Publications:

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Genomic hallmarks and therapeutic implications of G0 cell cycle arrest in cancer.

Genome Biology

Wiecek, Anna J AJ; Cutty, Stephen J SJ; Kornai, Daniel D; Parreno-Centeno, Mario M; Gourmet, Lucie E LE; Tagliazucchi, Guidantonio Malagoli GM; Jacobson, Daniel H DH; Zhang, Ping P; Xiong, Lingyun L; Bond, Gareth L GL; Barr, Alexis R AR; Secrier, Maria M

Publication Date: 2023-05-23

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PubMed Link: 37221612

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• 13059_2023_Article_2963.pdf

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Transcriptional and metabolic programs promote the expansion of follicular helper T cells in lupus-prone mice.

Iscience

Gong, Minghao M; Choi, Seung-Chul SC; Park, Yuk Pheel YP; Zou, Xueyang X; Elshikha, Ahmed S AS; Gerriets, Valerie A VA; Rathmell, Jeffrey C JC; Mohamazadeh, Mansour M; Morel, Laurence L

Publication Date: 2023-05-19

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PubMed Link: 37216123

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• main.pdf

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Dichotomous ovarian cancer-initiating potential of Pax8+ cells revealed by a mouse genetic mosaic model.

Iscience

Zeng, Jianhao J; Alvarez-Yela, Astrid Catalina AC; Casarez, Eli E; Jiang, Ying Y; Wang, Lixin L; Kelly, Brianna E BE; Jenkins, Taylor T; Ke, Eugene E; Atkins, Kristen A KA; Janes, Kevin A KA; Slack-Davis, Jill K JK; Zong, Hui H

Publication Date: 2023-05-19

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PubMed Link: 37207276

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• main.pdf

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Extensive intratumor regional epigenetic heterogeneity in clear cell renal cell carcinoma targets kidney enhancers and is associated with poor outcome.

Clinical Epigenetics

El Khoury, Louis Y LY; Pan, Xiaoyu X; Hlady, Ryan A RA; Wagner, Ryan T RT; Shaikh, Shafiq S; Wang, Liguo L; Humphreys, Mitchell R MR; Castle, Erik P EP; Stanton, Melissa L ML; Ho, Thai H TH; Robertson, Keith D KD

Publication Date: 2023-04-29

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PubMed Link: 37120552

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• Main text
• 13148_2023_Article_1471.pdf

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MicroRNA-19b-3p dysfunction of mesenchymal stem cell-derived exosomes from patients with abdominal aortic aneurysm impairs therapeutic efficacy.

Journal Of Nanobiotechnology

Zhang, Yuxiao Y; Huang, Xiaoran X; Sun, Tucheng T; Shi, Linli L; Liu, Baojuan B; Hong, Yimei Y; Fu, Qing-Ling QL; Zhang, Yuelin Y; Li, Xin X

Publication Date: 2023-04-26

Variant appearance in text: PTEN: S10A

PubMed Link: 37101174

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• 12951_2023_Article_1894.pdf

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Systematic assessment of prognostic molecular features across cancers.

Cell Genomics

Santhanam, Balaji B; Oikonomou, Panos P; Tavazoie, Saeed S

Publication Date: 2023-03-08

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PubMed Link: 36950380

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• main.pdf
• mmc9.pdf
• mmc2.pdf

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Integrative pan-cancer genomic and transcriptomic analyses of refractory metastatic cancer.

Cancer Discovery

Pradat, Yoann Y; Viot, Julien J; Yurchenko, Andrey A AA; Gunbin, Konstantin K; Cerbone, Luigi L; Deloger, Marc M; Grisay, Guillaume G; Verlingue, Loic L; Scott, Veronique V; Padioleau, Ismael I; Panunzi, Leonardo L; Michiels, Stefan S; Hollebecque, Antoine A; Jules-Clement, Gerome G; Mezquita, Laura L; Laine, Antoine A; Loriot, Yohann Y; Besse, Benjamin B; Friboulet, Luc L; Andre, Fabrice F; Cournede, Paul-Henry PH; Gautheret, Daniel D; Nikolaev, Sergey I SI

Publication Date: 2023-03-02

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PubMed Link: 36862804

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• Main text
• 1116.pdf

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Integrative analysis of Iso-Seq and RNA-seq reveals dynamic changes of alternative promoter, alternative splicing and alternative polyadenylation during Angiotensin II-induced senescence in rat primary aortic endothelial cells.

