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25
result(s) for
"Shi, Su-Sheng"
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Artificial intelligence in cancer: applications, challenges, and future perspectives
by
Cheng, Cillian H.
,
Shi, Su-sheng
in
Algorithms
,
Artificial intelligence
,
Artificial intelligence (AI)
2025
Artificial intelligence (AI) is rapidly revolutionizing the landscape of oncological research and the advancement of personalized clinical interventions. Progress in three interconnected areas, including the development of methods and algorithms for training AI models, the evolution of specialized computing hardware, and increased access to large volumes of cancer data such as imaging, genomics, and clinical information, has converged, leading to promising new applications of AI in cancer research. AI applications are systematically organized according to specific cancer types and clinical domains, encompassing the elucidation and prediction of biological mechanisms, the identification and utilization of patterns within clinical data to improve patient outcomes, and the unraveling of the complexities inherent in epidemiological, behavioral, and real-world datasets. When applied in an ethical and scientifically rigorous manner, these AI-driven approaches hold the promise of accelerating progress in cancer research and ultimately fostering improved health outcomes for all populations. We review examples demonstrating the integration of AI within oncology, highlighting cases where deep learning has adeptly addressed challenges once deemed insurmountable, while also discussing the barriers that must be surmounted to facilitate broader adoption of these technologies.
Journal Article
Genetic landscape of esophageal squamous cell carcinoma
Jie He and colleagues report exome sequencing of 113 tumor-normal pairs of esophageal squamous cell carcinoma. They highlight mutations in genes involved in cell cycle and apoptosis regulation, histone modifier genes and genes encoding members of the Hippo and Notch pathways.
Esophageal squamous cell carcinoma (ESCC) is one of the deadliest cancers
1
. We performed exome sequencing on 113 tumor-normal pairs, yielding a mean of 82 non-silent mutations per tumor, and 8 cell lines. The mutational profile of ESCC closely resembles those of squamous cell carcinomas of other tissues but differs from that of esophageal adenocarcinoma. Genes involved in cell cycle and apoptosis regulation were mutated in 99% of cases by somatic alterations of
TP53
(93%),
CCND1
(33%),
CDKN2A
(20%),
NFE2L2
(10%) and
RB1
(9%). Histone modifier genes were frequently mutated, including
KMT2D
(also called
MLL2
; 19%),
KMT2C
(
MLL3
; 6%),
KDM6A
(7%),
EP300
(10%) and
CREBBP
(6%).
EP300
mutations were associated with poor survival. The Hippo and Notch pathways were dysregulated by mutations in
FAT1
,
FAT2
,
FAT3
or
FAT4
(27%) or
AJUBA
(
JUB
; 7%) and
NOTCH1
,
NOTCH2
or
NOTCH3
(22%) or
FBXW7
(5%), respectively. These results define the mutational landscape of ESCC and highlight mutations in epigenetic modulators with prognostic and potentially therapeutic implications.
Journal Article
Identification of Genomic Alterations in Pancreatic Cancer Using Array-Based Comparative Genomic Hybridization
2014
Genomic aberration is a common feature of human cancers and also is one of the basic mechanisms that lead to overexpression of oncogenes and underexpression of tumor suppressor genes. Our study aims to identify frequent genomic changes in pancreatic cancer.
We used array comparative genomic hybridization (array CGH) to identify recurrent genomic alterations and validated the protein expression of selected genes by immunohistochemistry.
