Abstract:
:The comparison of the landscape of somatic alterations in circulating tumor cells (CTCs) versus metastases is challenging. Here, we comprehensively characterized the somatic landscape in bulk (amplified and non-amplified), spike-in breast cancer cells, CTCs, and metastases from breast cancer patients using whole-exome sequencing (WES). We determined the level of genomic concordance for somatic nucleotide variants (SNVs), copy number alterations (CNAs), and structural variants (SVs). The variant allele fractions (VAFs) of somatic variants were remarkably similar between amplified and non-amplified cell line samples as technical replicates. In clinical samples, a significant fraction of somatic variants had low VAFs in CTCs compared to metastases. The most frequently recurrent gene mutations in clinical samples were associated with an elevated C > T mutational signature. We found complex rearrangement patterns including intra- and inter-chromosomal rearrangements, singleton, and recurrent gene fusions, and tandem duplications. We observed high molecular discordance for somatic alterations between paired samples consistent with marked heterogeneity of the somatic landscape. The most prevalent copy number calls were focal deletion events in CTCs and metastases. Our results demonstrate the feasibility of an integrated workflow for the identification of a complete repertoire of somatic alterations and highlight the intrapatient genomic differences that occur between CTCs and metastases.
journal_name
Int J Mol Scijournal_title
International journal of molecular sciencesauthors
Kaur P,Campo D,Porras TB,Ring A,Lu J,Chairez Y,Su Y,Kang I,Lang JEdoi
10.3390/ijms21144826subject
Has Abstractpub_date
2020-07-08 00:00:00issue
14issn
1422-0067pii
ijms21144826journal_volume
21pub_type
杂志文章abstract::This study investigated the interaction between eupatorin and bovine serum albumin (BSA) using ultraviolet-visible (UV-vis) absorption, fluorescence, synchronous fluorescence, circular dichroism (CD) spectroscopies, and molecular modeling at pH 7.4. Results of UV-vis and fluorescence spectroscopies illustrated that BS...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms140714185
更新日期:2013-07-09 00:00:00
abstract::Metastasis to the brain is a feared complication of systemic cancer, associated with significant morbidity and poor prognosis. A better understanding of the tumor metabolism might help us meet the challenges in controlling brain metastases. The study aims to characterize the metabolic profile of brain metastases of di...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms14012104
更新日期:2013-01-22 00:00:00
abstract::Aerobic metabolism occurs in a background of oxygen radicals and reactive oxygen species (ROS) that originate from the incomplete reduction of molecular oxygen in electron transfer reactions. The essential role of aerobic metabolism, the generation and consumption of ATP and other high energy phosphates, sustains a ba...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms12106469
更新日期:2011-01-01 00:00:00
abstract::The forced swim stress test (FST) is widely used for screening pharmacological or non-pharmacological strategies with potential antidepressant activities. Recent data have suggested that repeated FST for five consecutive days (i.e., 5d-RFSS) could be used to generate a robust depressive-like phenotype in mice. However...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms22020937
更新日期:2021-01-19 00:00:00
abstract::Calorie restriction (CR) inhibits prostate cancer progression, partially through modulation of the IGF axis. IGF-1 receptor (IGF-1R) blockade reduces prostate cancer xenograft growth. We hypothesized that combining calorie restriction with IGF-1R blockade would have an additive effect on prostate cancer growth. Severe...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms140713782
更新日期:2013-07-03 00:00:00
abstract::Tetraploid black locust (Robinia pseudoacacia L.) is adaptable to salt stress. Here, we compared morphological, physiological, ultrastructural, and proteomic traits of leaves in tetraploid black locust and its diploid relatives under salt stress. The results showed that diploid (2×) plants suffered from greater negati...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms141020299
更新日期:2013-10-14 00:00:00
