Coexpression network analysis identifies transcriptional modules related to proastrocytic differentiation and sprouty signaling in glioma.

Abstract:

:Gliomas are primary brain tumors with high mortality and heterogeneous biology that is insufficiently understood. In this study, we performed a systematic analysis of the intrinsic organization of complex glioma transcriptome to gain deeper knowledge of the tumor biology. Gene coexpression relationships were explored in 790 glioma samples from 5 published patient cohorts treated at different institutions. We identified 20 coexpression modules that were common to all the data sets and associated with proliferation, angiogenesis, hypoxia, immune response, genomic alterations, cell differentiation phenotypes, and other features inherent to glial tumors. A collection of high-quality signatures for the respective processes was obtained using cross-data set summarization of the modules' gene composition. Individual modules were found to be organized into higher order coexpression groups, the two largest of them associated with glioblastoma and oligodendroglioma, respectively. We identified a novel prognostic gene expression signature (185 genes) linked to a proastrocytic pattern of tumor cell differentiation. This "proastrocytic" signature was associated with long survival and defined a subgroup of the previously established "proneural" class of gliomas. A strong negative correlation between proastrocytic and proneural markers across differentiated tumors underscored the distinction between these subtypes of glioma. Interestingly, one further novel signature in glioma was identified that was associated with EGFR (epidermal growth factor receptor) gene amplification and suggested that EGF signaling in glioma may be a subject to regulation by Sprouty family proteins. In summary, this integrated analysis of the glioma transcriptome provided several novel insights into molecular heterogeneity and pathogenesis of glial tumors.

journal_name

Cancer Res

journal_title

Cancer research

authors

Ivliev AE,'t Hoen PA,Sergeeva MG

doi

10.1158/0008-5472.CAN-10-2465

subject

Has Abstract

pub_date

2010-12-15 00:00:00

pages

10060-70

issue

24

eissn

0008-5472

issn

1538-7445

pii

70/24/10060

journal_volume

70

pub_type

杂志文章
  • Chemical characterization of the degradation products of vinblastine dihydrogen sulfate.

    abstract::Vinblastine was incubated in 0.2 M glycine buffer (pH 7.4 or 8.8) containing bovine serum albumin (1%) at 37 degrees C for 72 h. The reaction mixture was extracted with CH2Cl2, and the extract gave 6 major peaks (A, B, C, D, E, and F) with retention times of 5.0, 7.5, 11.0, 13.0, 23.0, and 30.0 min, respectively, in a...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Thimmaiah KN,Sethi VS

    更新日期:1985-11-01 00:00:00

  • Association of DNA index and S-phase fraction with prognosis of nodes positive early breast cancer.

    abstract::DNA index and S-phase fraction of 490 primary breast carcinomas were measured by flow cytometry, using paraffin-embedded tissue as a starting point. All patients had involvement of axillary lymph nodes and all were randomized onto one of the Ludwig Breast Cancer Trials I-IV between July 1978 and August 1981. The prese...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Hedley DW,Rugg CA,Gelber RD

    更新日期:1987-09-01 00:00:00

  • Gut microbiota condition the therapeutic efficacy of trastuzumab in HER2-positive breast cancer.

    abstract::Emerging evidence indicates that gut microbiota affect the response to anticancer therapies by modulating the host immune system. In this study, we investigated the impact of the gut microbiota on immune-mediated trastuzumab antitumor efficacy in preclinical models of HER2-positive breast cancer (BC) and in 24 patient...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:10.1158/0008-5472.CAN-20-1659

    authors: Di Modica M,Gargari G,Regondi V,Bonizzi A,Arioli S,Belmonte B,De Cecco L,Fasano E,Bianchi F,Bertolotti A,Tripodo C,Villani L,Corsi F,Guglielmetti S,Balsari A,Triulzi T,Tagliabue E

    更新日期:2021-01-22 00:00:00

  • Heterogeneity of tumor cells from a single mouse mammary tumor.

