keyword
MENU ▼
Read by QxMD icon Read
search

DNase

keyword
https://www.readbyqxmd.com/read/29346567/epithelial-grafting-of-a-decellularized-whole-tracheal-segment-an-in-vivo-experimental-model
#1
Margot Den Hondt, Bart M Vanaudenaerde, Eric K Verbeken, Jan J Vranckx
OBJECTIVES: Prerequisites for successful trachea transplantation include the use of a biocompatible construct, submucosal vascularization and an epithelial covering. Implantation of non-epithelialized tracheal scaffolds may lead to stenosis. However, epithelial grafting or seeding can only be attempted onto a well-vascularized submucosal bed. Our aim was to investigate a method to prevent stenosis during prelamination of non-epithelialized, gently decellularized rabbit tracheae and to evaluate whether grafting of revascularized constructs with buccal mucosa is feasible...
January 15, 2018: Interactive Cardiovascular and Thoracic Surgery
https://www.readbyqxmd.com/read/29346247/concurrent-versus-sequential-intrapleural-instillation-of-tissue-plasminogen-activator-and-deoxyribonuclease-for-pleural-infection
#2
Fayez Kheir, George Cheng, Estefania Rivera, Alejandro Folch, Erik Folch, Fernandez-Bussy Sebastian, Colleen Keyes, Mihir Parikh, Colleen Channick, Alex Chee, Adnan Majid
BACKGROUND: Treatment of pleural infection with instillation of sequential intrapleural tissue plasminogen activator (tPA) and human recombinant deoxyribonuclease (DNase) twice daily for a total of 6 doses has been shown to decrease surgical referral and improve radiographic imaging. This labor-intensive regimen was empirically chosen. Thus, it remains unclear whether the 2 drugs can be administered immediately one after the other (concurrent administration) instead of instilling them separately with a 1-hour to 2-hour interval in between (sequential administration)...
January 16, 2018: Journal of Bronchology & Interventional Pulmonology
https://www.readbyqxmd.com/read/29344873/laser-capture-microdissection-and-rna-extraction-from-perfusion-fixed-cartilage-and-bone-tissue-from-mice-implanted-with-human-ipsc-derived-mscs-in-a-calvarial-defect-model
#3
Xiaonan Xin, Xi Jiang, Alexander Lichtler, Mark Kronenberg, David Rowe, Joel S Pachter
Laser-capture microdissection (LCM) coupled to downstream RNA analysis poses unique difficulties for the evaluation of mineralized tissues. A rapid protocol was thus developed to enable sufficient integrity of bone and cartilage tissue for reliable sectioning, while minimizing RNA loss associated with prolonged decalcification and purification steps. Specifically, the protocol involves pump-assisted, cardiac perfusion-fixation with paraformaldehyde, and moderate digestion of LCM-acquired tissue with proteinase K followed by DNase treatment and separation of RNA using magnetic beads...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29336772/tpa-dnase-for-complicated-parapneumonic-effusions-and-empyemas
#4
Amelia Maiga, Rhonda Pinkerman, Stephen A Deppen, Jennifer Scruggs, Philip Mcguire, John L Tarpley, Eric L Grogan
No abstract text is available yet for this article.
December 1, 2017: American Surgeon
https://www.readbyqxmd.com/read/29330531/low-density-neutrophils-ldn-in-postoperative-abdominal-cavity-assist-the-peritoneal-recurrence-through-the-production-of-neutrophil-extracellular-traps-nets
#5
Rihito Kanamaru, Hideyuki Ohzawa, Hideyo Miyato, Shiro Matsumoto, Hidenori Haruta, Kentaro Kurashina, Shin Saito, Yoshinori Hosoya, Hironori Yamaguchi, Hiroharu Yamashita, Yasuyuki Seto, Alan Kawarai Lefor, Naohiro Sata, Joji Kitayama
Many types of immune cells appear in peritoneal cavity after abdominal surgery. In patients who underwent laparotomy due to gastric cancer, peritoneal lavages were obtained before and after surgical procedure. Cells were recovered from intermediate layer after Ficoll-Hypaque centrifugation and analyzed for phenotypes and functions, especially focused on low density neutrophils (LDN). The number of CD66b (+) LDN with mature phenotype was markedly elevated in postoperative as compared with preoperative lavages...