Sixteen gains and thirty-two losses occurred in more than 30% and 60% of the tumors, respectively. High-level amplifications at 7q21.3-q22.1 and 19q13.2 and homozygous deletions at 1p33-p32.3, 1p22.1, 1q22, 3q27.2, 6p22.3, 6p21.31, 12q13.2, 17p13.2, 17q21.31 and 22q13.1 were identified. Especially, amplification of AKT2 was detected in two carcinomas and homozygous deletion of CDKN2C in other two cases. In 15 independent validation samples, we found that AKT2 (19q13.2) and MCM7 (7q22.1) were amplified in 6 and 9 cases, and CAMTA2 (17p13.2) and PFN1 (17p13.2) were homozygously deleted in 3 and 1 cases. AKT2 and MCM7 were overexpressed, and CAMTA2 and PFN1 were underexpressed in pancreatic cancer tissues than in morphologically normal operative margin tissues. Both GISTIC and Genomic Workbench software identified 22q13.1 containing APOBEC3A and APOBEC3B as the only homozygous deletion region. And the expression levels of APOBEC3A and APOBEC3B were significantly lower in tumor tissues than in morphologically normal operative margin tissues. Further validation showed that overexpression of PSCA was significantly associated with lymph node metastasis, and overexpression of HMGA2 was significantly associated with invasive depth of pancreatic cancer.
These recurrent genomic changes may be useful for revealing the mechanism of pancreatic carcinogenesis and providing candidate biomarkers.
Journal Article
The gene mutational discrepancies between primary and paired metastatic colorectal carcinoma detected by next-generation sequencing
2018
Purpose
To better understand the gene mutational status and heterogeneity between primary and metastatic CRC (mCRC) using a sensitive sequencing method.
Methods
The mutational status of
EGFR, KRAS, NRAS, PIK3CA, ERBB2, BRAF, KIT
, and
PDGFRA
was analyzed in 65 patients, with 147 samples of primary and paired live or lung metastatic CRC, using next-generation sequencing (NGS), quantitative RT-PCR (qPCR), and Sanger sequencing.
Results
Fifteen cases (15/22, 68.2%) of lung mCRC and thirteen cases (13/20, 65%) of liver mCRC harboured the same mutation profiles of
KRAS, NRAS
, or
BRAF
in the primary lesions. To all detected genes, 11 cases (11/22, 50%) of lung mCRC and 11 cases (11/20, 55%) of liver mCRC showed different mutational genes in the primary tumours.
KRAS
and
BRAF
mutations were more frequent in lung metastatic lesions (
p
= 0.004 and 0.003, respectively). The gene mutations in
KRAS, NRAS, BRAF
, and
PIK3CA
in the lung metastatic sites were more frequent than those in the liver metastatic sites (86.7 vs. 44%, respectively,
p
= 0.000). Some new mutations were not covered in the qPCR ranges but were detected by NGS.
Conclusion
The study demonstrated that the discordance of gene mutational status between paired primary and metastatic tumours is rather high when detected by NGS. Evaluating the mutational status of both the primary and metastatic tumours should be considered in clinical mutation testing.
Journal Article
The Significant Influence of the Neuroendocrine Component on the Survival of Patients with Gastric Carcinoma Characterized by Coexisting Exocrine and Neuroendocrine Components
2019
Background. Gastric adenocarcinoma patients with a neuroendocrine (NE) component are frequently observed in routine practice. Several previous studies have investigated the influence of a NE component on the survival of these patients; however, the results were inconsistent. Methods. We retrospectively investigated a consecutive series of 95 gastric adenocarcinoma patients with a NE component and 190 gastric adenocarcinoma patients without a NE component. We adopted 10%, 20%, 30%, 40%, 50%, 60%, 70%, 80%, and 90% as the cut-off proportions of the NE component, respectively, and analyzed the patients’ overall survival according to the proportion of the NE component. Results. The 1-, 3-, and 5-year actual survival rates of the patients with a NE component were 90.1%, 72.3%, and 67.2%, respectively, and for those without a NE component 94.2%, 79.3%, and 75.7%, respectively. The multivariate analysis showed that the patients with NE components >70% (HR: 2.156; 95% CI: 1.011, 4.597; p=0.047) and >90% (HR: 2.476; 95% CI: 1.088, 5.634; p=0.031) had significantly worse survival than those without a NE component. Only the diameter of tumors (>4.64 cm) (HR: 2.585; 95% CI: 1.112, 6.006; p=0.027) and pN3 (HR: 2.953; 95% CI: 1.051, 8.293; p=0.040) were independently associated with worse overall survival for gastric adenocarcinoma patients with a NE component (all p<0.05). Conclusion. Gastric adenocarcinoma patients with a NE component >70% and >90% have significantly worse survival than those without a NE component. Only the diameter of tumors and the number of metastatic lymph nodes are independent prognostic factors for gastric adenocarcinoma patients with a NE component.
