Xin Liu

Huazhong University of Science and Technology

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Jian Xu

The University of Texas Southwestern Medical Center

Yuannyu Zhang

St. Jude Children's Research Hospital

Kathryn E. Dickerson

The University of Texas Southwestern Medical Center

Kailong Li

Peking University

Mingyi Chen

The University of Texas Southwestern Medical Center

Dean G. Tang

Roswell Park Comprehensive Cancer Center

Ralph J. DeBerardinis

Howard Hughes Medical Institute

Weina Chen

The University of Texas Southwestern Medical Center

Yuxuan Liu

Northwestern Polytechnical University

Tammy Calhoun‐Davis

The University of Texas MD Anderson Cancer Center

Cooperative Institutions

Chinese Academy of Medical Sciences & Peking Union Medical College

120

The University of Texas MD Anderson Cancer Center

115

Chinese Academy of Sciences

102

The University of Texas Southwestern Medical Center

101

Huazhong University of Science and Technology

Harvard University

Peking University

Sun Yat-sen University

Shanghai Jiao Tong University

Nanjing Medical University

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The mitochondrial respiratory chain is essential for haematopoietic stem cell function

Nature Cell Biology (2017)

Elena Ansó Samuel E. Weinberg Lauren Diebold Benjamin J. Thompson Sébastien Malinge

10.1038/ncb3529

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Citations (266)

PTEN negatively regulates neural stem cell self-renewal by modulating G₀-G₁cell cycle entry

Proceedings of the National Academy of Sciences (2005)

Matthias Groszer Rebecca J. Erickson Deirdre D. Scripture-Adams Joseph D. Dougherty Janel Le Belle

Previous studies have demonstrated that a small subpopulation of brain tumor cells share key characteristics with neural stem/progenitor cells in terms of phenotype and behavior. These findings suggest that brain tumors might contain “cancer stem cells” that are critical for tumor growth. However, the molecular pathways governing such stem cell-like behavior remain largely elusive. Our previous study suggests that the phosphatase and tensin homologue deleted on chromosome 10 ( PTEN ) tumor suppressor gene, one of the most frequently mutated genes in glioblastomas, restricts neural stem/progenitor cell proliferation in vivo . In the present study, we sought to determine the role of PTEN in long-term maintenance of stem cell-like properties, cell cycle entry and progression, and growth factor dependence and gene expression. Our results demonstrate an enhanced self-renewal capacity and G 0 -G 1 cell cycle entry and decreased growth factor dependency of Pten null neural/stem progenitor cells. Therefore, loss of PTEN leads to cell physiological changes, which collectively are sufficient to increase the pool of self-renewing neural stem cells and promote their escape from the homeostatic mechanisms of proliferation control.

Tensin

10.1073/pnas.0509939103

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Citations (301)

Cancer-Associated Fibroblasts Induce a Collagen Cross-link Switch in Tumor Stroma

Molecular Cancer Research (2015)

Daniela Paňková Yulong Chen Masahiko Terajima Mark J. Schliekelman Brandi N. Baird

Intratumoral collagen cross-links heighten stromal stiffness and stimulate tumor cell invasion, but it is unclear how collagen cross-linking is regulated in epithelial tumors. To address this question, we used Kras(LA1) mice, which develop lung adenocarcinomas from somatic activation of a Kras(G12D) allele. The lung tumors in Kras(LA1) mice were highly fibrotic and contained cancer-associated fibroblasts (CAF) that produced collagen and generated stiffness in collagen gels. In xenograft tumors generated by injection of wild-type mice with lung adenocarcinoma cells alone or in combination with CAFs, the total concentration of collagen cross-links was the same in tumors generated with or without CAFs, but coinjected tumors had higher hydroxylysine aldehyde-derived collagen cross-links (HLCC) and lower lysine-aldehyde-derived collagen cross-links (LCCs). Therefore, we postulated that an LCC-to-HLCC switch induced by CAFs promotes the migratory and invasive properties of lung adenocarcinoma cells. To test this hypothesis, we created coculture models in which CAFs are positioned interstitially or peripherally in tumor cell aggregates, mimicking distinct spatial orientations of CAFs in human lung cancer. In both contexts, CAFs enhanced the invasive properties of tumor cells in three-dimensional (3D) collagen gels. Tumor cell aggregates that attached to CAF networks on a Matrigel surface dissociated and migrated on the networks. Lysyl hydroxylase 2 (PLOD2/LH2), which drives HLCC formation, was expressed in CAFs, and LH2 depletion abrogated the ability of CAFs to promote tumor cell invasion and migration.CAFs induce a collagen cross-link switch in tumor stroma to influence the invasive properties of tumor cells.