January 12, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29322784/bioinformatic-analysis-of-changes-in-rna-polymerase-ii-transcription-stimulated-by-estradiol-in-mcf7-cells
#6
J Wu, Y Cai, G Zhao
Estradiol (E2) is the most potent estrogen and RNA polymerase II (Pol II) regulates a great mass of gene expression. This study was designed to illustrate the mechanisms of estrogen-dependent human breast cancer (BC) through Pol II. ChIP-seq data, DNase-seq data and other sequencing data of human BC MCF-7 cells were downloaded from Gene Expression Omnibus database. Each of these datasets included one control and one E2 treated sample. Sequence alignment was performed and Pol II factor binding signal was determined...
2018: Neoplasma
https://www.readbyqxmd.com/read/29315344/culture-independent-analysis-of-liver-abscess-using-nanopore-sequencing
#7
Liang Gong, Yao-Ting Huang, Chee-Hong Wong, Wen-Cheng Chao, Zong-Yen Wu, Chia-Lin Wei, Po-Yu Liu
The identification of microbial species has depended predominantly upon culture-based techniques. However, the difficulty with which types of organisms are cultured implies that the grown species may be overrepresented by both cultivation and plate counts. In recent years, culture-independent analysis using high-throughput sequencing has been advocated for use as a point-of-care diagnostic tool. Although it offers a rapid and unbiased survey to characterize the pathogens in clinical specimens, its accuracy is reduced by the high level of contamination of human DNA...
2018: PloS One
https://www.readbyqxmd.com/read/29305491/local-sequence-features-that-influence-ap-1-cis-regulatory-activity
#8
Hemangi G Chaudhari, Barak A Cohen
In the genome, most occurrences of transcription factor binding sites (TFBS) have no cis-regulatory activity, which suggests that flanking sequences contain information that distinguishes functional from non-functional TFBS. We interrogated the role of flanking sequences near Activator Protein 1 (AP-1) binding sites that reside in DNase I Hypersensitive Sites (DHS) and regions annotated as Enhancers. In these regions we found that sequence features directly adjacent to the core motif distinguish high from low activity AP-1 sites...
January 5, 2018: Genome Research
https://www.readbyqxmd.com/read/29304739/exploring-the-relationship-between-intron-retention-and-chromatin-accessibility-in-plants
#9
Fahad Ullah, Michael Hamilton, Anireddy S N Reddy, Asa Ben-Hur
BACKGROUND: Intron retention (IR) is the most prevalent form of alternative splicing in plants. IR, like other forms of alternative splicing, has an important role in increasing gene product diversity and regulating transcript functionality. Splicing is known to occur co-transcriptionally and is influenced by the speed of transcription which in turn, is affected by chromatin structure. It follows that chromatin structure may have an important role in the regulation of splicing, and there is preliminary evidence in metazoans to suggest that this is indeed the case; however, nothing is known about the role of chromatin structure in regulating IR in plants...
January 5, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29303169/amplified-detection-of-genome-containing-biological-targets-using-terminal-deoxynucleotidyl-transferase-assisted-rolling-circle-amplification
#10
Yi-Chen Du, Yan-Jun Zhu, Xiao-Yu Li, De-Ming Kong
We proposed a terminal deoxynucleotidyl transferase (TdT)-assisted rolling circle amplification (RCA) strategy for the amplified detection of genome-containing biological targets. The synergetic signal amplification of DNase I-mediated genomic DNA fragmentation and subsequent RCA allow the sensing platform to have extraordinarily high sensitivity.
January 5, 2018: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/29295990/obligatory-and-facilitative-allelic-variation-in-the-dna-methylome-within-common-disease-associated-loci
#11
Christopher G Bell, Fei Gao, Wei Yuan, Leonie Roos, Richard J Acton, Yudong Xia, Jordana Bell, Kirsten Ward, Massimo Mangino, Pirro G Hysi, Jun Wang, Timothy D Spector
Integrating epigenetic data with genome-wide association study (GWAS) results can reveal disease mechanisms. The genome sequence itself also shapes the epigenome, with CpG density and transcription factor binding sites (TFBSs) strongly encoding the DNA methylome. Therefore, genetic polymorphism impacts on the observed epigenome. Furthermore, large genetic variants alter epigenetic signal dosage. Here, we identify DNA methylation variability between GWAS-SNP risk and non-risk haplotypes. In three subsets comprising 3128 MeDIP-seq peripheral-blood DNA methylomes, we find 7173 consistent and functionally enriched Differentially Methylated Regions...
