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Deep learning framework for comprehensive molecular and prognostic stratifications of triple-negative breast cancer

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Fundamental Research 2024年第3期4卷 678-689页

作者： Shen Zhao Chao-Yang Yan Hong Lv Jing-Cheng Yang Chao You Zi-Ang Li Ding Ma Yi Xiao Jia Hu Wen-Tao Yang Yi-Zhou Jiang Jun Xu Zhi-Ming Shao Key Laboratory of breast Cancer in Shanghai Department of Breast SurgeryFudan University Shanghai Cancer CenterShanghai 200032China Institute for AI in Medicine School of Artificial IntelligenceNanjing University of Information Science and TechnologyNanjing 210044China department of Pathology Fudan University Shanghai Cancer CenterShanghai 200032China Greater Bay Area Institute of Precision Medicine Guangzhou 511466China department of Radiology Fudan University Shanghai Cancer CenterShanghai 200032China

Triple-negative breast cancer(TNBC)is the most challenging breast cancer *** stratification and target therapy bring clinical benefit for TNBC patients,but it is difficult to implement comprehensive molecular testing in clinical ***,using our multi-omics TNBC cohort(N=425),a deep learning-based framework was devised and validated for comprehensive predictions of molecular features,subtypes and prognosis from pathological whole slide *** framework first incorporated a neural network to decompose the tissue on WSIs,followed by a second one which was trained based on certain tissue types for predicting different ***-omics molecular features were analyzed including somatic mutations,copy number alterations,germline mutations,biological pathway activities,metabolomics features and immunotherapy *** was shown that the molecular features with therapeutic implications can be predicted including the somatic PIK3CA mutation,germline BRCA2 mutation and PD-L1 protein expression(area under the curve[AUC]:0.78,0.79 and 0.74 respectively).The molecular subtypes of TNBC can be identified(AUC:0.84,0.85,0.93 and 0.73 for the basal-like immune-suppressed,immunomodulatory,luminal androgen receptor,and mesenchymal-like subtypes respectively)and their distinctive morphological patterns were revealed,which provided novel insights into the heterogeneity of TNBC.A neural network integrating image features and clinical covariates stratified patients into groups with different survival outcomes(log-rank P<0.001).Our prediction framework and neural network models were externally validated on the TNBC cases from TCGA(N=143)and appeared robust to the changes in patient *** potential clinical translation,we built a novel online platform,where we modularized and deployed our framework along with the validated *** can realize real-time one-stop prediction for new *** summary,using only pathological WSIs,our proposed framework

关键词： Triple-negative breast cancer Deep learning Digital pathology Patient stratification Online platform

LncRNA ZFPM2-AS1 promotes phyllodes tumor progression by binding to CDC42 and inhibiting STAT1 activation

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Acta Pharmaceutica Sinica B 2024年第7期14卷 2942-2958页

作者： Shishi He Guowei Huang Rong Lei Rurong Jia Zhanghai He Jiewen Chen Hongyan Huang Zixian Huang Ailifeire Yilihamu Xun Li Zilin Zhuang Mengjia Han Xueman Chen Di Huang Yan Nie Guangdong Provincial Key Laboratory of Malignant Tumor Epigenetics and Gene Regulation Guangdong-Hong Kong Joint Laboratory for RNA MedicineMedical Research CenterSun Yat-sen Memorial HospitalSun Yat-sen UniversityGuangzhou 510120China breast Tumor Center Sun Yat-sen Memorial HospitalSun Yat-sen UniversityGuangzhou 510120China department of Pathology Shantou University Medical CollegeShantou 515041China School of Basic Medical Science Southern Medical UniversityGuangzhou 510515China department of Pathology Sun Yat-sen Memorial HospitalSun Yat-sen UniversityGuangzhou 510120China department of breast Medicine Affiliated Foshan Maternity and Child Healthcare HospitalSouthern Medical UniversityFoshan 528000China department of breast surgery Zhujiang HospitalSouthern Medical UniversityGuangzhou 510282China department of Oral and Maxillofacial surgery Sun Yat-sen Memorial HospitalSun Yat-sen UniversityGuangzhou 510120China

breast phyllodes tumor(PT)is a rare fibroepithelial neoplasm with potential malignant *** non-coding RNAs(lncRNAs)play multifaceted roles in various cancers,but their involvement in breast PT remains largely *** this study,microarray was leveraged for the first time to investigate the role of lncRNA in *** identified lncRNA ZFPM2-AS1 was significantly upregulated in malignant PT,and its overexpression endowed PT with high tumor grade and adverse ***,we elucidated that ZFPM2-AS1 promotes the proliferation,migration,and invasion of malignant PT in *** ZFPM2-AS1 through nanomaterial-mediated siRNA delivery in patient-derived xenograft(PDX)model could effectively inhibit tumor progression in ***,our findings showed that ZFPM2-AS1 is competitively bound to CDC42,inhibiting ACK1 and STAT1 activation,thereby launching the transcription of *** conclusion,our study provides evidence that ZFPM2-AS1 plays a pivotal role in the pathogenesis of breast PT,and suggests that ZFPM2-AS1 could serve as a prognostic indicator for patients with PT as well as a promising novel therapeutic target.