Frontiers In Genetics

Wen, Haimei H; Chen, Wei W; Chen, Yu Y; Wei, Gang G; Ni, Ting T

Publication Date: 2023

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PubMed Link: 36741323

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• fgene-14-1064624.pdf

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Enhancement of protein translation by CRISPR/dCasRx coupled with SINEB2 repeat of noncoding RNAs.

Nucleic Acids Research

Cao, Congcong C; Li, Aolin A; Xu, Chaojie C; Wu, Baorui B; Liu, Jun J; Liu, Yuchen Y

Publication Date: 2023-01-30

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PubMed Link: 36715335

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• Main text
• gkad010.pdf

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PTK6 inhibits autophagy to promote uveal melanoma tumorigenesis by binding to SOCS3 and regulating mTOR phosphorylation.

Cell Death & Disease

Liu, Bo B; Yao, Xueting X; Zhang, Chaoyang C; Liu, Yufen Y; Wei, Li L; Huang, Qinying Q; Wang, Mengting M; Zhang, Yanchen Y; Hu, Danning D; Wu, Wencan W

Publication Date: 2023-01-23

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PubMed Link: 36690663

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• Main text
• 41419_2023_Article_5590.pdf

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Pan-Cancer landscape of protein activities identifies drivers of signalling dysregulation and patient survival.

Molecular Systems Biology

Sousa, Abel A; Dugourd, Aurelien A; Memon, Danish D; Petursson, Borgthor B; Petsalaki, Evangelia E; Saez-Rodriguez, Julio J; Beltrao, Pedro P

Publication Date: 2023-01-23

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PubMed Link: 36688815

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• MSB-19-e10631.pdf

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Downregulation of UBE4B promotes CNS axon regrowth and functional recovery after stroke.

Iscience

Jin, Shuang S; Chen, Xiangfeng X; Zheng, Hanyu H; Cai, Wanxiong W; Lin, Xurong X; Kong, Xiangxing X; Ni, Yingchun Y; Ye, Jingjia J; Li, Xiaodan X; Shen, Luoan L; Guo, Binjie B; Abdelrahman, Zeinab Z; Zhou, Songlin S; Mao, Susu S; Wang, Yaxian Y; Yao, Chun C; Gu, Xiaosong X; Yu, Bin B; Wang, Zhiping Z; Wang, Xuhua X

Publication Date: 2023-01-20

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PubMed Link: 36654858

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• main.pdf

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Remodeling of the tumor microenvironment through PAK4 inhibition sensitizes tumors to immune checkpoint blockade.

Cancer Research Communications

Abril-Rodríguez, Gabriel G; Torrejon, Davis Y DY; Karin, Daniel D; Campbell, Katie M KM; Medina, Egmidio E; Saco, Justin D JD; Galvez, Mildred M; Champhekar, Ameya S AS; Perez-Garcilazo, Ivan I; Baselga-Carretero, Ignacio I; Singh, Jas J; Comin-Anduix, Begoña B; Puig-Saus, Cristina C; Ribas, Antoni A

Publication Date: 2022-10

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PubMed Link: 36588582

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• Main text
• crc-21-0133.pdf

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Hepatic neddylation deficiency triggers fatal liver injury via inducing NF-κB-inducing kinase in mice.

Nature Communications

Xu, Cheng C; Zhou, Hongyi H; Jin, Yulan Y; Sahay, Khushboo K; Robicsek, Anna A; Liu, Yisong Y; Dong, Kunzhe K; Zhou, Jiliang J; Barrett, Amanda A; Su, Huabo H; Chen, Weiqin W

Publication Date: 2022-12-16

Variant appearance in text: PTEN: S10a

PubMed Link: 36526632

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• 41467_2022_35525_MOESM2_ESM.pdf

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Atezolizumab Plus Bevacizumab as First-line Treatment for Patients With Metastatic Nonsquamous Non-Small Cell Lung Cancer With High Tumor Mutation Burden: A Nonrandomized Controlled Trial.

Jama Oncology

Provencio, Mariano M; Ortega, Ana Laura AL; Coves-Sarto, Juan J; Calvo, Virginia V; Marsé-Fabregat, Raquel R; Dómine, Manuel M; Guirado, María M; Carcereny, Enric E; Fernández, Natalia N; Álvarez, Ruth R; Blanco, Remei R; León-Mateos, Luis L; Sánchez-Torres, José Miguel JM; Sullivan, Ivana Gabriela IG; Cobo, Manuel M; Sánchez-Hernández, Alfredo A; Massuti, Bartomeu B; Sierra-Rodero, Belen B; Mártinez-Toledo, Cristina C; Serna-Blasco, Roberto R; Romero, Atocha A; Cruz-Bermúdez, Alberto A

Publication Date: 2022-12-15

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PubMed Link: 36520426

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• jamaoncol-e225959-s002.pdf

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Local production of corticotropin-releasing hormone in prefrontal cortex modulates male-specific novelty exploration.