Cancer-Associated Fibroblasts

Lysyl Oxidase

Type I collagen

10.1158/1541-7786.mcr-15-0307

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Citations (183)

Automated prostate cancer localization without the need for peripheral zone extraction using multiparametric MRI

Medical Physics (2011)

Xin Liu İmam Şamil Yetik

Multiparametric magnetic resonance imaging (MRI) has been shown to have higher localization accuracy than transrectal ultrasound (TRUS) for prostate cancer. Therefore, automated cancer segmentation using multiparametric MRI is receiving a growing interest, since MRI can provide both morphological and functional images for tissue of interest. However, all automated methods to this date are applicable to a single zone of the prostate, and the peripheral zone (PZ) of the prostate needs to be extracted manually, which is a tedious and time-consuming job. In this paper, our goal is to remove the need of PZ extraction by incorporating the spatial and geometric information of prostate tumors with multiparametric MRI derived from T2-weighted MRI, diffusion-weighted imaging (DWI) and dynamic contrast enhanced MRI (DCE-MRI).In order to remove the need of PZ extraction, the authors propose a new method to incorporate the spatial information of the cancer. This is done by introducing a new feature called location map. This new feature is constructed by applying a nonlinear transformation to the spatial position coordinates of each pixel, so that the location map implicitly represents the geometric position of each pixel with respect to the prostate region. Then, this new feature is combined with multiparametric MR images to perform tumor localization. The proposed algorithm is applied to multiparametric prostate MRI data obtained from 20 patients with biopsy-confirmed prostate cancer.The proposed method which does not need the masks of PZ was found to have prostate cancer detection specificity of 0.84, sensitivity of 0.80 and dice coefficient value of 0.42.The authors have found that fusing the spatial information allows us to obtain tumor outline without the need of PZ extraction with a considerable success (better or similar performance to methods that require manual PZ extraction). Our experimental results quantitatively demonstrate the effectiveness of the proposed method, depicting that the proposed method has a slightly better or similar localization performance compared to methods which require the masks of PZ.

Multiparametric MRI

10.1118/1.3589134

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Citations (15)

[

PubMed (2024)

Xin Liu Lianhui Wang Jin Shu Ziheng Xu Xiu-Yun Xu

To study the serological characteristics of

Proband

10.19746/j.cnki.issn.1009-2137.2024.01.036

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Citations (0)

CAPTURE: In Situ Analysis of Chromatin Composition of Endogenous Genomic Loci by Biotinylated dCas9

Current Protocols in Molecular Biology (2018)

Xin Liu Yuannyu Zhang Yong Chen Mushan Li Zhen Shao

Abstract Cis ‐regulatory elements (CREs) play a pivotal role in spatiotemporal control of tissue‐specific gene expression, yet the molecular composition of the vast majority of CREs in native chromatin remains unknown. In this article, we describe the clustered regularly interspaced short palindromic repeats (CRISPR) affinity purification in situ of regulatory elements (CAPTURE) approach to simultaneously identify locus‐specific chromatin‐regulating protein complexes and long‐range DNA interactions. Using an in vivo biotinylated nuclease‐deficient Cas9 (dCas9) protein and programmable single guide RNAs (sgRNAs), this approach allows for high‐resolution and locus‐specific isolation of protein complexes and long‐range chromatin looping associated with single copy CREs in mammalian cells. Unbiased analysis of the compositional structure of developmentally regulated or disease‐associated CREs identifies new features of transcriptional regulation. Hence, CAPTURE provides a versatile platform to study genomic locus‐regulating chromatin composition in a mammalian genome. © 2018 by John Wiley & Sons, Inc.

Nuclease

Chromosome conformation capture

Scaffold/matrix attachment region

10.1002/cpmb.64

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Citations (16)

Supplementary Fig. S3 from Flumatinib versus Imatinib for Newly Diagnosed Chronic Phase Chronic Myeloid Leukemia: A Phase III, Randomized, Open-label, Multi-center FESTnd Study

Li Zhang Li Meng Bingcheng Liu Yanli Zhang Huanling Zhu

Time to MMR (A) and CCyR (B) MMR, and (C) Kaplan-Meier estimate of probability of progression to AP/BC or death due to CML while on treatment.

Center (category theory)

Open label

10.1158/1078-0432.22479939