A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2021; you can also visit the original URL.
The file type is application/pdf.
Filters
A Review of Sieve Algorithms in Solving the Shortest Lattice Vector Problem
2020
IEEE Access
Preserved Fulltext
H3K36 trimethylation-mediated biological functions in cancer
2021
Clinical Epigenetics
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2021; you can also visit the original URL.
The file type is application/pdf.
AbstractHistone modification is an important form of epigenetic regulation. Thereinto, histone methylation is a critical determination of chromatin states, participating in multiple cellular processes. As a conserved histone methylation mark, histone 3 lysine 36 trimethylation (H3K36me3) can mediate multiple transcriptional-related events, such as the regulation of transcriptional activity, transcription elongation, pre-mRNA alternative splicing, and RNA m6A methylation. Additionally, H3K36me3
doi:10.1186/s13148-021-01187-2
pmid:34715919
pmcid:PMC8555273
fatcat:ehdiuctudjdqtcl6eunukngmeq
more »
... lso contributes to DNA damage repair. Given the crucial function of H3K36me3 in genome regulation, the roles of H3K36me3 and its sole methyltransferase SETD2 in pathogenesis, especially malignancies, have been emphasized in many studies, and it is conceivable that disruption of histone methylation regulatory network composed of "writer", "eraser", "reader", and the mutation of H3K36me3 codes have the capacity of powerfully modulating cancer initiation and development. Here we review H3K36me3-mediated biological processes and summarize the latest findings regarding its role in cancers. We highlight the significance of epigenetic combination therapies in cancers.
GADD45B as a Prognostic and Predictive Biomarker in Stage II Colorectal Cancer
2018
Genes
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2019; you can also visit the original URL.
The file type is application/pdf.
GADD45B acts as a member of the growth arrest DNA damage-inducible gene family, which has demonstrated to play critical roles in DNA damage repair, cell growth, and apoptosis. This study aimed to explore the potential relationship between GADD45B expression and tumor progression and evaluate the clinical value of GADD45B in stage II colorectal cancer (CRC). The expression patterns and prognostic value of GADD45B in CRC were analyzed based on The Cancer Genomic Atlas (TCGA). GADD45B expression
doi:10.3390/genes9070361
pmid:30029519
pmcid:PMC6071283
fatcat:xorpwchz4ndhri4yp25ngzntri
more »
... atures of 306 patients with stage II CRC and 201 patients with liver metastasis of CRC were investigated using immunochemical staining on tissue microarrays. Afterward, survival analysis and stratification analysis were performed in stage II to explore the prognostic and predictive significance of GADD45B. Overexpressed GADD45B is associated with poorer prognosis for CRC patients both in overall survival (OS) (p < 0.001) and disease-free survival (DFS) (p = 0.001) based on the TCGA database. Analysis results according to the stage II CRC cohort and the liver metastatic CRC cohort revealed that GADD45B was gradually upregulated in normal mucosa including primary colorectal cancer (PCC). Colorectal liver metastases (CLM) tissues were arranged in order (normal tissue vs. PCC p = 0.005 and PCC vs. CLM p = 0.001). The low GADD45B group had a significantly longer five-year OS (p = 0.001) and progression-free survival (PFS) (p < 0.001) than the high GADD45B group for the stage II patients. The multivariate Cox regression analysis results proved that the expression level of GADD45B was an independent prognostic factor for stage II after radical surgery (OS: Hazard Ratio (HR) 0.479, [95% confidence interval (CI) 0.305–0.753] and PFS:HR 0.490, [95% CI 0.336–0.714]). In high GADD45B expression subgroup of stage II cohort, the patients who underwent adjuvant chemotherapy had longer PFS than those who did not (p = 0.008). High expression levels of GADD45B is an independent prognostic factor of decreased OS and PFS in stage II CRC patients. The stage II CRC patients with high GADD45B expression might benefit from adjuvant chemotherapy.
SDSS--IV MaNGA : The Inner Density Slopes of nearby galaxies
[article]
2019
arXiv
pre-print
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2020; you can also visit the original URL.
The file type is application/pdf.