Proceedings Of The National Academy Of Sciences Of The United States Of America

Riad, Michael H MH; Park, Kwanghoon K; Ibañez-Tallon, Ines I; Heintz, Nathaniel N

Publication Date: 2022-12-06

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PubMed Link: 36442105

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• pnas.202211454.pdf

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Elevated ITGA5 facilitates hyperactivated mTORC1-mediated progression of laryngeal squamous cell carcinoma via upregulation of EFNB2.

Theranostics

Li, Dapeng D; Sun, Anjiang A; Zhang, Liang L; Ding, Zhao Z; Yi, Fangzheng F; Yang, Xue X; Wang, Zixi Z; Chen, Xu X; Liu, Weiwei W; Liu, Shixian S; Shen, Hailong H; Miao, Manli M; Zhang, Ling L; Liu, Ping P; Liu, Yuchen Y; Su, Shihong S; Huang, Hailiang H; Huang, Can C; Hu, Zhongdong Z; Zhang, Hongbing H; Zha, Xiaojun X; Liu, Yehai Y

Publication Date: 2022

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PubMed Link: 36438491

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• thnov12p7431.pdf

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Markhor-derived Introgression of a Genomic Region Encompassing PAPSS2 Confers High-altitude Adaptability in Tibetan Goats.

Molecular Biology And Evolution

Li, Chao C; Wu, Yujiang Y; Chen, Bingchun B; Cai, Yudong Y; Guo, Jiazhong J; Leonard, Alexander S AS; Kalds, Peter P; Zhou, Shiwei S; Zhang, Jingchen J; Zhou, Ping P; Gan, Shangqu S; Jia, Ting T; Pu, Tianchun T; Suo, Langda L; Li, Yan Y; Zhang, Ke K; Li, Lan L; Purevdorj, Myagmarsuren M; Wang, Xihong X; Li, Ming M; Wang, Yu Y; Liu, Yao Y; Huang, Shuhong S; Sonstegard, Tad T; Wang, Ming-Shan MS; Kemp, Stephen S; Pausch, Hubert H; Chen, Yulin Y; Han, Jian-Lin JL; Jiang, Yu Y; Wang, Xiaolong X

Publication Date: 2022-12-05

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PubMed Link: 36382357

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• msac253.pdf

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The Tumor Immune Profile of Murine Ovarian Cancer Models: An Essential Tool For Ovarian Cancer Immunotherapy Research.

Cancer Research Communications

Rodriguez, Galaxia M GM; Galpin, Kristianne J C KJC; Cook, David P DP; Yakubovich, Edward E; Maranda, Vincent V; Macdonald, Elizabeth A EA; Wilson-Sanchez, Juliette J; Thomas, Anjali L AL; Burdette, Joanna E JE; Vanderhyden, Barbara C BC

Publication Date: 2022-06

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PubMed Link: 36311166

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• Main text
• crc-22-0017.pdf

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Characterization of aging cancer-associated fibroblasts draws implications in prognosis and immunotherapy response in low-grade gliomas.

Frontiers In Genetics

Zhou, Zijian Z; Wei, Jinhong J; Kuang, Lijun L; Zhang, Ke K; Liu, Yini Y; He, Zhongming Z; Li, Luo L; Lu, Bin B

Publication Date: 2022

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PubMed Link: 36092895

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• Main text
• fgene-13-897083.pdf

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Cancer-driving mutations are enriched in genic regions intolerant to germline variation.

Science Advances

Vitsios, Dimitrios D; Dhindsa, Ryan S RS; Matelska, Dorota D; Mitchell, Jonathan J; Zou, Xuequing X; Armenia, Joshua J; Hu, Fengyuan F; Wang, Quanli Q; Sidders, Ben B; Harper, Andrew R AR; Petrovski, Slavé S

Publication Date: 2022-08-26

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PubMed Link: 36026442

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• Main text
• sciadv.abo6371.pdf

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Lighting a Fire: Gasdermin-Mediated Pyroptosis Remodels the Glioma Microenvironment and Promotes Immune Checkpoint Blockade Response.

Frontiers In Immunology

Cai, Yonghua Y; Li, Ke K; Lin, Jie J; Liang, Xianqiu X; Xu, Wei W; Zhan, Zhengming Z; Xue, Shuaishuai S; Zeng, Yu Y; Chai, Peng P; Mao, Yangqi Y; Song, Zibin Z; Han, Lei L; Song, Ye Y; Zhang, Xian X; Wang, Hai H

Publication Date: 2022

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PubMed Link: 35784306

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• Main text
• fimmu-13-910490.pdf

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Allele-informed copy number evaluation of plasma DNA samples from metastatic prostate cancer patients: the PCF_SELECT consortium assay.

Nar Cancer

Orlando, Francesco F; Romanel, Alessandro A; Trujillo, Blanca B; Sigouros, Michael M; Wetterskog, Daniel D; Quaini, Orsetta O; Leone, Gianmarco G; Xiang, Jenny Z JZ; Wingate, Anna A; Tagawa, Scott S; Jayaram, Anuradha A; Linch, Mark M; , ; Jamal-Hanjani, Mariam M; Swanton, Charles C; Rubin, Mark A MA; Wyatt, Alexander W AW; Beltran, Himisha H; Attard, Gerhardt G; Demichelis, Francesca F

Publication Date: 2022-06

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PubMed Link: 35664542

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• Main text
• zcac016.pdf

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Extracellular vesicles enriched with an endothelial cell pro-survival microRNA affects skin tissue regeneration.

Molecular Therapy. Nucleic Acids

Fernandes, Hugo H; Zonnari, Alessandra A; Abreu, Ricardo R; Aday, Sezin S; Barão, Marta M; Albino, Inês I; Lino, Miguel M; Branco, Ana A; Seabra, Cátia C; Barata, Tânia T; Leal, Ermelindo C EC; Tralhão, José Guilherme JG; Gonçalves, Lino L; de Jong, Alwin A; Peters, Hendrika A B HAB; de Vries, Margreet R MR; da Costa Martins, Paula P; Quax, Paul H A PHA; Ferreira, Lino L

Publication Date: 2022-06-14

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PubMed Link: 35474734

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• main.pdf
• mmc4.pdf

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Transcriptional kinetics and molecular functions of long noncoding RNAs.

Nature Genetics

Johnsson, Per P; Ziegenhain, Christoph C; Hartmanis, Leonard L; Hendriks, Gert-Jan GJ; Hagemann-Jensen, Michael M; Reinius, Björn B; Sandberg, Rickard R

Publication Date: 2022-03

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PubMed Link: 35241826

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• 41588_2022_1014_MOESM3_ESM.pdf

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A Novel Prognostic Tool for Glioma Based on Enhancer RNA-Regulated Immune Genes.

Frontiers In Cell And Developmental Biology

Tian, Wei W; Chen, Kegong K; Yan, Guangcan G; Han, Xinhao X; Liu, Yanlong Y; Zhang, Qiuju Q; Liu, Meina M

Publication Date: 2021

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PubMed Link: 35127714

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• Main text
• fcell-09-798445.pdf

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Follicular Helper T-Cell-Based Classification of Endometrial Cancer Promotes Precise Checkpoint Immunotherapy and Provides Prognostic Stratification.

Frontiers In Immunology

Chen, Yi Y; You, Shuwen S; Li, Jie J; Zhang, Yifan Y; Kokaraki, Georgia G; Epstein, Elisabeth E; Carlson, Joseph J; Huang, Wen-Kuan WK; Haglund, Felix F

Publication Date: 2021

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PubMed Link: 35069566

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Targeting Cancer Metabolism Plasticity with JX06 Nanoparticles via Inhibiting PDK1 Combined with Metformin for Endometrial Cancer Patients with Diabetes.

Advanced Science (Weinheim, Baden-Wurttemberg, Germany)

Yang, Xiao X; Cheng, Yuan Y; Zhou, Jingyi J; Zhang, Lingpu L; Li, Xingchen X; Wang, Zhiqi Z; Yin, Shenyi S; Zhai, LiRong L; Huang, Ting T; Wu, Xiaotong X; Shen, Boqiang B; Dong, Yangyang Y; Zhao, Lijun L; Chi, Yujing Y; Jia, Yuanyuan Y; Wang, Jiaqi J; He, Yijiao Y; Dong, Xiying X; Xiao, Haihua H; Wang, Jianliu J

Publication Date: 2022-03

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PubMed Link: 35064767

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• ADVS-9-2104472.pdf

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A Highly Sensitive Fluorescent Akt Biosensor Reveals Lysosome-Selective Regulation of Lipid Second Messengers and Kinase Activity.