    abstract::By the use of a variety of cell culture and separation methods, four cell lines were isolated from a single autochthonous BALB/cfC3H mammary tumor. These lines differ markedly from each other in culture morphology, various in vitro growth properties, expression of murine mammary tumor virus antigen, and karyotype, yet...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Dexter DL,Kowalski HM,Blazar BA,Fligiel Z,Vogel R,Heppner GH

    更新日期:1978-10-01 00:00:00

  • Substrate-specific deoxycytidine kinase deficiency in 1-beta-D-arabinofuranosylcytosine-resistant leukemic cells.

    abstract::In this study we describe the establishment of a leukemic cell line (BNML-CL/ara-C), originating from the 1-beta-D-arabinofuranosylcytosine (ara-C)-resistant brown Norway rat myelocytic leukemia model (BNML/ara-C), that retains the in vivo generated ara-C resistance. Its biological and biochemical characteristics have...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Richel DJ,Colly LP,Arkesteijn GJ,Arentsen-Honders MW,Kerster MG,ter Riet PM,Willemze R

    更新日期:1990-10-15 00:00:00

  • Tumorigenicity of the cyc- variant of the S49 murine lymphoma deficient in the Gs-alpha subunit of adenylate cyclase.

    abstract::S49 cyc- lymphoma cells contain a mutation resulting in loss of a functional guanine nucleotide regulatory protein rendering their adenylate cyclase refractory to most stimuli. S49 wild-type and cyc- clones were used in the present study to investigate the possible association of altered cAMP metabolism with tumorigen...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Stadel JM,Johnson RK,Mirabelli CK,Powers DA,Sung CM,Faucette LF,McCabe FL,Crooke ST

    更新日期:1988-02-01 00:00:00

  • Formation of PC12 tumors after transplantation into rat brains: dependence of time course on host age.

    abstract::Rat pheochromocytoma PC12 cells form tumors when placed into the brains of Sprague-Dawley rats under specific conditions. We now show that tumorigenic potential is regulated by the microenvironment of the developing cerebrum. PC12 cell aggregates were identified in the periventricular or intraventricular spaces within...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Hatton JD,Lechtman AN,U HS

    更新日期:1992-04-01 00:00:00

  • Endocrine status of premenopausal node-positive breast cancer patients following adjuvant chemotherapy and long-term tamoxifen.

    abstract::The endocrine status of 49 premenopausal women taking tamoxifen after completion of adjuvant chemotherapy for breast cancer was determined by radioimmunoassay from serial blood samples. Of these 49 women, 7 had regular menses, 14 had irregular menses, 23 were amenorrheic, and 5 had undergone hysterectomies. A group of...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Ravdin PM,Fritz NF,Tormey DC,Jordan VC

    更新日期:1988-02-15 00:00:00

  • In vitro and in vivo cytotoxicity of an anti-osteosarcoma immunotoxin containing pokeweed antiviral protein.

    abstract::Successful treatment of many patients with osteosarcoma requires more effective chemotherapy. Since new agents are needed, we have developed an immunotoxin using TP-3, an IgG2b mAb which recognizes human and canine osteosarcomas and budding capillaries of tumors. The plant hemitoxin, pokeweed antiviral protein (PAP), ...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Anderson PM,Meyers DE,Hasz DE,Covalcuic K,Saltzman D,Khanna C,Uckun FM

    更新日期:1995-03-15 00:00:00

  • Inhibition of RAS-mediated transformation and tumorigenesis by targeting the downstream E3 ubiquitin ligase seven in absentia homologue.

    abstract::Constitutively active RAS small GTPases promote the genesis of human cancers. An important goal in cancer biology is to identify means of countervailing activated RAS signaling to reverse malignant transformation. Oncogenic K-RAS mutations are found in virtually all pancreatic adenocarcinomas, making the RAS pathway a...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:10.1158/0008-5472.CAN-06-4471

    authors: Schmidt RL,Park CH,Ahmed AU,Gundelach JH,Reed NR,Cheng S,Knudsen BE,Tang AH

