当前位置： SCI文献检索 > INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES期刊下所有文献 > Chromosomal Density of Cancer Up-Regulated Genes, Aberrant Enhancer Activity and Cancer Fitness Genes Are Associated with Transcriptional Cis-Effects of Broad Copy Number Gains in Colorectal Cancer.

Chromosomal Density of Cancer Up-Regulated Genes, Aberrant Enhancer Activity and Cancer Fitness Genes Are Associated with Transcriptional Cis-Effects of Broad Copy Number Gains in Colorectal Cancer.

Abstract：

:Broad Copy Number Gains (BCNGs) are copy-number increases of chromosomes or large segments of chromosomal arms. Publicly-available single-nucleotide polymorphism (SNP) array and RNA-Seq data of colon adenocarcinoma (COAD) samples from The Cancer Genome Atlas (TCGA) consortium allowed us to design better control groups in order to identify changes in expression due to highly recurrent BCNGs (in chromosomes 20, 8, 7, 13). We identified: (1) Overexpressed Transcripts (OverT), transcripts whose expression increases in "COAD groups bearing a specific BCNG" in comparison to "control COAD groups" not bearing it, and (2) up-regulated/down-regulated transcripts, transcripts whose expression increases/decreases in COAD groups in comparison to normal colon tissue. An analysis of gene expression reveals a correlation between the density of up-regulated genes per selected chromosome and the recurrence rate of their BCNGs. We report an enrichment of gained enhancer activity and of cancer fitness genes among OverT genes. These results support the hypothesis that the chromosomal density of overexpressed cancer fitness genes might play a significant role in the selection of gained chromosomes during cancer evolution. Analysis of functional pathways associated with OverT suggest that some multi-subunit protein complexes (eIF2, eIF3, CSTF and CPSF) are candidate targets for silencing transcriptional therapy.

journal_name

Int J Mol Sci

journal_title

International journal of molecular sciences

authors

Condorelli DF,Privitera AP,Barresi V

doi

10.3390/ijms20184652

subject

Has Abstract

pub_date

2019-09-19 00:00:00

issue

18

issn

1422-0067

pii

ijms20184652

journal_volume

20

pub_type

杂志文章

相关文献

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES文献大全
  • Aβ Beyond the AD Pathology: Exploring the Structural Response of Membranes Exposed to Nascent Aβ Peptide.

    abstract：:The physiological and pathological roles of nascent amyloid beta (Aβ) monomers are still debated in the literature. Their involvement in the pathological route of Alzheimer's Disease (AD) is currently considered to be the most relevant, triggered by their aggregation into structured oligomers, a toxic species. Recentl...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms21218295

    authors： Rondelli V,Salmona M,Colombo L,Fragneto G,Fadda GC,Cantu' L,Del Favero E

    更新日期：2020-11-05 00:00:00

  • A Molecular Interpretation on the Different Penetration Enhancement Effect of Borneol and Menthol towards 5-Fluorouracil.

    abstract：:Borneol and menthol are terpenes that are widely used as penetration enhancers in transdermal drug delivery. To explore their penetration-enhancement effects on hydrophilic drugs, 5-fluorouracil (5-FU) was selected as a model drug. An approach that combined in vitro permeation studies and coarse-grained molecular dyna...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms18122747

    authors： Wang R,Wu Z,Yang S,Guo S,Dai X,Qiao Y,Shi X

    更新日期：2017-12-18 00:00:00

  • Molecular science for drug development and biomedicine.

    abstract：:With the avalanche of biological sequences generated in the postgenomic age, molecular science is facing an unprecedented challenge, i.e., how to timely utilize the huge amount of data to benefit human beings. Stimulated by such a challenge, a rapid development has taken place in molecular science, particularly in the...

    journal_title：International journal of molecular sciences

    pub_type： 社论

    doi：10.3390/ijms151120072

    authors： Zhong WZ,Zhou SF

    更新日期：2014-11-04 00:00:00

  • DNA and RNA quadruplex-binding proteins.