January 2, 2018: Nature Communications
https://www.readbyqxmd.com/read/29289958/regulatory-variants-of-foxg1-in-the-context-of-its-topological-domain-organisation
#12
Mana M Mehrjouy, Ana Carolina S Fonseca, Nadja Ehmke, Giorgio Paskulin, Antonio Novelli, Francesco Benedicenti, Maria Antonietta Mencarelli, Alessandra Renieri, Tiffany Busa, Chantal Missirian, Claus Hansen, Kikue Terada Abe, Carlos Eduardo Speck-Martins, Angela M Vianna-Morgante, Mads Bak, Niels Tommerup
FOXG1 syndrome is caused by FOXG1 intragenic point mutations, or by long-range position effects (LRPE) of intergenic structural variants. However, the size of the FOXG1 regulatory landscape is uncertain, because the associated topologically associating domain (TAD) in fibroblasts is split into two domains in embryonic stem cells (hESC). Indeed, it has been suggested that the pathogenetic mechanism of deletions that remove the stem-cell-specific TAD boundary may be enhancer adoption due to ectopic activity of enhancer(s) located in the distal hESC-TAD...
December 30, 2017: European Journal of Human Genetics: EJHG
https://www.readbyqxmd.com/read/29287631/phenotypical-characterization-and-molecular-identification-of-clinical-isolates-of-candida-tropicalis
#13
Rogelio de J Treviño-Rangel, Byron A Bodden-Mendoza, Alexandra M Montoya, Hiram Villanueva-Lozano, Mariana Elizondo-Zertuche, Efrén Robledo-Leal, Gloria M González
BACKGROUND: Candida tropicalis is an increasingly important human pathogen which usually affects neutropenic oncology patients with common hematogenous seeding to peripheral organs and high mortality rates. Candida pathogenicity is facilitated by several virulence attributes, including secretion of hydrolytic enzymes; however, little is known regarding the C. tropicalis ability to secrete them and their role in the disease. AIMS: To confirm by molecular means the identification of 187 clinical isolates (127 from blood, 52 from urine, and 8 from diverse clinical origins) phenotypically identified as C...
December 26, 2017: Revista Iberoamericana de Micología
https://www.readbyqxmd.com/read/29286394/processing-of-human-cardiac-tissue-toward-extracellular-matrix-self-assembling-hydrogel-for-in-vitro-and-in-vivo-applications
#14
Matthias Becker, Janita A Maring, Barbara Oberwallner, Benjamin Kappler, Oliver Klein, Volkmar Falk, Christof Stamm
Acellular extracellular matrix preparations are useful for studying cell-matrix interactions and facilitate regenerative cell therapy applications. Several commercial extracellular matrix products are available as hydrogels or membranes, but these do not possess tissue-specific biological activity. Because perfusion decellularization is usually not possible with human heart tissue, we developed a 3-step immersion decellularization process. Human myocardial slices procured during surgery are first treated with detergent-free hyperosmolar lysis buffer, followed by incubation with the ionic detergent, sodium dodecyl sulfate, and the process is completed by exploiting the intrinsic DNase activity of fetal bovine serum...
December 4, 2017: Journal of Visualized Experiments: JoVE
https://www.readbyqxmd.com/read/29285144/icaritin-inhibits-decidualization-of-endometrial-stromal-cells
#15
Aiwen Le, Zhong Hai Wang, Xiao Yun Dai, Tian Hui Xiao, Rong Zhuo, Baozhen Zhang, Zhonglin Xiao, Xiujun Fan
The aim of the present study was to investigate the effects of Icaritin on the proliferation and decidualization of endometrial stromal cells (ESCs). A total of 20 specimens of endometrium were collected during hysterectomy at the Gynecology Department of Shenzhen Nanshan People's Hospital (Shenzhen, China) between August 2014 and December 2015. The endometrium was digested with high concentrations of collagenase and DNase and filtered with meshes, and then the glandular epithelial and stromal cells were separated by the adhesion purification method...
December 2017: Experimental and Therapeutic Medicine
https://www.readbyqxmd.com/read/29284524/bidirectional-transcription-initiation-marks-accessible-chromatin-and-is-not-specific-to-enhancers
#16
Robert S Young, Yatendra Kumar, Wendy A Bickmore, Martin S Taylor
BACKGROUND: Enhancers are modular regulatory elements that are central to the spatial and temporal regulation of gene expression. Bidirectional transcription initiating at enhancers has been proposed to mark active enhancers and as such has been utilized to experimentally identify active enhancers de novo. RESULTS: Here, we show that bidirectional transcription initiation is a pervasive feature of accessible chromatin, including at enhancers, promoters, and other DNase hypersensitive regions not marked with canonical histone modification profiles...