    更新日期:2007-12-15 00:00:00

  • A systematic profile of DNA methylation in human cancer cell lines.

    abstract::Human cancer cell lines are commonly used in basic cancer research to understand the behavior of primary tumors. Aberrations in the DNA methylation patterns are nowadays recognized as a hallmark of the cancer cell. However, no comprehensive study defines the DNA methylation environment present in the established cance...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Paz MF,Fraga MF,Avila S,Guo M,Pollan M,Herman JG,Esteller M

    更新日期:2003-03-01 00:00:00

  • Differential effects of sodium butyrate, dimethyl sulfoxide, and retinoic acid on membrane-associated antigen, enzymes, and glycoproteins of human rectal adenocarcinoma cells.

    abstract::The effects of sodium butyrate, dimethyl sulfoxide (DMSO), and retinoic acid on the growth, morphology, carcinoembryonic antigen content, cell surface membrane-associated enzyme activities, and glycoprotein profiles of a human rectal adenocarcinoma cell line (HRT-18) in culture were compared. All three agents reversib...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Tsao D,Morita A,Bella A Jr,Luu P,Kim YS

    更新日期:1982-03-01 00:00:00

  • Transformation of human cells by DNA transfection.

    abstract::Normal human cells can be transformed to anchorage-independent growth by transfection with DNA from MOLT-4 lymphoblasts, derived from a patient with acute lymphocytic leukemia. Cells were treated with polyethylene glycol 6000, and DNA was administered as a calcium phosphate coprecipitate . The transforming activity of...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Sutherland BM,Bennett PV

    更新日期:1984-07-01 00:00:00

  • Prognostic value and function of KLF4 in prostate cancer: RNAa and vector-mediated overexpression identify KLF4 as an inhibitor of tumor cell growth and migration.

    abstract::KLF4/GLKF4 is a transcription factor that can have divergent functions in different malignancies. The role of KLF4 in prostate cancer etiology remains unclear. We have recently reported that small double-stranded RNA can induce gene expression by targeting promoter sequence in a phenomenon referred to as RNA activatio...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:10.1158/0008-5472.CAN-10-2414

    authors: Wang J,Place RF,Huang V,Wang X,Noonan EJ,Magyar CE,Huang J,Li LC

    更新日期:2010-12-15 00:00:00

  • Association between survival after treatment for breast cancer and glutathione S-transferase P1 Ile105Val polymorphism.

    abstract::A glutathione S-transferase (GST) P1 polymorphism results in an amino acid substitution, Ile105Val; the Val-containing enzyme has reduced activity toward alkylating agents. Cancer patients with the variant enzyme may differ in removal of treatment agents and in outcomes of therapy. We evaluated survival according to G...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Sweeney C,McClure GY,Fares MY,Stone A,Coles BF,Thompson PA,Korourian S,Hutchins LF,Kadlubar FF,Ambrosone CB

    更新日期:2000-10-15 00:00:00

  • Chemoprevention of prostate cancer by d,l-sulforaphane is augmented by pharmacological inhibition of autophagy.

    abstract::There is a preclinical evidence that the oral administration of d,l-sulforaphane (SFN) can decrease the incidence or burden of early-stage prostate cancer [prostatic intraepithelial neoplasia (PIN)] and well-differentiated cancer (WDC) but not late-stage poorly differentiated cancer (PDC). Because SFN treatment induce...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:10.1158/0008-5472.CAN-13-0755

    authors: Vyas AR,Hahm ER,Arlotti JA,Watkins S,Stolz DB,Desai D,Amin S,Singh SV

    更新日期:2013-10-01 00:00:00

  • microRNA-21 negatively regulates Cdc25A and cell cycle progression in colon cancer cells.

    abstract::microRNAs (miRNA) are small noncoding RNAs that participate in diverse biological processes by suppressing target gene expression. Altered expression of miR-21 has been reported in cancer. To gain insights into its potential role in tumorigenesis, we generated miR-21 knockout colon cancer cells through gene targeting....