    abstract：:Four-stranded DNA structures were structurally characterized in vitro by NMR, X-ray and Circular Dichroism spectroscopy in detail. Among the different types of quadruplexes (i-Motifs, minor groove quadruplexes, G-quadruplexes, etc.), the best described are G-quadruplexes which are featured by Hoogsteen base-paring. Se...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms151017493

    authors： Brázda V,Hároníková L,Liao JC,Fojta M

    更新日期：2014-09-29 00:00:00

  • Polysaccharides from the Edible Mushroom Agaricus bitorquis (Quél.) Sacc. Chaidam Show Anti-hypoxia Activities in Pulmonary Artery Smooth Muscle Cells.

    abstract：:Three kinds of new water-soluble polysaccharides (FA, FB and FC) were isolated from wild mushroom Agaricus bitorquis (Quél.) Sacc. Chaidam by the classical method "water extraction and alcohol precipitation" and purified by column chromatography. The Mw of FA, FB and FC ranged from 5690 Da to 38,340 Da. The three poly...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms20030637

    authors： Jiao Y,Kuang H,Wu J,Chen Q

    更新日期：2019-02-01 00:00:00

  • Animal Models of Pneumococcal pneumonia.

    abstract：:Streptococcus pneumoniae remains the most common bacterial pathogen causing lower respiratory tract infections and is a leading cause of morbidity and mortality worldwide, especially in children and the elderly. Another important aspect related to pneumococcal infections is the persistent rate of penicillin and macrol...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms20174220

    authors： Borsa N,Pasquale MD,Restrepo MI

    更新日期：2019-08-28 00:00:00

  • Advantages and Pitfalls of Capillary Electrophoresis of Pharmaceutical Compounds and Their Enantiomers in Complex Samples: Comparison of Hydrodynamically Opened and Closed Systems.

    abstract：:Several research disciplines require fast, reliable and highly automated determination of pharmaceutically active compounds and their enantiomers in complex biological matrices. To address some of the challenges of Capillary Electrophoresis (CE), such as low concentration sensitivity and performance degradation linked...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms21186852

    authors： Masár M,Hradski J,Schmid MG,Szucs R

    更新日期：2020-09-18 00:00:00

  • Application of an Inter-Species Extrapolation Method for the Prediction of Drug Interactions between Propolis and Duloxetine in Humans.

    abstract：:Duloxetine (DLX) is a potent drug investigated for the treatment of depression and urinary incontinence. DLX is extensively metabolized in the liver by two P450 isozymes, CYP2D6 and CYP1A2. Propolis (PPL) is one of the popular functional foods known to have effects on activities of CYPs, including CYP1A2. Due to the h...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms21051862

    authors： Ngo TL,Lee CH,Han N,Back HM,Rhee SJ,Noh K,Yun HY,Kang W,Chae JW

    更新日期：2020-03-09 00:00:00

  • Effect of Water Chemistry on Antimony Removal by Chemical Coagulation: Implications of ζ-Potential and Size of Precipitates.

    abstract：:The process of coagulation and precipitation affect the fate and mobility of antimony (Sb) species in drinking water. Moreover, the solubility and physico-chemical properties of the precipitates may be affected by the media chemistry. Accordingly, the present study aimed to investigate the removal of Sb(III, V) specie...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms20122945

    authors： Inam MA,Khan R,Akram M,Khan S,Yeom IT

    更新日期：2019-06-17 00:00:00

  • Interleukin (IL)-22 from IL-20 Subfamily of Cytokines Induces Colonic Epithelial Cell Proliferation Predominantly through ERK1/2 Pathway.

    abstract：:The interleukin (IL)-20 subfamily of cytokines consists of IL-19, IL-20, IL-22, IL-24, and IL-26, and the expression of IL-20, IL-22, and IL-24 is reported to be higher in the colon of patients with ulcerative colitis. Although the receptors for these cytokines are highly expressed in the colon epithelium, their effec...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms20143468

    authors： Moniruzzaman M,Wang R,Jeet V,McGuckin MA,Hasnain SZ

    更新日期：2019-07-15 00:00:00

  • Central and Peripheral Mechanisms in ApoE4-Driven Diabetic Pathology.