Journal Article
Clinicopathological Characteristics and Prognosis of Colorectal Cancer in Chinese Adolescent Patients
by
Feng Du Su-Sheng Shi Yong-Kun Sun Jin-Wan Wang Yihebali Chi
in
Adolescence; Colorectal Cancer; Prognosis
,
Adolescent
,
Adult
2015
Background: Colorectal adenocarcinoma rarely occurred in adolescent. Clinical feature and prognosis of this population are not clear until now. In addition, DNA mismatch repair (MMR) status may relate to the early disease occurrence. The present study aimed to perform a retrospective analysis of adolescent patients with colorectal cancer, including clinicopathological characteristics and prognosis. Methods: The medical records of 11,503 patients diagnosed as colorectal cancer in Cancer Hospital, Chinese Academy of Medical Sciences from January 1999 to December 2009 were retrospectively reviewed. Finally, 19 patients who were between 10 and 20 years old were selected as the study group. We summarized the clinicopathological characteristics, analyzed the association with prognosis and assessed the expression of MMR protein by immunohistochemical method. Results: The most common primary site was the right colon in 7 patients. Ten patients had Stage III colorectal cancer, 5 patients had Stage IV disease. Signet ring cell carcinoma was the most frequent pathological type (7/19). Deficient MMR was identified in 2 patients. The 5-year survival rate and median survival time were 23.2% and 26 months. Distant metastasis was identified as an independent prognostic factor (P = 0.02). Conclusions: Colorectal cancer in Chinese adolescents was very rare. The chinese adolecents with colorectal cancer were frequently diagnosed in the right colon, as Stage Ⅲ/Ⅳdisease with signet ring cell carcinoma. The prognosis was relatively poor.
Journal Article
Identification of Genomic Alterations in Pancreatic Cancer Using Array-Based Comparative Genomic Hybridization: e114616
2014
Background Genomic aberration is a common feature of human cancers and also is one of the basic mechanisms that lead to overexpression of oncogenes and underexpression of tumor suppressor genes. Our study aims to identify frequent genomic changes in pancreatic cancer. Materials and Methods We used array comparative genomic hybridization (array CGH) to identify recurrent genomic alterations and validated the protein expression of selected genes by immunohistochemistry. Results Sixteen gains and thirty-two losses occurred in more than 30% and 60% of the tumors, respectively. High-level amplifications at 7q21.3-q22.1 and 19q13.2 and homozygous deletions at 1p33-p32.3, 1p22.1, 1q22, 3q27.2, 6p22.3, 6p21.31, 12q13.2, 17p13.2, 17q21.31 and 22q13.1 were identified. Especially, amplification of AKT2 was detected in two carcinomas and homozygous deletion of CDKN2C in other two cases. In 15 independent validation samples, we found that AKT2 (19q13.2) and MCM7 (7q22.1) were amplified in 6 and 9 cases, and CAMTA2 (17p13.2) and PFN1 (17p13.2) were homozygously deleted in 3 and 1 cases. AKT2 and MCM7 were overexpressed, and CAMTA2 and PFN1 were underexpressed in pancreatic cancer tissues than in morphologically normal operative margin tissues. Both GISTIC and Genomic Workbench software identified 22q13.1 containing APOBEC3A and APOBEC3B as the only homozygous deletion region. And the expression levels of APOBEC3A and APOBEC3B were significantly lower in tumor tissues than in morphologically normal operative margin tissues. Further validation showed that overexpression of PSCA was significantly associated with lymph node metastasis, and overexpression of HMGA2 was significantly associated with invasive depth of pancreatic cancer. Conclusion These recurrent genomic changes may be useful for revealing the mechanism of pancreatic carcinogenesis and providing candidate biomarkers.