abstract::The recognition of cell surface glycans by lectins may be critical for the innate and adaptive immune responses. ArtinM, a d-mannose-binding lectin from Artocarpus heterophyllus, activates antigen-presenting cells by recognizing TLR2 N-glycans and induces Th1 immunity. We recently demonstrated that ArtinM stimulated C...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms18071400
更新日期:2017-06-30 00:00:00
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
更新日期:2019-06-17 00:00:00
abstract::A state of the art proteomic methodology using Matrix Assisted Laser Desorption/Ionization-Time of Flight (MALDI TOF) has been employed to characterize peptides modulated in the date palm stem subsequent to infestation with red palm weevil (RPW). Our analyses revealed 32 differentially expressed peptides associated wi...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms160819326
更新日期:2015-08-17 00:00:00
abstract::Photodynamic inactivation (PDI) is a non-antibiotic option for the treatment of infectious diseases. Although Gram-positive bacteria have been shown to be highly susceptible to PDI, the inactivation of Gram-negative bacteria has been more challenging due to the impermeability properties of the outer membrane. In the p...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms20010134
更新日期:2019-01-01 00:00:00
abstract::The yield losses in cereal crops because of abiotic stress and the expected huge losses from climate change indicate our urgent need for useful traits to achieve food security. The stay-green (SG) is a secondary trait that enables crop plants to maintain their green leaves and photosynthesis capacity for a longer time...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms20235837
更新日期:2019-11-20 00:00:00
abstract::Transcriptome profiling of 3D models compared to 2D models in various cancer cell lines shows differential expression of TGF-β-mediated and cell adhesion pathways. Presence of TGF-β in these cell lines shows an increased invasion potential which is specific to cell type. In the present study, we identified exogenous a...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms20143568
更新日期:2019-07-22 00:00:00
abstract::An ongoing challenge in functional epigenomics is to develop tools for precise manipulation of epigenetic marks. These tools would allow moving from correlation-based to causal-based findings, a necessary step to reach conclusions on mechanistic principles. In this review, we describe and discuss the advantages and li...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms22020512
更新日期:2021-01-06 00:00:00
abstract::Human induced pluripotent stem cells (iPSCs) hold enormous promise for regenerative medicine. The major safety concern is the tumorigenicity of transplanted cells derived from iPSCs. A potential solution would be to introduce a suicide gene into iPSCs as a safety switch. The herpes simplex virus type 1 thymidine kinas...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms20040810
更新日期:2019-02-14 00:00:00
abstract::In the development of drugs, we sometimes encounter fatty change of the hepatocytes (steatosis) which is not accompanied by degenerative change in the liver in non-clinical toxicity studies. In this study, we investigated the relationships between fatty change of the hepatocytes noted in non-clinical toxicity studies ...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms18040810
更新日期:2017-04-12 00:00:00
abstract::The centromere, in which kinetochore proteins are assembled, plays an important role in the accurate congression and segregation of chromosomes during cell mitosis. Although the function of the centromere and kinetochore is conserved from monocentric to holocentric, the DNA sequences of the centromere and components o...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms20235823
更新日期:2019-11-20 00:00:00
abstract::Early inhibition of inflammation suppresses the carcinogenic process. Aspirin is the most commonly used non-steroid anti-inflammatory drugs (NSAIDs), and it irreversibly inhibits cyclooxygenase-1 and -2 (COX1, COX2). Multiple randomized clinical trials have demonstrated that aspirin offers substantial protection from ...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms19010166
更新日期:2018-01-06 00:00:00
abstract::Ischemia-reperfusion injury (IRI) is a major cause of graft loss and dysfunction in clinical transplantation and organ resection. [...]. ...