December 28, 2017: Genome Biology
https://www.readbyqxmd.com/read/29284001/dnase-capture-reveals-differential-transcription-factor-binding-modalities
#17
Daniel Kang, Richard Sherwood, Amira Barkal, Tatsunori Hashimoto, Logan Engstrom, David Gifford
We describe DNase-capture, an assay that increases the analytical resolution of DNase-seq by focusing its sequencing phase on selected genomic regions. We introduce a new method to compensate for capture bias called BaseNormal that allows for accurate recovery of transcription factor protection profiles from DNase-capture data. We show that these normalized data allow for nuanced detection of transcription factor binding heterogeneity with as few as dozens of sites.
2017: PloS One
https://www.readbyqxmd.com/read/29259162/type-i-interferon-mediated-autoinflammation-due-to-dnase-ii-deficiency
#18
Mathieu P Rodero, Alessandra Tesser, Eva Bartok, Gillian I Rice, Erika Della Mina, Marine Depp, Benoit Beitz, Vincent Bondet, Nicolas Cagnard, Darragh Duffy, Michael Dussiot, Marie-Louise Frémond, Marco Gattorno, Flavia Guillem, Naoki Kitabayashi, Fabrice Porcheray, Frederic Rieux-Laucat, Luis Seabra, Carolina Uggenti, Stefano Volpi, Leo A H Zeef, Marie-Alexandra Alyanakian, Jacques Beltrand, Anna Monica Bianco, Nathalie Boddaert, Chantal Brouzes, Sophie Candon, Roberta Caorsi, Marina Charbit, Monique Fabre, Flavio Faletra, Muriel Girard, Annie Harroche, Evelyn Hartmann, Dominique Lasne, Annalisa Marcuzzi, Bénédicte Neven, Patrick Nitschke, Tiffany Pascreau, Serena Pastore, Capucine Picard, Paolo Picco, Elisa Piscianz, Michel Polak, Pierre Quartier, Marion Rabant, Gabriele Stocco, Andrea Taddio, Florence Uettwiller, Erica Valencic, Diego Vozzi, Gunther Hartmann, Winfried Barchet, Olivier Hermine, Brigitte Bader-Meunier, Alberto Tommasini, Yanick J Crow
Microbial nucleic acid recognition serves as the major stimulus to an antiviral response, implying a requirement to limit the misrepresentation of self nucleic acids as non-self and the induction of autoinflammation. By systematic screening using a panel of interferon-stimulated genes we identify two siblings and a singleton variably demonstrating severe neonatal anemia, membranoproliferative glomerulonephritis, liver fibrosis, deforming arthropathy and increased anti-DNA antibodies. In both families we identify biallelic mutations in DNASE2, associated with a loss of DNase II endonuclease activity...
December 19, 2017: Nature Communications
https://www.readbyqxmd.com/read/29250143/molecular-mechanisms-underlying-the-%C3%AE-tomatine-directed-apoptosis-in-human-malignant-glioblastoma-cell-lines-a172-and-u-118-mg
#19
Fa-Zhao Wang, Xue-Liang Dai, Hong-Yi Liu
In the present study, the molecular mechanisms involved in the α-tomatine-induced apoptosis in human glioblastoma cell lines A172 and U-118 MG were investigated. Wright staining and ApopTag assays were conducted to confirm the apoptosis induced by α-tomatine treatment. Fura-2 assay determined an enhancement in free Ca2+ intracellularly, indicating the occurrence of Ca2+-dependent apoptosis induction. Western blot experiments were also performed to predict the apoptosis by measuring the changes in the Bax:Bcl-2 ratio...
December 2017: Experimental and Therapeutic Medicine
https://www.readbyqxmd.com/read/29247062/cerr-a-single-domain-regulatory-protein-of-the-luxr-family-promotes-the-cerecidin-production-and-immunity-in-bacillus-cereus
#20
Li Zhang, Kunling Teng, Jian Wang, Zheng Zhang, Jie Zhang, Shutao Sun, Lili Li, Xiaopan Yang, Jin Zhong
Cerecidins are small lantibiotics from Bacillus cereus that were obtained using a semi-in vitro biosynthesis strategy and showed prominent antimicrobial activities against certain Gram-positive bacteria. However, the parental strain B. cereus As 1.1846 is incapable of producing cerecidins, most probably due to the transcriptional repression of the cerecidin gene cluster. Located in the cerecidin gene cluster, cerR encodes a putative response regulator protein that belongs to LuxR-family transcriptional regulators...
December 15, 2017: Applied and Environmental Microbiology
keyword
keyword
12981
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"