scholarly journals Deduction of Novel Genes Potentially Involved in Keratinocytes of Type 2 Diabetes Using Next-Generation Sequencing and Bioinformatics Approaches

2019 ◽  
Vol 8 (1) ◽  
pp. 73 ◽  
Author(s):  
En-Shyh Lin ◽  
Wei-An Chang ◽  
Yang-Yi Chen ◽  
Ling-Yu Wu ◽  
Yi-Jen Chen ◽  
...  
Keyword(s):  
Immune Response ◽  
Next Generation Sequencing ◽  
Differentially Expressed Genes ◽  
Defense Response ◽  
Wound Repair ◽  
Immune Defense ◽  
Differentially Expressed ◽  
Diabetic Patients ◽  
Next Generation ◽  
Generation Sequencing

Keratinocytes constitute the major cell type of epidermis, which participates in re-epithelialization during wound repair and the immune defense response to pathogens. The aim of the current study was to explore the differentially expressed genes and novel microRNA (miRNA) regulations that are potentially involved in diabetic keratinocytes through next-generation sequencing (NGS) and bioinformatics approaches. A total of 420 differentially expressed genes between normal and diabetic keratinocytes were identified, and systematic bioinformatics analyses indicated that these differentially expressed genes were functionally enriched in interferon-alpha signaling, viral defense response, and immune response. Additionally, the potential miR-340-3p-DTX3L interaction that has been systematically validated in miRNA prediction databases was proposed to participate in the disrupted skin homeostasis, altering the defense and immune response of diabetic skin. The findings may provide new insights into understanding the pathogenesis of epidermal pathologies in diabetic patients and targeting novel molecules to advance diabetic skin care in clinical practice.

scholarly journals Uncontrolled Diabetes Mellitus Has No Major Influence on the Platelet Transcriptome

2018 ◽  
Vol 2018 ◽  
pp. 1-9 ◽  
Author(s):  
Thomas G. Nührenberg ◽  
Marco Cederqvist ◽  
Federico Marini ◽  
Christian Stratz ◽  
Björn A. Grüning ◽  
...  
Keyword(s):  
Diabetes Mellitus ◽  
Next Generation Sequencing ◽  
Platelet Reactivity ◽  
Platelet Rich Plasma ◽  
Expression Profiles ◽  
Bioinformatic Analysis ◽  
Differentially Expressed ◽  
Major Influence ◽  
Next Generation ◽  
Generation Sequencing

Background. Diabetes mellitus (DM) has been associated with increased platelet reactivity as well as increased levels of platelet RNAs in plasma. Here, we sought to evaluate whether the platelet transcriptome is altered in the presence of uncontrolled DM. Methods. Next-generation sequencing (NGS) was performed on platelet RNA for 5 patients with uncontrolled DM (HbA1c 9.0%) and 5 control patients (HbA1c 5.5%) with otherwise similar clinical characteristics. RNA was isolated from leucocyte-depleted platelet-rich plasma. Libraries of platelet RNAs were created separately for long RNAs after ribosomal depletion and for small RNAs from total RNA, followed by next-generation sequencing. Results. Platelets in both groups demonstrated RNA expression profiles characterized by absence of leukocyte-specific transcripts, high expression of well-known platelet transcripts, and in total 6,343 consistently detectable transcripts. Extensive statistical bioinformatic analysis yielded 12 genes with consistently differential expression at a lenient FDR < 0.1, thereof 8 protein-coding genes and 2 genes with known expression in platelets (MACF1 and ITGB3BP). Three of the four differentially expressed noncoding genes were YRNAs (RNY1, RNY3, and RNY4) which were all downregulated in DM. 23 miRNAs were differentially expressed between the two groups. Of the 13 miRNAs with decreased expression in the diabetic group, 8 belonged to the DLK1–DIO3 gene region on chromosome 14q32.2. Conclusions. In this study, uncontrolled DM had a remote impact on different components of the platelet transcriptome. Increased expression of MACF1, together with supporting predicted mRNA-miRNA interactions as well as reduced expression of RNYs in platelets, may reflect subclinical platelet activation in uncontrolled DM.

Identification of differentially expressed microRNAs in the skin of experimentally sensitized naturally affected atopic beagles by next-generation sequencing

2020 ◽  
Vol 72 (4) ◽  
pp. 241-250
Author(s):  
Domenico Santoro ◽  
Antonio Di Loria ◽  
Teresa Mirante ◽  
Duarte Mendes Oliveira ◽  
Carmelo Laudanna ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Differentially Expressed ◽  
Next Generation ◽  
Generation Sequencing

scholarly journals miRNAs differentially expressed by next-generation sequencing in cord blood buffy coat samples of boys and girls

Epigenomics ◽  
2016 ◽  
Vol 8 (12) ◽  
pp. 1619-1635 ◽  
Author(s):  
Daneida Lizarraga ◽  
Karen Huen ◽  
Mary Combs ◽  
Maria Escudero-Fung ◽  
Brenda Eskenazi ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Cord Blood ◽  
Buffy Coat ◽  
Differentially Expressed ◽  
Next Generation ◽  
Generation Sequencing
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