VAZ Candida

EGF hijacks miR-198/FSTL1 wound-healing switch and steers a two-pronged pathway toward metastasis

Epithelial carcinomas are well known to activate a prolonged wound-healing program that promotes malignant transformation. Wound closure requires the activation of keratinocyte migration via a dual-state molecular switch. This switch involves production of either the anti-migratory microRNA miR-198 or the pro-migratory follistatin-like 1 (FSTL1) protein from a single transcript; miR-198 expression in healthy skin is down-regulated in favor of FSTL1 upon wounding, which enhances keratinocyte migration and promotes re-epithelialization.

type: 
Journal Paper
journal: 
The Journal of Experimental Medicine, 2017,doi: 10.1084/jem.20170354
Url: 
http://jem.rupress.org/content/early/2017/08/18/jem.20170354
Impact Factor: 
11.991
Date of acceptance: 
2017-07-12

Benchmarking selected computational gene network growing tools in context of virus-host interactions

Several available online tools provide network growing functions where an algorithm utilizing different data sources suggests additional genes/proteins that should connect an input gene set into functionally meaningful networks. Using the well-studied system of influenza host interactions, we compare the network growing function of two free tools GeneMANIA and STRING and the commercial IPA for their performance of recovering known influenza A virus host factors previously identified from siRNA screens.

type: 
Journal Paper
journal: 
Scientific Reports, 2017 Jul 19;7(1):5805. doi: 10.1038/s41598-017-06020-6
pubmed: 
28724991
Url: 
https://www.ncbi.nlm.nih.gov/pubmed/28724991
Impact Factor: 
4.259
Date of acceptance: 
2017-06-07

Mesenchymal Stromal Cells Derived from Human Embryonic Stem Cells, Fetal Limb and Bone Marrow Share a Common Phenotype but Are Transcriptionally and Biologically Different

Mesenchymal stromal cells (MSCs) can be obtained from several sources and the significant differences in their properties make it crucial to investigate the differentiation potential of MSCs from different sources to determine the optimal source of MSCs. We investigated if this biological heterogeneity in MSCs from different sources results in different mechanisms for their differentiation.

type: 
Journal Paper
journal: 
Stem Cell Discovery, 2017, 7, Pg 1-26, doi: 10.4236/scd.2017.71001
Url: 
http://file.scirp.org/Html/1-1080128_77869.htm
Date of acceptance: 
2017-01-20

Mesenchymal Stromal Cells Derived from Human Embryonic Stem Cells, Fetal Limb and Bone Marrow Share a Common Phenotype but Are Transcriptionally and Biologically Different

Mesenchymal stromal cells (MSCs) can be obtained from several sources and the significant differences in their properties make it crucial to investigate the differentiation potential of MSCs from different sources to determine the optimal source of MSCs. We investigated if this biological heterogeneity in MSCs from different sources results in different mechanisms for their differentiation.

type: 
Journal Paper
journal: 
Stem Cell Discovery, 2017, 7, Pg 1-26, doi: 10.4236/scd.2017.71001
Url: 
http://file.scirp.org/Html/1-1080128_77869.htm
Date of acceptance: 
2017-01-20

Large-Scale microRNA Expression Profiling Identifies Putative Retinal miRNA-mRNA Signaling Pathways Underlying Form-Deprivation Myopia in Mice

Development of myopia is associated with large-scale changes in ocular tissue gene expression. Although differential expression of coding genes underlying development of myopia has been a subject of intense investigation, the role of non-coding genes such as microRNAs in the development of myopia is largely unknown. In this study, we explored myopia-associated miRNA expression profiles in the retina and sclera of C57Bl/6J mice with experimentally induced myopia using microarray technology.

type: 
Journal Paper
journal: 
PLoS One. 2016 Sep 13; 11(9):e0162541. doi: 10.1371/journal.pone.0162541
Url: 
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0162541
Impact Factor: 
3.1
Date of acceptance: 
2016-08-24

Retinoic Acid Mediates Visceral-specific Adipogenic Defects of Human Adipose-derived Stem Cells