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:10.1158/0008-5472.CAN-09-1996

    authors: Wang P,Zou F,Zhang X,Li H,Dulak A,Tomko RJ Jr,Lazo JS,Wang Z,Zhang L,Yu J

    更新日期:2009-10-15 00:00:00

  • Ovarian carcinoma regulation of matrix metalloproteinase-2 and membrane type 1 matrix metalloproteinase through beta1 integrin.

    abstract::Culturing DOV 13 ovarian carcinoma cells on three-dimensional collagen lattice but not on thin-layer collagen induces processing of promatrix metalloproteinase (MMP)-2 to a M(r) 62,000 form, suggesting that multivalent integrin aggregation may participate in proteinase regulation. To address the role of collagen-bindi...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Ellerbroek SM,Fishman DA,Kearns AS,Bafetti LM,Stack MS

    更新日期:1999-04-01 00:00:00

  • Coevolution of solid stress and interstitial fluid pressure in tumors during progression: implications for vascular collapse.

    abstract::The stress harbored by the solid phase of tumors is known as solid stress. Solid stress can be either applied externally by the surrounding normal tissue or induced by the tumor itself due to its growth. Fluid pressure is the isotropic stress exerted by the fluid phase. We recently showed that growth-induced solid str...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:10.1158/0008-5472.CAN-12-4521

    authors: Stylianopoulos T,Martin JD,Snuderl M,Mpekris F,Jain SR,Jain RK

    更新日期:2013-07-01 00:00:00

  • Elevated expression of the C-type lectin CD93 in the glioblastoma vasculature regulates cytoskeletal rearrangements that enhance vessel function and reduce host survival.

    abstract::Glioblastoma is an aggressive brain tumor characterized by an abnormal blood vasculature that is hyperpermeable. Here, we report a novel role for CD93 in regulating angiogenesis in this setting by modulating cell-cell and cell-matrix adhesion of endothelial cells. Tissue microarray analysis demonstrated that vascular ...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:10.1158/0008-5472.CAN-14-3636

    authors: Langenkamp E,Zhang L,Lugano R,Huang H,Elhassan TE,Georganaki M,Bazzar W,Lööf J,Trendelenburg G,Essand M,Pontén F,Smits A,Dimberg A

    更新日期:2015-11-01 00:00:00

  • Quantitative estimation of endogenous nitrosation in humans by monitoring N-nitrosoproline excreted in the urine.

    abstract::Endogenous formation of N-nitrosoproline (NPRO) was demonstrated by monitoring its excretion in the urine of a male volunteer who had ingested vegetable juice, as a source of nitrate, and proline. The resulting NPRO was analyzed after derivatization by combined gas-liquid chromatography thermal energy analysis. The am...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Ohshima H,Bartsch H

    更新日期:1981-09-01 00:00:00

  • Targeting leukemia-initiating cells in acute lymphoblastic leukemia (ALL).

    abstract::The concept that different leukemias are developmentally distinct and, like in normal hematopoiesis, generated by restricted populations of cells named leukemia-initiating cells (LIC), is becoming more established. These cancer stem-like cells have been assumed to have unique properties, including the capability of se...

    journal_title:Cancer research

    pub_type: 杂志文章,评审

    doi:10.1158/0008-5472.CAN-20-2571

    authors: Tamiro F,Weng AP,Giambra V

    更新日期:2021-01-07 00:00:00

  • Biological considerations for radioimmunotherapy.

    abstract::We have examined three methods that may be useful for improving the therapeutic efficacy of antibody-targeted radionuclides. The principal limitation of radioimmunotherapy is myelotoxicity and thrombocytopenia. These are due mainly to the length of time the radioantibody remains in the blood. The clearance time of a r...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Sharkey RM,Blumenthal RD,Hansen HJ,Goldenberg DM

    更新日期:1990-02-01 00:00:00

  • Heterogeneity in the hormonal responsiveness of clones derived from the 13762NF rat mammary tumor.