    abstract：:Apolipoprotein E (APOE) ε4 gene allele and type 2 diabetes mellitus (T2DM) are prime risk factors for Alzheimer's disease (AD). Despite evidence linking T2DM and apoE4, the mechanism underlying their interaction is yet to be determined. In the present study, we employed a model of APOE-targeted replacement mice and hi...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms21041289

    authors： Koren-Iton A,Salomon-Zimri S,Smolar A,Shavit-Stein E,Dori A,Chapman J,Michaelson DM

    更新日期：2020-02-14 00:00:00

  • Molecular characterization of Tob1 in muscle development in pigs.

    abstract：:Cell proliferation is an important biological process during myogenesis. Tob1 encoded a member of the Tob/BTG family of anti-proliferative proteins. Our previous LongSAGE (Long Serial Analysis of Gene Expression) analysis suggested that Tob1 was differentially expressed during prenatal skeletal muscle development. In ...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms12074315

    authors： Yuan J,Cao JY,Tang ZL,Wang N,Li K

    更新日期：2011-01-01 00:00:00

  • Thyroid Disrupting Chemicals.

    abstract：:Endocrine disruptor compounds are exogenous agents able to interfere with a gland function, exerting their action across different functional passages, from the synthesis to the metabolism and binding to receptors of the hormone produced. Several issues, such as different levels and time of exposure and different acti...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms18122583

    authors： Calsolaro V,Pasqualetti G,Niccolai F,Caraccio N,Monzani F

    更新日期：2017-12-01 00:00:00

  • The intertwining of transposable elements and non-coding RNAs.

    abstract：:Growing evidence shows a close association of transposable elements (TE) with non-coding RNAs (ncRNA), and a significant number of small ncRNAs originate from TEs. Further, ncRNAs linked with TE sequences participate in a wide-range of regulatory functions. Alu elements in particular are critical players in gene regul...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms140713307

    authors： Hadjiargyrou M,Delihas N

    更新日期：2013-06-26 00:00:00

  • Berteroin present in cruciferous vegetables exerts potent anti-inflammatory properties in murine macrophages and mouse skin.

    abstract：:Berteroin (5-methylthiopentyl isothiocyanate) is a sulforaphane analog present in cruciferous vegetables, including Chinese cabbage, rucola salad leaves, and mustard oil. We examined whether berteroin exerts anti-inflammatory activities using lipopolysaccharide (LPS)-stimulated Raw 264.7 macrophages and 12-O-tetradeca...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms151120686

    authors： Jung YJ,Jung JI,Cho HJ,Choi MS,Sung MK,Yu R,Kang YH,Park JH

    更新日期：2014-11-11 00:00:00

  • Correction: G. Bradley Schaefer. Clinical Genetic Aspects of ASD Spectrum Disorders. Int. J. Mol. Sci. 2016, 17, 180.

    abstract：:The author wishes to make a change to the published paper [1].[...]. ...

    journal_title：International journal of molecular sciences

    pub_type： 已发布勘误

    doi：10.3390/ijms17091572

    authors： Schaefer GB

    更新日期：2016-09-19 00:00:00

  • Shielding of Hepatitis B Virus-Like Nanoparticle with Poly(2-Ethyl-2-Oxazoline).

    abstract：:Virus-like nanoparticles (VLNPs) have been studied extensively as nanocarriers for targeted drug delivery to cancer cells. However, VLNPs have intrinsic drawbacks, in particular, potential antigenicity and immunogenicity, which hamper their clinical applications. Thus, they can be eliminated easily and rapidly by host...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms20194903

    authors： Fam SY,Chee CF,Yong CY,Ho KL,Mariatulqabtiah AR,Lau HY,Tan WS

    更新日期：2019-10-03 00:00:00

  • Small Molecules and Peptides Targeting Glial Cell Line-Derived Neurotrophic Factor Receptors for the Treatment of Neurodegeneration.