We derive the mass weighted total density slopes within the effective (half-light) radius, γ', for more than 2000 nearby galaxies from the SDSS-IV MaNGA survey using Jeans-anisotropic-models applied to IFU observations. Our galaxies span a wide range of the stellar mass (10^9 M_< M_* < 10^12 M_) and the velocity dispersion (30 km/s < σ_v < 300 km/s). We find that for galaxies with velocity dispersion σ_v>100 km/s, the density slope has a mean value 〈γ^'〉 = 2.24 and a dispersion σ_γ=0.22, almost
arXiv:1903.09282v1
fatcat:pnbhshlhibaltikhuvhmvj3u7y
more »
... independent of velocity dispersion. A clear turn over in the γ'-σ_v relation is present at σ∼ 100 km/s, below which the density slope decreases rapidly with σ_v. Our analysis shows that a large fraction of dwarf galaxies (below M_* = 10^10 M_) have total density slopes shallower than 1, which implies that they may reside in cold dark matter halos with shallow density slopes. We compare our results with that of galaxies in hydrodynamical simulations of EAGLE, Illustris and IllustrisTNG projects, and find all simulations predict shallower density slopes for massive galaxies with high σ_v. Finally, we explore the dependence of γ' on the positions of galaxies in halos, namely centrals vs. satellites, and find that for the same velocity dispersion, the amplitude of γ' is higher for satellite galaxies by about 0.1.
Identification and characterization of ANO9 in stage II and III colorectal carcinoma
2015
OncoTarget
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2018; you can also visit the original URL.
The file type is application/pdf.
and Objectives: The precise role and potential underlying mechanisms of anoctamin 9 (ANO9) remain largely unknown. This study aims to characterize the role and oncogenic mechanisms of ANO9 in stage II and III colorectal cancer (CRC). Methods: We examined the expression of ANO9 in colorectal cancerous tissues and cells using real-time quantitative PCR and immunohistochemistry, respectively. Multiple cellular and molecular approaches such as gene transfection, CCK-8 assay, flow cytometry, and
doi:10.18632/oncotarget.4979
pmid:26317553
pmcid:PMC4745729
fatcat:wpg2s7itsjfmfkt47ha54gf5ei
more »
... sion assay were also performed to explore its oncogenic mechanisms. Furthermore, the clinical significance of ANO9 in clinical CRC specimens was assessed by clinical correlation and survival analyses. Results: Lower expression of ANO9 messenger RNA (mRNA) was frequently detected both in CRC tissues with recurrence and metastasis-derived cell lines. Compared with matched nontumorous tissues, lower expression of ANO9 protein was observed in tumors, which was significantly correlated with tumorigenesis (p < 0.05). In vitro functional studies showed that ANO9 contributed to tumor cell proliferation, apoptosis, and invasion. Moreover, investigation of clinical CRC specimens showed that ANO9 were markedly overexpressed in metastatic tissue compared with primary tissue. Decreased expression of ANO9 was correlated with poor prognostic outcomes. Conclusions: This study highlighted the role of ANO9 in progression and metastasis of stage II and III CRC. These findings suggested that up-regulation of ANO9, as a metastasis-related gene, could be a novel approach for inhibiting CRC progression.
Nicotianamine, a Novel Enhancer of Rice Iron Bioavailability to Humans
2010
PLoS ONE
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2017; you can also visit the original URL.
The file type is application/pdf.
Polished rice is a staple food for over 50% of the world's population, but contains little bioavailable iron (Fe) to meet human needs. Thus, biofortifying the rice grain with novel promoters or enhancers of Fe utilization would be one of the most effective strategies to prevent the high prevalence of Fe deficiency and iron deficiency anemia in the developing world. Methodology/Principal Findings: We transformed an elite rice line cultivated in Southern China with the rice nicotianamine synthase
doi:10.1371/journal.pone.0010190
pmid:20419136
pmcid:PMC2855712
fatcat:7647aqetlvbircsfndwxj525ry
more »
... gene (OsNAS1) fused to a rice glutelin promoter. Endosperm overexpression of OsNAS1 resulted in a significant increase in nicotianamine (NA) concentrations in both unpolished and polished grain. Bioavailability of Fe from the high NA grain, as measured by ferritin synthesis in an in vitro Caco-2 cell model that simulates the human digestive system, was twice as much as that of the control line. When added at 1:1 molar ratio to ferrous Fe in the cell system, NA was twice as effective when compared to ascorbic acid (one of the most potent known enhancers of Fe bioavailability) in promoting more ferritin synthesis. Conclusions: Our data demonstrated that NA is a novel and effective promoter of iron utilization. Biofortifying polished rice with this compound has great potential in combating global human iron deficiency in people dependent on rice for their sustenance.
LncRNA EGOT/miR-211-5p Affected Radiosensitivity of Rectal Cancer by Competitively Regulating ErbB4
2021
OncoTargets and Therapy
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2021; you can also visit the original URL.
The file type is application/pdf.
