network method to automatically detect CTCs in patients' peripheral blood based on immunofluorescence in situ hybridization (imFISH) images. We collected the peripheral blood of 776 patients from Chifeng Municipal Hospital in China, and then used Cyttel to delete leukocytes and enrich CTCs. CTCs were identified by imFISH with CD45+, DAPI+ immunofluorescence staining and chromosome 8 centromeric probe (CEP8+). The sensitivity and specificity based on traditional CNN prediction were 95.3% and 91.7% respectively, and the sensitivity and specificity based on transfer learning were 97.2% and 94.0% respectively. The traditional CNN model and transfer learning method introduced in this paper can detect CTCs with high sensitivity, which has a certain clinical reference value for judging prognosis and diagnosing metastasis.

7,512 views

48 citations

ORIGINAL RESEARCH
17 March 2022
The Value of Shear Wave Elastography in the Diagnosis of Breast Cancer Axillary Lymph Node Metastasis and Its Correlation With Molecular Classification of Breast Masses
Changyun Luo, 4 more and Zhangshen Ran

3,417 views

15 citations

ORIGINAL RESEARCH
15 November 2021
RETRACTED: Berberine Suppresses Stemness and Tumorigenicity of Colorectal Cancer Stem-Like Cells by Inhibiting m6A Methylation
Ziyi Zhao, 9 more and Qiongying Hu
RETRACTED: Berberine Suppresses Stemness and Tumorigenicity of Colorectal Cancer Stem-Like Cells by Inhibiting m6A Methylation
Background: Cancer stem cells (CSCs) are able to survive after cancer therapies, resulting in tumor progression and recurrence, as is seen in colorectal cancer. Therapies targeting CSCs are regarded as novel and promising strategies for efficiently eradicating tumors. Berberine, an isoquinoline alkaloid extracted from the Chinese herbal medicine Coptis chinensis, was found to have antitumor activities against colorectal cancer, without knowing whether it exerts inhibitory effects on colorectal CSCs and the potential mechanisms. Methods: In this study, we examined the inhibitory roles of berberine on CSCs derived from HCT116 and HT29 by cultured in serum-free medium. We also examined the effects of berberine on m6A methylation via regulating fat mass and obesity-associated protein (FTO), by downregulating β-catenin。 Results: we examined the effects of berberine on the tumorigenicity, growth and stemness of colorectal cancer stem-like cells. The regulatory effect of berberine on N6-methyladenosine (m6A), an abundant mRNA modification, was also examined. Berberine treatment decreased cell proliferation by decreasing cyclin D1 and increasing p27 and p21 and subsequently induced cell cycle arrest at the G1/G0 phase. Berberine treatment also decreased colony formation and induced apoptosis. Berberine treatment transcriptionally increased FTO and thus decreased m6A methylation, which was reversed by both FTO knockdown and the addition of the FTO inhibitor FB23-2. Berberine-induced FTO-related decreases in stemness in HCT116 and HT29 CSCs. Berberine treatment also increased chemosensitivity in CSCs and promoted chemotherapy agent-induced apoptosis. Moreover, we also found that berberine treatment increased FTO by decreasing β-catenin, which is a negative regulator of FTO. Conclusions: Our observation that berberine effectively decreased m6A methylation by decreasing β-catenin and subsequently increasing FTO suggests a role of berberine in modulating stemness and malignant behaviors in colorectal CSCs.

7,712 views

49 citations

Evaluating Cancer-Related Biomarkers Based on Pathological Images: A Systematic Review
REVIEW
10 November 2021
Evaluating Cancer-Related Biomarkers Based on Pathological Images: A Systematic Review
Xiaoliang Xie, 9 more and Xiaoli Shi

7,225 views

82 citations

Predicting Axillary Lymph Node Metastasis in Early Breast Cancer Using Deep Learning on Primary Tumor Biopsy Slides
ORIGINAL RESEARCH
14 October 2021
Predicting Axillary Lymph Node Metastasis in Early Breast Cancer Using Deep Learning on Primary Tumor Biopsy Slides
Feng Xu, 8 more and Mulan Jin

17,804 views

101 citations

ORIGINAL RESEARCH
6 October 2021
Qualitative Histopathological Classification of Primary Bone Tumors Using Deep Learning: A Pilot Study
Yuzhang Tao, 17 more and Jian Zhang

5,335 views

18 citations

4,195 views

17 citations