    abstract::The transplantable hormone-responsive rat mammary adenocarcinoma 13762NF was dissociated with collagenase and hyaluronidase. Cells were cloned directly or lines were established from mass cultures and cells from these lines were cloned. Clones differed in cellular morphology, colony morphology on plastic or in collage...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Geradts J,Richards J,Edery M,Pang K,Larson L,Nandi S

    更新日期:1986-04-01 00:00:00

  • Effect of gestational development of lung tumor size and morphology in the mouse.

    abstract::Pregnant C3HeB/FeJ mice were treated with ethylnitrosourea (ENU) on one of gestation Days 10, 13, or 15 to determine if ENU treatment at different stages of gestation would result in qualitative or quantitative differences in lung tumors induced in the offspring. Lung tumors were counted and measured 6 mo after treatm...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Branstetter DG,Stoner GD,Budd C,Conran PB,Goldblatt PJ

    更新日期:1988-01-15 00:00:00

  • Effect of sodium saccharin and L-tryptophan on rat urine during bladder carcinogenesis.

    abstract::We examined several parameters of urine excretion during a two-year initiation-promotion experiment in male Fischer rats using four weeks of N-[4-(5-nitro-2-furyl)-2-thiazoly]formamide at 0.2% of the diet as the initiating agent and either 5% sodium saccharin or 2% L-tryptophan in the diet as promoting agents. Rats fe...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Demers DM,Fukushima S,Cohen SM

    更新日期:1981-01-01 00:00:00

  • Blood nutrient concentrations and tumor growth in vivo in rats: relationships during the onset of an acute fast.

    abstract::The rate of tumor growth in vivo in adult rats (250- to 350-g total body weight) is stimulated during an acute fast. No tumor growth stimulation is observed in fasted immature rats (less than about 200-g total body weight). The different tumor growth responses in rats of these two age groups appear to depend on the in...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Sauer LA,Dauchy RT

    更新日期:1987-02-15 00:00:00

  • Dominant negative isoform of the Ikaros gene in patients with adult B-cell acute lymphoblastic leukemia.

    abstract::Gene targeting studies in mice have shown that the transcription factor Ikaros plays an essential role in lymphoid development and as a tumor suppressor in T cells, whereas the related gene Aiolos functions as a tumor suppressor in B cells. We analyzed the expression levels of the Ikaros gene family, Ikaros and Aiolos...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Nakase K,Ishimaru F,Avitahl N,Dansako H,Matsuo K,Fujii K,Sezaki N,Nakayama H,Yano T,Fukuda S,Imajoh K,Takeuchi M,Miyata A,Hara M,Yasukawa M,Takahashi I,Taguchi H,Matsue K,Nakao S,Niho Y,Takenaka K,Shinagawa K,

    更新日期:2000-08-01 00:00:00

  • Bax mediates the apoptosis-sensitizing effect of maspin.

    abstract::Maspin, a serine protease inhibitor (serpin), can suppress tumor growth and metastasis in vivo and tumor cell motility and invasion in vitro. This may occur through maspin-mediated inhibition of pericellular proteolysis. In a recent report, we provided evidence that maspin may also suppress tumor progression by enhanc...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:10.1158/0008-5472.can-03-2568

    authors: Liu J,Yin S,Reddy N,Spencer C,Sheng S

    更新日期:2004-03-01 00:00:00

  • The cytotoxicity of gamma-L-glutaminyl-4-hydroxybenzene for cells that contain tyrosinase, a study of melanocytes in the hair follicle of the mouse.

    abstract::The s.c. administration of gamma-L-glutaminyl-4-hydroxybenzene (GHB) to neonatal black mice produced a prompt, generalized, and selective swelling and lysis of the melanocytes of the hair follicles. The findings indicate that this cytotoxic effect was dependent upon the intracellular activation of GHB by tyrosinase. S...

    journal_title:Cancer research

    pub_type: 杂志文章

    doi:

    authors: Burger PC,Kemper LA,Vogel FS

    更新日期:1979-05-01 00:00:00