关键词： LncRNA Phyllodes tumor ZFPM2-AS1 Cell division cycle 42 Activated cdc42 kinase 1 Signal transducer and activator of transcription 1 TNF receptor superfamily member 19 Nano particles

Granulomatous mastitis in a 50-year-old male:A case report and review of literature

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World Journal of Clinical Cases 2024年第2期12卷 451-459页

作者： Le-Yin Cui Chen-Ping Sun Yun-Yuan Li Sheng Liu department of breast surgery Longhua Hospital Shanghai University of Traditional Chinese MedicineShanghai 200032China department of Pathology Longhua Hospital Shanghai University of Traditional Chinese MedicineShanghai 200032China Graduate School Shanghai University of Traditional Chinese MedicineShanghai 201203China

BACKGROUND Granulomatous mastitis(GM)an inflammatory disease of the breast that usually affects women of childbearing age,occurs very rarely in *** SUMMARY We present a case study of a 50-year-old male patient with *** patient developed a breast lump following the cleaning of a previously embedded dirtfilled *** an initial improvement was noted with antibiotic therapy,a recurrence occurred a year later,showing resistance to the previously effective ***,the lesion was *** histopathological examination confirmed the diagnosis of *** GM should be considered a possible diagnosis of male breast masses.

关键词： Granulomatous mastitis Male Pathology Differential diagnosis Case report

Chronic infectious unilateral giant thyroid cyst related to diabetes mellitus:A case report

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World Journal of Clinical Cases 2024年第8期12卷 1497-1503页

作者： Jiang-Bo Liu Shi-Lei Zhang Wen-Long Jiang Hai-Kuan Sun Hao-Chen Yang department of Thyroid and breast surgery The First Affiliated HospitalCollege of Clinical MedicineHenan University of Science and TechnologyLuoyang 471000Henan ProvinceChina Clinical Medicine School The First Clinical CollegeChongqing Medical UniversityChongqing 400016China

BACKGROUND Patients rarely develop complicated infections in thyroid ***,we describe a patient with chronic infected unilateral giant thyroid cyst related to diabetes mellitus(DM).CASE SUMMARY A 66-year-old male was admitted due to an evident neck lump for 5 d after approximately 40 years of gradually progressive neck mass and 7 years of *** ultrasound and computed tomography scan showed a giant lump in the left thyroid gland *** was diagnosed with a large thyroid nodule complicated by tracheal dislocation and had surgical *** exploration revealed evident inflammatory edema and exudation between the left anterior neck muscles,the nodule and glandular ***,inflammatory lesions did not affect major neck ***,a left partial thyroidectomy was *** observation showed that the cystic thyroid mass consisted of extensive cystic wall calcification and was rich in massive rough sand-like calculi content and purulent *** pathology confirmed benign thyroid cyst with chronic *** The progression of this chronic infectious unilateral giant thyroid cyst may have been related to DM,and identifying blood vessels involvement can prevent serious complications during operation.

关键词： Thyroid nodule Infection Diabetes mellitus surgery Case report

Regulable toehold lock for the effective control of strand displacement reaction sequence and circuit leakage

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Chinese Chemical Letters 2024年第7期35卷 372-376页

作者： Kuangdi Luo Yang Qin Xuehao Zhang Hanxu Ji Heao Zhang Jiangtian Li Xianjin Xiao Xinyu Wang department of breast surgery Second Hospital of Jilin UniversityChangchun 130041China Institute of Reproductive Health Tongji Medical CollegeHuazhong University of Science and TechnologyWuhan 430030China department of Laboratory Medicine Tongji HospitalTongji Medical CollegeHuazhong University of Science and TechnologyWuhan 430030China department of Pancreatic surgery Union HospitalTongji Medical CollegeHuazhong University of Science and TechnologyWuhan 430030China School of Life Science and Technology Wuhan Polytechnic UniversityWuhan 430023China

Strand displacement reaction enables the construction of enzyme-free DNA reaction networks,thus has been widely applied to DNA circuit and *** has the characteristics of high efficiency,universality and ***,the existing regulation tools cannot enable effective control of the reaction sequence,which undoubtedly limits the construction of complex nucleic acid ***,we developed a regulation tool,toehold lock,and achieved strict control of reaction sequence without loss of the main reaction signal ***,we applied the tool to scenarios such as seesaw circuits,AND/OR logic gates,and entropy-driven circuits,and respectively demonstrated its significant superiority compared to the original *** believe that the proposed toehold lock has greatly optimized the efficiency of DNA strand displacement-based networks,and we anticipate that the tool will be widely used in multiple fields.