journal_title:International journal of molecular sciences
pub_type: 社论
doi:10.3390/ijms19124093
更新日期:2018-12-18 00:00:00
abstract::Melatonin is produced by the pineal gland. It can be regarded as an anticancer agent and used for combined therapy, owing to its oncostatic, antioxidant, and immunoregulatory activities. Retinoic acid is widely used for the treatment of acute promyelocytic leukemia; however, it has adverse effects on the human organis...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms19102873
更新日期:2018-09-21 00:00:00
abstract::Facioscapulohumeral muscular dystrophy (FSHD) is a disabling inherited muscular disorder characterized by asymmetric, progressive muscle weakness and degeneration. Patients display widely variable disease onset and severity, and sometimes present with extra-muscular symptoms. There is a consensus that FSHD is caused b...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms21030729
更新日期:2020-01-22 00:00:00
abstract::Tumor cells metastasize to distal organs mainly through hematogenous dissemination, where they experience considerable levels of fluid shear stress. Epithelial-mesenchymal transition (EMT) plays a critical role in tumor metastasis. However, how fluid shear stress influences the EMT phenotype of circulating tumor cells...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms21218115
更新日期:2020-10-30 00:00:00
abstract::TSPO is a receptor involved in the regulation of cellular proliferation, apoptosis and mitochondrial functions. Previous studies showed that the expression of TSPO protein correlated positively with tumour malignancy and negatively with patient survival. The aim of this study was to determine the transcription of Tspo...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms19082176
更新日期:2018-07-25 00:00:00
abstract::Cells have evolved balanced systems that ensure an appropriate response to stress. The systems elicit repair responses in temporary or moderate stress but eliminate irreparable cells via apoptosis in detrimental conditions of prolonged or severe stress. The tumor suppressor p53 is a central player in these stress resp...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms20205179
更新日期:2019-10-18 00:00:00
abstract::Plant phenolics have been for many years a theme of major scientific and applied interest. Grape berry phenolics contribute to organoleptic properties, color and protection against environmental challenges. Climate change has already caused significant warming in most grape-growing areas of the world, and the climatic...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms140918711
更新日期:2013-09-11 00:00:00
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
更新日期:2018-08-01 00:00:00
abstract::This paper reports the rapid melt quenching technique preparation for the new family of bismuth-lead germanate glass (BPG) systems in the form of (GeO(2))(60)-(PbO)(40-) (x)-(½Bi(2)O(3))(x) where x = 0 to 40 mol%. Their densities with respect of Bi(2)O(3) concentration were determined using Archimedes' method with ace...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms13044632
更新日期:2012-01-01 00:00:00
abstract::To date, viruses are reported to be responsible for more than 15% of all tumors worldwide. The oncogenesis could be influenced directly by the activity of viral oncoproteins or by the chronic infection or inflammation. The group of human oncoviruses includes Epstein–Barr virus (EBV), human papillomavirus (HPV), ...
journal_title:International journal of molecular sciences
pub_type: 杂志文章,评审
doi:10.3390/ijms19041217
更新日期:2018-04-17 00:00:00
abstract::Salidroside (Sal) is an active ingredient that is isolated from Rhodiola rosea, which has been reported to have anti-inflammatory activities and a renal protective effect. However, the role of Sal on renal fibrosis has not yet been elucidated. Here, the purpose of the current study is to test the protective effects of...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms20051103
更新日期:2019-03-04 00:00:00
abstract::In the endoplasmic reticulum (ER), misfolded and unfolded proteins are eliminated by a process called ER-associated protein degradation (ERAD) in order to maintain cell homeostasis. In the ERAD pathway, several ER-localized E3 ubiquitin ligases target ERAD substrate proteins for ubiquitination and subsequent proteasom...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms17111829
更新日期:2016-11-02 00:00:00
abstract::Idiopathic pulmonary fibrosis (IPF) is a progressive, fibrotic interstitial pneumonia with high mortality. Melatonin, a hormone predominantly secreted by the pineal gland, has been reported to participate in the process of IPF. However, the mechanisms underlying the effect of melatonin in pulmonary fibrosis have not b...
journal_title:International journal of molecular sciences
pub_type: 杂志文章
doi:10.3390/ijms19041118
更新日期:2018-04-09 00:00:00