Increased visceral fat, rather than subcutaneous fat, during obesity onset is associated with higher risk of developing metabolic diseases. Human adipose-derived stem cells(ASCs) from visceral depots are compromised in their inherent adipogenic properties compared to ASCs from subcutaneous depots, but little is known about the underlying mechanisms. By ontology analysis of global gene expression studies, we demonstrate that many genes involved in retinoic acid (RA) synthesis or regulated by RA are differentially expressed in human tissues and ASCs from subcutaneous and visceral fat.

type: 
Journal Paper
journal: 
Diabetes, 2 Mar 2016, doi: 10.2337/db15-1315
Url: 
http://diabetes.diabetesjournals.org/content/early/2016/02/26/db15-1315.full.pdf+html?sid=6945633e-8494-4188-91ce-cbe3f2b0400c
Impact Factor: 
8.474
Date of acceptance: 
2016-03-02

Embryonic Stem Cells Exhibit mRNA Isoform Specific Translational Regulation

The presence of multiple variants for many mRNAs is a major contributor to protein diversity. The processing of these variants is tightly controlled in a cell-type specific manner and has a significant impact on gene expression control. Here we investigate the differential translation rates of individual mRNA variants in embryonic stem cells (ESCs) and in ESC derived Neural Precursor Cells (NPCs) using polysome profiling coupled to RNA sequencing.

type: 
Journal Paper
journal: 
PLoS One. 2016 Jan 22;11 (1), doi: 10.1371/journal.pone.0143235
pubmed: 
26799392
Url: 
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0143235
Impact Factor: 
3.23
Date of acceptance: 
2015-11-02

Deep sequencing of small RNA facilitates tissue and sex associated microRNA discovery in zebrafish

Background: The role of microRNAs in gene regulation has been well established. The extent of miRNA regulation
also increases with increasing genome complexity. Though the number of genes appear to be equal between human
and zebrafish, substantially less microRNAs have been discovered in zebrafish compared to human (miRBase Release 19).
It appears that most of the miRNAs in zebrafish are yet to be discovered.

Results: We sequenced small RNAs from brain, gut, liver, ovary, testis, eye, heart and embryo of zebrafish. In brain, gut

type: 
Journal Paper
journal: 
BMC Genomics (2015) 16:950, doi:10.1186/s12864-015-2135-7
Url: 
http://www.biomedcentral.com/1471-2164/16/950
Impact Factor: 
3.99
Date of acceptance: 
2015-10-23

Research using Mesenchymal Stem/Stromal Cells: quality metric towards developing a reference material

Mesenchymal stem/stromal cells (MSCs) have been extensively investigated for their regenerative, immune-modulatory, and wound healing properties. While the laboratory studies have suggested that MSC's have a unique potential for modulating the etiopathology of multiple diseases, the results from clinical trials have not been encouraging or reproducible. One of the explanations for such variability is explained by the "art" of isolating and propagating MSCs.

type: 
Journal Paper
journal: 
Cytotherapy, 2015 Sep;17(9):1169-77. doi: 10.1016/j.jcyt.2015.07.008
pubmed: 
26276001
Url: 
http://www.ncbi.nlm.nih.gov/pubmed/?term=26276001
Date of acceptance: 
2015-07-09

Contrasting expression patterns of coding and noncoding parts of the human genome upon oxidative stress

Oxidative stress (OS) is caused by an imbalance between pro- and anti-oxidant reactions leading to accumulation of reactive oxygen species within cells. We here investigate the effect of OS on the transcriptome of human fibroblasts. OS causes a rapid and transient global induction of transcription characterized by pausing of RNA polymerase II (PolII) in both directions, at specific promoters, within 30 minutes of the OS response.

type: 
Journal Paper
journal: 
Scientific Reports 5,Article no: 9737, 2015, doi: 10.1038/srep09737
Url: 
http://www.nature.com/srep/2015/150527/srep09737/full/srep09737.html
Date of acceptance: 
2015-02-04
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