Long non-coding ribonucleic acids (lncRNAs) are involved in the progression of cancers and affect the response to radiation therapy. This study was to investigate the mechanism of lncRNA EGOT in the radiosensitivity of rectal cancer. The mRNA expression of EGOT, miR-211-5p and ErbB4 in rectal cancer tissues and cells was detected by qRT-PCR. The protein expression of ErbB4 was detected by Western blot. Dual-luciferase reporter assay and ribonucleic acid immunoprecipitation (RIP) were used to
doi:10.2147/ott.s256989
pmid:33953571
pmcid:PMC8091867
fatcat:2jauzifd6rgqdcge2luomm5nqe
more »
... firm the interaction between EGOT and miR-211-5p or miR-211-5p and ErbB4. Transfection technology was used to down-regulate and up-regulate the expression of EGOT and miR-211-5p in rectal cancer cells, respectively. MTT, colony formation and flow cytometry were used to detect the effect of EGOT and miR-211-5p on proliferation, invasion, migration and apoptosis of rectal cancer cells. The expression of EGOT was up-regulated in rectal cancer tissues and cells, and the expression of EGOT was related to the late stage of pathology. EGOT knockdown inhibited the proliferation and colony formation of rectal cancer cells and induced the apoptosis of rectal cancer cells. Moreover, EGOT knockdown was significantly enhanced the effects of radiotherapy on rectal cancer in vivo and in vitro. Furthermore, EGOT was found to serve as a sponge of miR-211-5p, and ErbB4 was a downstream target of miR-211-5p. EGOT enhanced the expression of ErbB4 by regulating miR-211-5p. MiR-211-5p inhibitor restored the effect of EGOT knockdown on the radiosensitivity of rectal cancer. Down-regulation of EGOT could inhibit the growth of rectal cancer cells by regulating the miR-211-5p/ErbB4 axis and improve the radiosensitivity of rectal cancer cells. EGOT may be a new therapeutic target for rectal cancer.
Integrating cross-linking experiments with ab initio protein-protein docking
[article]
2018
bioRxiv
pre-print
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2019; you can also visit the original URL.
The file type is application/pdf.
Ab initio protein-protein docking algorithms often rely on experimental data to identify the most likely complex structure. We integrated protein-protein docking with the experimental data of chemical cross-linking followed by mass spectrometry. We tested our approach using 12 cases that resulted from an exhaustive search of the Protein Data Bank for protein complexes with cross-links identified in our experiments. We implemented cross-links as constraints based on Euclidean distance or
doi:10.1101/275891
fatcat:giwt7ixvefdxngfqyhvvvpww3e
more »
... ume distance. For most test cases the rank of the top-scoring near-native prediction was improved by at least two fold compared with docking without the cross-link information, and the success rates for the top 5 and top 10 predictions doubled. Our results demonstrate the delicate balance between retaining correct predictions and eliminating false positives. Several test cases had multiple components with distinct interfaces, and we present an approach for assigning cross-links to the interfaces. Employing the symmetry information for these cases further improved the performance of complex structure prediction.
An Integrated Approach to Uncover Driver Genes in Breast Cancer Methylation Genomes
2013
PLoS ONE
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2017; you can also visit the original URL.
The file type is application/pdf.
Cancer cells typically exhibit large-scale aberrant methylation of gene promoters. Some of the genes with promoter methylation alterations play "driver" roles in tumorigenesis, whereas others are only "passengers". Results: Based on the assumption that promoter methylation alteration of a driver gene may lead to expression alternation of a set of genes associated with cancer pathways, we developed a computational framework for integrating promoter methylation and gene expression data to
doi:10.1371/journal.pone.0061214
pmid:23579546
pmcid:PMC3620319
fatcat:welnxero65fh5itbsx23oiy6uu
more »
... driver methylation aberrations of cancer. Applying this approach to breast cancer data, we identified many novel cancer driver genes and found that some of the identified driver genes were subtypespecific for basal-like, luminal-A and HER2+ subtypes of breast cancer. Conclusion: The proposed framework proved effective in identifying cancer driver genes from genome-wide gene methylation and expression data of cancer. These results may provide new molecular targets for potential targeted and selective epigenetic therapy.
Cross-linking Measurements ofIn VivoProtein Complex Topologies
2011
Molecular & Cellular Proteomics
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2018; you can also visit the original URL.
The file type is application/pdf.
Identification and measurement of in vivo protein interactions pose critical challenges in the goal to understand biological systems. The measurement of structures and topologies of proteins and protein complexes as they exist in cells is particularly challenging, yet critically important to improve understanding of biological function because proteins exert their intended function only through the structures and interactions they exhibit in vivo. In the present study, protein interactions in
doi:10.1074/mcp.m110.006841
pmid:21697552
pmcid:PMC3205858
fatcat:5p66tg6ncjg5bkvzkfcw4um7hq
more »
... coli cells were identified in our unbiased cross-linking approach, yielding the first in vivo topological data on many interactions and the largest set of identified in vivo crosslinked peptides produced to date. These data show excellent agreement with protein and complex crystal structures where available. Furthermore, our unbiased data provide novel in vivo topological information that can impact understanding of biological function, even for cases where high resolution structures are not yet available. Molecular & Cellular 1 The abbreviations used are: PIR, protein interaction reporter; Omp A, outer membrane protein A; LC-MS/MS, liquid chromatography tandem MS; LTQ-FT MS, linear trap quadrupole-Fourier transform MS; ISCID, in-source collision-induced dissociation; PDB, Protein Data Bank. Research
Quantitative interactome analysis reveals a chemoresistant edgotype
2015
Nature Communications
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2020; you can also visit the original URL.
