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GermlncRNA: a unique catalogue of long non-coding RNAs and associated regulations in male germ cell development
Spermatogenic failure is a major cause of male infertility, which affects millions of couples worldwide. Recent discovery of long non-coding RNAs (lncRNAs) as critical regulators in normal and disease development provides new clues for delineating the molecular regulation in male germ cell development. However, few functional lncRNAs have been characterized to date. A major limitation in studying lncRNA in male germ cell development is the absence of germ cell-specific lncRNA annotation. Current lncRNA annotations are assembled by transcriptome data from heterogeneous tissue sources; specific germ cell transcript information of various developmental stages is therefore under-represented, which may lead to biased prediction or fail to identity important germ cell-specific lncRNAs.
GermlncRNA provides the first comprehensive web-based and open-access lncRNA catalogue for three key male germ cell stages, including type A spermatogonia, pachytene spermatocytes and round spermatids. This information has been developed by integrating male germ transcriptome resources derived from RNA-Seq, tiling microarray and GermSAGE. Characterizations on lncRNA-associated regulatory features, potential coding gene and microRNA targets are also provided. Search results from GermlncRNA can be exported to Galaxy for downstream analysis or downloaded locally. Taken together, GermlncRNA offers a new avenue to better understand the role of lncRNAs and associated targets during spermatogenesis.
Availability – Database URL: http://germlncrna.cbiit.cuhk.edu.hk/
- Luk AC, Gao H, Xiao S, Liao J, Wang D, Tu J, Rennert OM, