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Genomic Mutations within the Host Microbiome: Adaptive Evolution or Purifying Selection Review

Jiachao Zhang,Rob Knight,

Engineering 2023, Volume 20, Issue 1,   Pages 96-102 doi: 10.1016/j.eng.2021.11.018

Abstract: More human microbiome research projects—particularly those that explore genomic mutations withinWe also explore the correlation between microbial genomic mutations and common metabolic diseases, andFinally, we discuss advances in methods and algorithms for annotating and analyzing microbial genomicmutations.

Keywords： Gut microbiota     Genomic mutations     Adaptive evolution     Purifying selection     Single-nucleotide variants    

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Identification of novel mutations in and in a family with craniofacial microsomia: evidence of digenic

Frontiers of Medicine   Pages 1006-1009 doi: 10.1007/s11684-023-1000-3

Abstract: Identification of novel mutations in and in a family with craniofacial microsomia: evidence of digenic

Keywords： family craniofacial microsomia     Identification novel mutations    

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Statistical considerations for genomic selection

Huimin KANG, Lei ZHOU, Jianfeng LIU

Frontiers of Agricultural Science and Engineering 2017, Volume 4, Issue 3,   Pages 268-278 doi: 10.15302/J-FASE-2017164

Abstract: Genomic selection is becoming increasingly important in animal and plant breeding, and is attractingthe most commonly used statistical methods and some extensions of them, i.e., ridge regression and genomicIn simulation studies where true breeding values are available, accuracy of genomic estimated breedingFactors influencing the accuracy of genomic selection include linkage disequilibrium between markersGenomic selection has been implemented in the breeding programs of dairy cattle, beef cattle, pigs and

Keywords： genomic estimated breeding value     genomic selection     linkage disequilibrium     statistical methods    

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Treatment of advanced non-small cell lung cancer with driver mutations: current applications and future

Frontiers of Medicine 2023, Volume 17, Issue 1,   Pages 18-42 doi: 10.1007/s11684-022-0976-4

Abstract: With the improved understanding of driver mutations in non-small cell lung cancer (NSCLC), expandingTherefore, this review aimed to classify the management of NSCLC with driver mutations based on the geneThirdly, we discuss the effectiveness of ICIs for NSCLC with driver mutations and the combined therapeutictreatment strategies for the new oncogenic alternations, and proposed the perspective of NSCLC with driver mutationsThis review will guide clinicians to design tailored treatments for NSCLC with driver mutations.

Keywords： non-small cell lung cancer     driver mutations     treatment strategy     resistant mechanism     immune-checkpoint    

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Characteristics of compensatory mutations in the

Shengfen Wang, Yang Zhou, Bing Zhao, Xichao Ou, Hui Xia, Yang Zheng, Yuanyuan Song, Qian Cheng, Xinyang Wang, Yanlin Zhao

Frontiers of Medicine 2020, Volume 14, Issue 1,   Pages 51-59 doi: 10.1007/s11684-019-0720-x

Abstract: with mutations and the relation between mutations and tuberculosis (TB) transmission.Twenty-nine nonsynonymous single mutations and three double mutations were identified.The mutations at locus 483 (11.3%) were predominant, and the mutations at V483G, W484G, I491V, L516PFifteen new mutations in the gene were identified.Rifampin resistance and mutations at locus 531 were significantly associated with mutations.

Keywords： tuberculosis     drug resistance     compensatory mutations     transmission    

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122-binding site polymorphism at the interleukin-1 α gene and its interaction with hepatitis B virus mutations

Du Yan, Han Xue, Pu Rui, Xie Jiaxin, Zhang Yuwei, Cao Guangwen

Frontiers of Medicine 2014, Volume 8, Issue 2,   Pages 217-226 doi: 10.1007/s11684-014-0326-2

Abstract: the IL-1A gene and its multiplicative interactions with hepatitis B virus (HBV) mutationsHBV mutations were determined by direct sequencing.Multivariate logistic regression analyses were performed to test the associations of rs3783553, mutations

Keywords： hepatocellular carcinoma (HCC)     interaction     miRNA-122-binding site     IL-1A     rs3783553     hepatitis B virus (HBV) mutations    

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GLOBAL GENOMIC PREDICTION IN HORTICULTURAL CROPS: PROMISES, PROGRESS, CHALLENGES AND OUTLOOK

Frontiers of Agricultural Science and Engineering 2021, Volume 8, Issue 2,

Abstract:

Horticultural crops are a major source of high value nutritious food, and new improved cultivars developed through breeding are required for sustainable production in the face of abiotic and biotic stresses, and to deliver novel, premium products to consumers. However, grower confidence in the performance of new germplasm, particularly across environmental variability, is important for commercial adoption and germplasm-environment matching to optimize production.

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GLOBAL GENOMIC PREDICTION IN HORTICULTURAL CROPS: PROMISES, PROGRESS, CHALLENGES AND OUTLOOK

Craig HARDNER, Satish KUMAR, Dorrie MAIN, Cameron PEACE

Frontiers of Agricultural Science and Engineering   Pages 353-355 doi: 10.15302/J-FASE-2021387

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Topological reorganization and functional alteration of distinct genomic components in gallbladder cancer

Frontiers of Medicine doi: 10.1007/s11684-023-1008-8

Abstract: Altered three-dimensional architecture of chromatin influences various genomic regulators and subsequentHowever, knowledge of the topological rearrangement of genomic hierarchical layers in cancer is largely

Keywords： 3D genome     cancer     TADs     loop     gene regulation    

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Detection of genomic signatures for pig hairlessness using high-density SNP data

Ying SU,Yi LONG,Xinjun LIAO,Huashui AI,Zhiyan ZHANG,Bin YANG,Shijun XIAO,Jianhong TANG,Wenshui XIN,Lusheng HUANG,Jun REN,Nengshui DING

Frontiers of Agricultural Science and Engineering 2014, Volume 1, Issue 4,   Pages 307-313 doi: 10.15302/J-FASE-2014039

Abstract: We conducted a genomic scan for genetically differentiated regions between hairy and hairless pigs usingA total of 38405 SNPs in 498 animals from 36 diverse breeds were used to detect genomic signatures for

Keywords： hairlessness     pig     selective sweeping    

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Distinct gene expression pattern of mutations coordinated by target repression and promoter hypermethylation

Frontiers of Medicine 2022, Volume 16, Issue 4,   Pages 627-636 doi: 10.1007/s11684-020-0815-4

Abstract: Its dysfunction, caused by either fusions or mutations, is frequently reported in acute myeloid leukemiaHowever, RUNX1 mutations have been largely under-explored compared with RUNX1 fusions mainlybased on 1741 patients with AML, we report a unique expression pattern associated with RUNX1 mutationswere mainly distributed in the Runt domain and almost mutually exclusive with NPM1 mutations.This study revealed the distinct gene expression pattern of RUNX1 mutations and the underlying

Keywords： RUNX1     gene mutation     acute myeloid leukemia     transcriptional repression     DNA methylation    

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Analysis of the genomic landscape of primary central nervous system lymphoma using whole-genome sequencing

Frontiers of Medicine   Pages 889-906 doi: 10.1007/s11684-023-0994-x

Abstract: Whole-genome sequencing was performed on 68 newly diagnosed Chinese PCNSL samples, whose genomic characteristicsCollectively, this study comprehensively reveals the genomic landscape of newly diagnosed Chinese PCNSLs

Keywords： primary central nervous system lymphoma     whole-genome sequencing     TMSB4X     copy number variation     gene mutation    

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Genomic variations in the counterpart normal controls of lung squamous cell carcinomas

Dalin Zhang, Liwei Qu, Bo Zhou, Guizhen Wang, Guangbiao Zhou

Frontiers of Medicine 2018, Volume 12, Issue 3,   Pages 280-288 doi: 10.1007/s11684-017-0580-1

Abstract: occurrence of LUSC is attributed to exposure to cigarette smoke, which induces the development of numerous genomicHowever, few studies have investigated the genomic variations that occur only in normal tissues thatWe then called genomic variations specific to the normal lung tissues through filtering the genomic sequenceSixteen genomic variations were called in the three normal lung tissues.Our results uncovered previously unreported genomic variations in CNCs, rather than LUSCs, that may be

Keywords： lung cancer     counterpart normal control     genomic variations    

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Tumor growth and metastasis can be inhibited by maintaining genomic stability in cancer cells

Yi Liang,Qisheng Feng,Jian Hong,Futuo Feng,Yi Sang,Wenrong Hu,Miao Xu,Roujun Peng,Tiebang Kang,Jinxin Bei,Yixin Zeng

Frontiers of Medicine 2015, Volume 9, Issue 1,   Pages 57-62 doi: 10.1007/s11684-015-0389-8

Abstract: Our previous research demonstrates that SLCCs are inducible by increasing genomic instability in cancerradicals and is used to protect patients from radioactive exposure, was used as an agent that maintains genomicFurthermore, MMC alone enhanced genomic instability, but MMC combined with AET attenuated the extentof genomic instability in primary VX2 tumor tissue.Taken together, our data suggest that the genomic protector AET can inhibit the induction of SLCCs, and

Keywords： rabbit VX2 liver tumor     mitomycin C     AET     stem-like cancer cells     genomic instability    

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Improving the prognosis of pancreatic cancer: insights from epidemiology, genomic alterations, and therapeutic

Frontiers of Medicine doi: 10.1007/s11684-023-1050-6

Abstract: review endeavors to furnish a holistic insight into pancreatic cancer, encompassing its epidemiology, genomic

Keywords： pancreatic cancer     cancer screening     single cell     molecular alterations     precancerous lesion     therapy resistance    

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Title Author Date Type Operation

Genomic Mutations within the Host Microbiome: Adaptive Evolution or Purifying Selection

Jiachao Zhang,Rob Knight,

Journal Article

Identification of novel mutations in and in a family with craniofacial microsomia: evidence of digenic

Journal Article

Statistical considerations for genomic selection

Huimin KANG, Lei ZHOU, Jianfeng LIU

Journal Article

Treatment of advanced non-small cell lung cancer with driver mutations: current applications and future

Journal Article

Characteristics of compensatory mutations in the

Shengfen Wang, Yang Zhou, Bing Zhao, Xichao Ou, Hui Xia, Yang Zheng, Yuanyuan Song, Qian Cheng, Xinyang Wang, Yanlin Zhao

Journal Article

122-binding site polymorphism at the interleukin-1 α gene and its interaction with hepatitis B virus mutations

Du Yan, Han Xue, Pu Rui, Xie Jiaxin, Zhang Yuwei, Cao Guangwen

Journal Article

GLOBAL GENOMIC PREDICTION IN HORTICULTURAL CROPS: PROMISES, PROGRESS, CHALLENGES AND OUTLOOK

Journal Article

GLOBAL GENOMIC PREDICTION IN HORTICULTURAL CROPS: PROMISES, PROGRESS, CHALLENGES AND OUTLOOK

Craig HARDNER, Satish KUMAR, Dorrie MAIN, Cameron PEACE

Journal Article

Topological reorganization and functional alteration of distinct genomic components in gallbladder cancer

Journal Article

Detection of genomic signatures for pig hairlessness using high-density SNP data

Ying SU,Yi LONG,Xinjun LIAO,Huashui AI,Zhiyan ZHANG,Bin YANG,Shijun XIAO,Jianhong TANG,Wenshui XIN,Lusheng HUANG,Jun REN,Nengshui DING

Journal Article

Distinct gene expression pattern of mutations coordinated by target repression and promoter hypermethylation

Journal Article

Analysis of the genomic landscape of primary central nervous system lymphoma using whole-genome sequencing

Journal Article

Genomic variations in the counterpart normal controls of lung squamous cell carcinomas

Dalin Zhang, Liwei Qu, Bo Zhou, Guizhen Wang, Guangbiao Zhou

Journal Article

Tumor growth and metastasis can be inhibited by maintaining genomic stability in cancer cells

Yi Liang,Qisheng Feng,Jian Hong,Futuo Feng,Yi Sang,Wenrong Hu,Miao Xu,Roujun Peng,Tiebang Kang,Jinxin Bei,Yixin Zeng

Journal Article

Improving the prognosis of pancreatic cancer: insights from epidemiology, genomic alterations, and therapeutic

Journal Article