关键词： DNA circuit Toehold lock DNA strand displacement Reaction sequence Seesaw circuit

Effects of extracellular vesicle-derived noncoding RNAs on pre-metastatic niche and tumor progression

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Genes & Diseases 2024年第1期11卷 176-188页

作者： Zhuang Chen Qiming Wang Jinbo Liu Wenkang Wang Weitang Yuan Yang Liu Zhenqiang Sun Chengzeng Wang department of Colorectal surgery The First Affiliated Hospital of Zhengzhou UniversityZhengzhouHenan 450052China Academy of Medical Sciences of Zhengzhou University ZhengzhouHenan 450001China department of Internal Medicine Affiliated Cancer Hospital of Zhengzhou UniversityHenan Cancer HospitalZhengzhouHenan 450008China department of breast surgery The First Affliated Hospital of Zhengzhou UniversityZhengzhouHenan 450052China department of Radiotherapy Affiliated Cancer Hospital of Zhengzhou UniversityHenan Cancer HospitalZhengzhouHenan 450008China The First Affiliated Hospital of Zhengzhou University ZhengzhouHenan 450052China

A pre-metastatic niche(PMN)is a protective microenvironment that facilitates the colonization of disseminating tumor cells in future metastatic *** vesicles(EVs)play a role in intercellular communication by delivering cargoes,such as noncoding RNAs(ncRNAs).The pivotal role of extracellular vesicle-derived noncoding RNAs(EV-ncRNAs)in the PMN has attracted increasing *** this review,we summarized the effects of EV-ncRNAs on the PMN in terms of immunosuppression,vascular permeability and angiogenesis,inflammation,metabolic reprogramming,and fibroblast *** particular,we provided a comprehensive overview of the effects of EV-ncRNAs on the PMN in different ***,we discussed the promising clinical applications of EV-ncRNAs,including their potential as diagnostic and prognostic markers and therapeutic targets.

关键词： Biomarker Extracellular vesicles Noncoding RNAs

Correction: Long non-coding RNA LINC02163 accelerates malignant tumor behaviors in breast cancer by regulating the microRNA-511-3p/HMGA2 axis as a competing endogenous RNA

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Oncology Research 2024年第9期32卷 1517-1522页

作者： CHENGLIN QIN LINFANG JIN JIA LI WENZHANG ZHA HUIMING DING XIAORONG LIU XUN ZHU department of Thyroid and breast surgery The Second Affiliated Hospital of Soochow UniversitySuzhouJiangsu 215000China department of General surgery The Fourth Affiliated Hospital of Nantong Medical CollegeYancheng City No.1 People’s HospitalYanchengJiangsu 224001China department of Pathology Affiliated Hospital of Jiangnan University(Wuxi Fourth People’s Hospital)WuxiJiangsu 214062China department of General surgery Affiliated Hospital of Nantong UniversityNantongJiangsu 226001China department of General surgery The Second Affiliated Hospital of Jiaxing UniversityJiaxingZhejiang 314000China

In the article“Long non-coding RNA LINC02163 accelerates malignant tumor behaviors in breast cancer by regulating the microRNA-511-3p/HMGA2 axis as a competing endogenous RNA”(Oncology Research,2020,Vol.28,No.5,pp.483–***:10.3727/096504020X15928179818438),there was an error in the processing of *** further confirm our observation,we repeated multiple experiments involving in this study,including Flow Cytometry,Transwell Cell Migration and Invasion Assays,Xenograft Tumor Model,and Western *** have revised the figures to correct these *** versions of the Figs.2,4,5,6,and 7 are *** corrections do not change any results or conclusion of the *** apologize for any inconvenience caused.