    abstract：:Glial cell line-derived neurotrophic factor (GDNF) family ligands (GFLs) are able to promote the survival of multiple neuronal populations in the body and, therefore, hold considerable promise for disease-modifying treatments of diseases and conditions caused by neurodegeneration. Available data reveal the potential o...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms21186575

    authors： Sidorova YA,Saarma M

    更新日期：2020-09-08 00:00:00

  • Characterization of the TCR β Chain CDR3 Repertoire in Subarachnoid Hemorrhage Patients with Delayed Cerebral Ischemia.

    abstract：:Little is known of the adaptive immune response to subarachnoid hemorrhage (SAH). This study was the first to investigate whether T cell receptor (TCR) immune repertoire may provide a better understanding of T cell immunology in delayed cerebral ischemia (DCI). We serially collected peripheral blood in five SAH patien...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms21093149

    authors： Kim BJ,Youn DH,Kim Y,Jeon JP

    更新日期：2020-04-29 00:00:00

  • Multitasking Rab Proteins in Autophagy and Membrane Trafficking: A Focus on Rab33b.

    abstract：:Autophagy (particularly macroautophagy) is a bulk degradation process used by eukaryotic cells in order to maintain adequate energy levels and cellular homeostasis through the delivery of long-lived proteins and organelles to the lysosome, resulting in their degradation. It is becoming increasingly clear that many of ...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms20163916

    authors： Morgan NE,Cutrona MB,Simpson JC

    更新日期：2019-08-12 00:00:00

  • Antiviral Activity of a Novel Compound CW-33 against Japanese Encephalitis Virus through Inhibiting Intracellular Calcium Overload.

    abstract：:Japanese encephalitis virus (JEV), a mosquito-borne flavivirus, has five genotypes (I, II, III, IV, and V). JEV genotype I circulates widely in some Asian countries. However, current JEV vaccines based on genotype III strains show low neutralizing capacities against genotype I variants. In addition, JE has no specific...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms17091386

    authors： Huang SH,Lien JC,Chen CJ,Liu YC,Wang CY,Ping CF,Lin YF,Huang AC,Lin CW

    更新日期：2016-08-24 00:00:00

  • The Incremental Induction of Neuroprotective Properties by Multiple Therapeutic Strategies for Primary and Secondary Neural Injury.

    abstract：:Neural diseases including injury by endogenous factors, traumatic brain injury, and degenerative neural injury are eventually due to reactive oxygen species (ROS). Thus ROS generation in neural tissues is a hallmark feature of numerous forms of neural diseases. Neural degeneration and the neural damage process is comp...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms160819657

    authors： Lee S,Park S,Won J,Lee SR,Chang KT,Hong Y

    更新日期：2015-08-19 00:00:00

  • The HGF/Met/NF-κB Pathway Regulates RANKL Expression in Osteoblasts and Bone Marrow Stromal Cells.

    abstract：:Multiple myeloma (MM)-induced bone disease occurs through hyperactivation of osteoclasts by several factors secreted by MM cells. MM cell-secreted factors induce osteoclast differentiation and activation via direct and indirect actions including enhanced expression of receptor activator of nuclear factor κB ligand (RA...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms21217905

    authors： Tsubaki M,Seki S,Takeda T,Chihara A,Arai Y,Morii Y,Imano M,Satou T,Shimomura K,Nishida S

    更新日期：2020-10-24 00:00:00

  • The ascorbate-glutathione-α-tocopherol triad in abiotic stress response.

    abstract：:The life of any living organism can be defined as a hurdle due to different kind of stresses. As with all living organisms, plants are exposed to various abiotic stresses, such as drought, salinity, extreme temperatures and chemical toxicity. These primary stresses are often interconnected, and lead to the overproduct...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms13044458

    authors： Szarka A,Tomasskovics B,Bánhegyi G

    更新日期：2012-01-01 00:00:00

  • Consecutive Isoproterenol and Adenosine Treatment Confers Marked Protection against Reperfusion Injury in Adult but Not in Immature Heart: A Role for Glycogen.