The file type is application/pdf.
Chemoresistance is a common mode of therapy failure for many cancers. Tumours develop resistance to chemotherapeutics through a variety of mechanisms, with proteins serving pivotal roles. Changes in protein conformations and interactions affect the cellular response to environmental conditions contributing to the development of new phenotypes. The ability to understand how protein interaction networks adapt to yield new function or alter phenotype is limited by the inability to determine
doi:10.1038/ncomms8928
pmid:26235782
pmcid:PMC4532879
fatcat:7nccejnhfrdxzgedsw6b2fdqbi
more »
... ral and protein interaction changes on a proteomic scale. Here, chemical crosslinking and mass spectrometry were employed to quantify changes in protein structures and interactions in multidrug-resistant human carcinoma cells. Quantitative analysis of the largest crosslinking-derived, protein interaction network comprising 1,391 crosslinked peptides allows for 'edgotype' analysis in a cell model of chemoresistance. We detect consistent changes to protein interactions and structures, including those involving cytokeratins, topoisomerase-2-alpha, and post-translationally modified histones, which correlate with a chemoresistant phenotype.
Motor Dynamic Loading and Comprehensive Test System Based on FPGA and MCU
2022
Electronics
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2022; you can also visit the original URL.
The file type is application/pdf.
In view of the problem that the traditional motor test system cannot directly test the transient parameters of the motor and the dynamic arbitrary load loading requirements during motor loading, as well as the high cost of implementation, this research uses STM32+FPGA as the core to form the main control of the motor test system unit, combining the superior control performance of the ARM processor and the high-speed data processing advantages of FPGA. FPGA and STM32 are controlled by the FSMC
doi:10.3390/electronics11091317
fatcat:iocnayklmngm5hd6ly6rbjc5aa
more »
... s communication and data ping-pong algorithm. Using this method, a small-size control core board in the motor test system is manufactured. It can be embedded in the existing traditional dynamometer system to improve the dynamometer transient parameter test and the dynamic motor loading performance. The experimental results show that the system can basically meet the requirements of the motor transient test and dynamic loading, and can achieve the fastest data refresh rate of 1 ms when measuring the motor's speed and torque, as well as arbitrary waveform loading within a 100 M sampling frequency, with a loading error of 0.8%. It satisfies the motor transient test and dynamic loading requirements.
Apolipoprotein E Overexpression Is Associated With Tumor Progression and Poor Survival in Colorectal Cancer
2018
Frontiers in Genetics
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2019; you can also visit the original URL.
The file type is application/pdf.
., 2005; Zheng et al., 2018) . ...
doi:10.3389/fgene.2018.00650
pmid:30631342
pmcid:PMC6315167
fatcat:mya5a72mynd3pp4hu5j5c2i4da
ERAP2 Is Associated With Immune Infiltration and Predicts Favorable Prognosis in SqCLC
2021
Frontiers in Immunology
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2021; you can also visit the original URL.
The file type is text/html.
, Zheng, Wang, Li, Gao and He. ...
Y, Zheng B, Wang J, Li C, Gao S and He J (2021) ERAP2 Is Associated With Immune Infiltration and Predicts Favorable Prognosis in SqCLC. ...
doi:10.3389/fimmu.2021.788985
pmid:34992605
pmcid:PMC8725995
fatcat:dn3njfdrszfbrcfj5ppcvcgila
Analysis of Spatiotemporal Characteristics of Pandemic SARS Spread in Mainland China
2016
BioMed Research International
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2019; you can also visit the original URL.
The file type is application/pdf.
Authors' Contributions Chunxiang Cao and Wei Chen were the main researchers and responsible for the data analysis and paper writing. ...
Wei Chen and Sheng Zheng performed data processing and model implementation. Jinfeng Wang commented on idea selection. Wuchun Cao provided SARS data and supervised the modelling details. ...
doi:10.1155/2016/7247983
pmid:27597972
pmcid:PMC5002496
fatcat:ycydlzc6qfcdjaxqic7teloj3e
« Previous
Showing results 1 — 15 out of 231 results