关键词： HMGA2 endogenous breast

Identification and validation of a new prognostic signature based on cancer-associated fibroblast-driven genes in breast cancer

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World Journal of Clinical Cases 2024年第4期12卷 700-720页

作者： Zi-Zheng Wu Yuan-Jun Wei Tong Li Jie Zheng Yin-Feng Liu Meng Han Diagnosis and Treatment Center The First Hospital of QinhuangdaoQinhuangdao 066000Hebei ProvinceChina department of General surgery Hebei Medical UniversityShijiazhuang 050000Hebei ProvinceChina breast Disease Diagnosis and Treatment Center The First Hospital of QinhuangdaoHebei Medical UniversityQinhuangdao 066000Hebei ProvinceChina breast Disease Diagnosis and Treatment Center Chengde Medical CollegeChengde 067000Hebei ProvinceChina

BACKGROUND breast cancer(BC),a leading malignant disease,affects women all over the *** associated fibroblasts(CAFs)stimulate epithelial-mesenchymal transition,and induce chemoresistance and *** To establish a CAFs-associated prognostic signature to improve BC patient out-come *** We retrieved the transcript profile and clinical data of 1072 BC samples from The Cancer Genome Atlas(TCGA)databases,and 3661 BC samples from the The Gene Expression *** and immune cell infiltrations were quantified using CIBERSORT ***-associated gene identification was done by weighted gene co-expression network analysis.A CAF risk signature was established via univariate,least absolute shrinkage and selection operator regression,and mul-tivariate Cox regression *** receiver operating characteristic(ROC)and Kaplan-Meier curves were employed to evaluate the predictability of the ***,a nomogram was developed with the risk score and patient clinical *** Spearman's correlations analysis,the relationship between CAF risk score and gene set enrichment scores were *** samples were collected to validate gene expression by quantitative real-time polymerase chain reaction(qRT-PCR).RESULTS Employing an 8-gene(IL18,MYD88,GLIPR1,TNN,BHLHE41,DNAJB5,FKBP14,and XG)signature,we attemp-ted to estimate BC patient *** on our analysis,high-risk patients exhibited worse outcomes than low-risk *** analysis revealed the risk score as an independent indicator of BC patient *** analysis exhibited satisfactory nomogram *** area under the curve showed 0.805 at 3 years,and 0.801 at 5 years in the TCGA *** also demonstrated that a reduced CAF risk score was strongly associated with enhanced chemotherapeutic *** risk score was significantly correlated with most hallmark gene ***,the prognostic signature were further validated by qRT-

关键词： breast cancer Prognosis Gene signature The Cancer Genome Atlas The Gene Expression Omnibus

Influence of transcatheter arterial embolization on symptom distress and fatigue in liver cancer patients

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World Journal of Gastrointestinal Oncology 2024年第3期16卷 810-818页

作者： Xu-Min Yang Xu-Yan Yang Xin-Yu Wang Yue-Xia Gu department of Nursing The First Affiliated Hospital of Naval Medical University(Changhai Hospital)Shanghai 200433China department of Thyroid Breast and Vascular SurgeryShanghai Fourth People’s Hospital Affiliated to Tongji University School of MedicineShanghai 200434China department of Nursing Shanghai Fourth People’s Hospital Affiliated to Tongji University School of MedicineShanghai 200434China

BACKGROUND Hepatocellular carcinoma(HCC)is a prevalent malignancy,and transcatheter arterial embolization(TAE)has emerged as a pivotal therapeutic ***-ever,TAE may induce symptom distress and fatigue,adversely affecting the quality of life of *** To investigate symptom distress,fatigue,and associated factors in HCC patients undergoing *** We used a cross-sectional design and purposive sampling to enroll HCC patients who underwent TAE at our institution from January to December ***-naires were utilized to collect data on symptom distress and fatigue scores from the first to the third day after *** Our study revealed a significant reduction in fatigue and symptom distress among patients after ***,fatigue,insomnia,fever and abdominal dis-tension were the most common symptoms troubling patients during the first 3 d *** status,presence of family support,physical functional status,age,and symptom distress were identified as predictors of fatigue in *** Healthcare professionals should educate HCC patients on symptom distress and INTRODUCTION Hepatocellular carcinoma(HCC)ranks as the fifth most prevalent cancer and the third leading cause of cancer-related mortality *** intervention remains the cornerstone of HCC treatment;however,due to the challenges associated with early diagnosis and the lack of specific diagnostic markers,a considerable proportion of patients are diagnosed at advanced stages,rendering them ineligible for surgical *** arterial embolization(TAE)is an interventional therapeutic approach involving the insertion of a fine catheter via the femoral artery to reach the vasculature near the tumor *** aims to obstruct the arterial supply to the tumor by deploying embolic agents,thereby inducing necrosis in cancer *** procedure is suitable for patients with good liver function and overall health,particularly those with large HCCs that ha

关键词： Transcatheter arterial embolization Fatigue Symptom distress Hepatocellular carcinoma Influencing factors