    abstract：:Consecutive treatment of adult rat heart with isoproterenol and adenosine (Iso/Aden), known to consecutively activate PKA/PKC signaling, is cardioprotective against ischemia and reperfusion (I/R). Whether this is cardioprotective in an immature heart is unknown. Langendorff-perfused hearts from adult and immature (60 ...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms19020494

    authors： Lewis M,Szobi A,Balaska D,Khaliulin I,Adameova A,Griffiths E,Orchard CH,Suleiman MS

    更新日期：2018-02-07 00:00:00

  • Reevaluation of Pluripotent Cytokine TGF-β3 in Immunity.

    abstract：:Transforming growth factor (TGF)-βs are pluripotent cytokines with stimulatory and inhibitory properties for multiple types of immune cells. Analyses of genetic knockouts of each isoform of TGF-β have revealed differing expression patterns and distinct roles for the three mammalian isoforms of TGF-β. Considerable effo...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms19082261

    authors： Komai T,Okamura T,Inoue M,Yamamoto K,Fujio K

    更新日期：2018-08-01 00:00:00

  • Melatonin: A Multifunctional Factor in Plants.

    abstract：:Melatonin (N-acetyl-5-methoxy-tryptamine) is a universal molecule that is present in animals and plants. It has been detected in different kinds of plants and organs in different levels. Melatonin in plants shares the same initial biosynthesis compound with auxin, and therefore functions as indole-3-acetic acid like h...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章,评审

    doi：10.3390/ijms19051528

    authors： Fan J,Xie Y,Zhang Z,Chen L

    更新日期：2018-05-21 00:00:00

  • Effects of Different Pollens on Primary Metabolism and Lignin Biosynthesis in Pear.

    abstract：:To investigate the effect of pollination on the fruit quality of 'Dangshan Su' pear, 'Dangshan Su' was fertilized by the pollen of 'Wonhwang' (Pyrus pyrifolia Nakai.) (DW) and 'Jingbaili' (Pyrus ussuriensis Maxim.) (DJ). The analysis of primary metabolites was achieved through untargeted metabolomics, and the quantita...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms19082273

    authors： Li S,Su X,Abdullah M,Sun Y,Li G,Cheng X,Lin Y,Cai Y,Jin Q

    更新日期：2018-08-02 00:00:00

  • Structural Identification of Antibacterial Lipids from Amazonian Palm Tree Endophytes through the Molecular Network Approach.

    abstract：:A library of 197 endophytic fungi and bacteria isolated from the Amazonian palm tree Astrocaryum sciophilum was extracted and screened for antibacterial activity against methicillin-resistant Staphylococcus aureus (MRSA). Four out of five antibacterial ethyl acetate extracts were also cytotoxic for the MRC-5 cells lin...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms20082006

    authors： Barthélemy M,Elie N,Pellissier L,Wolfender JL,Stien D,Touboul D,Eparvier V

    更新日期：2019-04-24 00:00:00

  • EbARC1, an E3 Ubiquitin Ligase Gene in Erigeron breviscapus, Confers Self-Incompatibility in Transgenic Arabidopsis thaliana.

    abstract：:Erigeron breviscapus (Vant.) Hand.-Mazz. is a famous traditional Chinese medicine that has positive effects on the treatment of cardiovascular and cerebrovascular diseases. With the increase of market demand (RMB 500 million per year) and the sharp decrease of wild resources, it is an urgent task to cultivate high-qua...

    journal_title：International journal of molecular sciences

    pub_type： 杂志文章

    doi：10.3390/ijms21041458

    authors： Chen M,Fan W,Hao B,Zhang W,Yan M,Zhao Y,Liang Y,Liu G,Lu Y,Zhang G,Zhao Z,Hu Y,Yang S

    更新日期：2020-02-20 00:00:00