Journal Article
Engineering of Aromatic Naphthalene and Solvent Molecules to Optimize Chemical Prelithiation for Lithium‐Ion Batteries
2024
A cost‐effective chemical prelithiation solution, which consists of Li+, polyaromatic hydrocarbon (PAH), and solvent, is developed for a model hard carbon (HC) electrode. Naphthalene and methyl‐substituted naphthalene PAHs, namely 2‐methylnaphthalene and 1‐methylnaphthalene, are first compared. Grafting an electron‐donating methyl group onto the benzene ring can decrease electron affinity and thus reduce the redox potential, which is validated by density functional theory calculations. Ethylene glycol dimethyl ether (G1), diethylene glycol dimethyl ether, and triethylene glycol dimethyl ether solvents are then compared. The G1 solution has the highest conductivity and least steric hindrance, and thus the 1‐methylnaphthalene/G1 solution shows superior prelithiation capability. In addition, the effects of the interaction time between Li+ and 1‐methylnaphthalene in G1 solvent on the electrochemical properties of a prelithiated HC electrode are investigated. Nuclear magnetic resonance data confirm that 10‐h aging is needed to achieve a stable solution coordination state and thus optimal prelithiation efficacy. It is also found that appropriate prelithiation creates a more Li+‐conducing and robust solid‐electrolyte interphase, improving the rate capability and cycling stability of the HC electrode. This study optimizes polyaromatic hydrocarbons and solvents to develop cost‐effective and scalable chemical prelithiation recipes. The effects of the interaction time between Li metal, polyaromatic hydrocarbons, and solvent on prelithiation power are systematically investigated. An optimal recipe leads to a solid‐electrolyte interphase with a balanced organic and inorganic composition, resulting in enhanced initial Coulombic efficiency, rate capability, and cycling stability of the prelithiated electrode.
Journal Article
Association of p16 as Prognostic Factors for Oropharyngeal Cancer: Evaluation of p16 in 1470 Patients for a 16 Year Study in Northeast China
2018
Human papillomavirus (HPV) is an etiological risk factor for oropharyngeal squamous cell carcinomas (OPSCC). Our study investigates the prevalence, prognostic, and clinicopathologic features of HPV-related oropharyngeal cancer in Northeast China and elucidates the involvement of p16 in the tumorigenesis and progression of OPSCC. Specimens from 1470 OPSCC patients collected from 2000 to 2016 were analyzed using the status of HPV by polymerase chain reaction (PCR) and p16 immunohistochemistry. Overexpression of p16 was observed in 81 (5.51%) of the 1470 cases, and HPV positive was present in 78 cases (5.31%) of the 1470 cases. HPV positive and p16 overexpression have a good concordance. However, we found that the etiological fraction of HPV in cancers of the OPSCCs was obviously lower in Northeast China than other cohorts previously reported. Interestingly, nearly 89% of patients with p16 expression were smokers, and nearly 70% of patients with p16 expression had a history of alcohol. Our study also demonstrates that p16 expression is significantly associated with early stage primary OPSCCs and the patients with p16 expression tend to show better survival following surgery and radiotherapy.
Journal Article
Optimal Design of Helmholtz Muffler for Air Compressor
2020
Helmholtz muffler is widely used because of its simple structure and good noise elimination effect. In this paper, the method of installing Helmholtz muffler at the outlet of air compressor is adopted to reduce the influence of outlet pressure fluctuation noise on the pipeline system. The optimal relationship between the number of cylinders n and the installation parameter L is obtained when using standard high pressure cylinders as Helmholtz silencers. By calculating the transmission loss TL of Helmholtz mufflers under different number of standard high pressure cylinders, the results show that Helmholtz muffler has the best muffling effect at 16.17Hz, the transmission loss TL reach to 65dB, and has obvious filtering effect on low-frequency noise. At the same time, with the increase of the number of cylinders, which means that the larger the volume of Helmholtz muffler, the better the noise reduction effect.
Journal Article