Acs Central Science

Chen, Mingyuan M; Sun, Tengqian T; Zhong, Yanghao Y; Zhou, Xin X; Zhang, Jin J

Publication Date: 2021-12-22

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PubMed Link: 34963894

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Analysis of Mutations and Dysregulated Pathways Unravels Carcinogenic Effect and Clinical Actionability of Mutational Processes.

Frontiers In Cell And Developmental Biology

Jiang, Zedong Z; Liao, Gaoming G; Yang, Yiran Y; Lan, Yujia Y; Xu, Liwen L; Yan, Min M; Zhou, Yao Y; Zhu, Jiali J; Liu, Wei W; Bai, Jing J; Xiao, Yun Y; Li, Xia X

Publication Date: 2021

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PubMed Link: 34901014

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• Main text
• fcell-09-768981.pdf

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Comprehensive transcriptomic characterization reveals core genes and module associated with immunological changes via 1619 samples of brain glioma.

Cell Death & Disease

Zhang, Ying Y; Ma, Wenping W; Fan, Wenhua W; Ren, Changyuan C; Xu, Jianbao J; Zeng, Fan F; Bao, Zhaoshi Z; Jiang, Tao T; Zhao, Zheng Z

Publication Date: 2021-12-08

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PubMed Link: 34880206

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• Main text
• 41419_2021_Article_4427.pdf

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Comprehensive transcriptomic characterization reveals core genes and module associated with immunological changes via 1619 samples of brain glioma.

Cell Death & Disease

Zhang, Ying Y; Ma, Wenping W; Fan, Wenhua W; Ren, Changyuan C; Xu, Jianbao J; Zeng, Fan F; Bao, Zhaoshi Z; Jiang, Tao T; Zhao, Zheng Z

Publication Date: 2021-12-08

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PubMed Link: 34880206

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• Main text
• 41419_2021_Article_4427.pdf

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3D disorganization and rearrangement of genome provide insights into pathogenesis of NAFLD by integrated Hi-C, Nanopore, and RNA sequencing.

Acta Pharmaceutica Sinica. B

Xu, Lina L; Yin, Lianhong L; Qi, Yan Y; Tan, Xuemei X; Gao, Meng M; Peng, Jinyong J

Publication Date: 2021-10

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PubMed Link: 34729306

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TNFSF13 Is a Novel Onco-Inflammatory Marker and Correlates With Immune Infiltration in Gliomas.

Frontiers In Immunology

Chen, Rui R; Wang, Xinxing X; Dai, Ziyu Z; Wang, Zeyu Z; Wu, Wantao W; Hu, Zhengang Z; Zhang, Xun X; Liu, Zhixiong Z; Zhang, Hao H; Cheng, Quan Q

Publication Date: 2021

Variant appearance in text: PTEN: S10A

PubMed Link: 34712225

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Novel temporal and spatial patterns of metastatic colonization from breast cancer rapid-autopsy tumor biopsies.

Genome Medicine

Huang, Xiaomeng X; Qiao, Yi Y; Brady, Samuel W SW; Factor, Rachel E RE; Downs-Kelly, Erinn E; Farrell, Andrew A; McQuerry, Jasmine A JA; Shrestha, Gajendra G; Jenkins, David D; Johnson, W Evan WE; Cohen, Adam L AL; Bild, Andrea H AH; Marth, Gabor T GT

Publication Date: 2021-10-28

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PubMed Link: 34711268

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ZIP10 drives osteosarcoma proliferation and chemoresistance through ITGA10-mediated activation of the PI3K/AKT pathway.

Journal Of Experimental & Clinical Cancer Research : Cr

Li, Hongyu H; Shen, Xin X; Ma, Mengjun M; Liu, Wenzhou W; Yang, Wen W; Wang, Peng P; Cai, Zhaopeng Z; Mi, Rujia R; Lu, Yixuan Y; Zhuang, Jiahao J; Jiang, Yuhang Y; Song, Yihui Y; Wu, Yanfeng Y; Shen, Huiyong H

Publication Date: 2021-10-27

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PubMed Link: 34706747

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• 13046_2021_Article_2146.pdf

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Mir-21 Suppression Promotes Mouse Hepatocarcinogenesis.

Cancers

Correia de Sousa, Marta M; Calo, Nicolas N; Sobolewski, Cyril C; Gjorgjieva, Monika M; Clément, Sophie S; Maeder, Christine C; Dolicka, Dobrochna D; Fournier, Margot M; Vinet, Laurent L; Montet, Xavier X; Dufour, Jean-François JF; Humar, Bostjan B; Negro, Francesco F; Sempoux, Christine C; Foti, Michelangelo M

Publication Date: 2021-10-04

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PubMed Link: 34638467

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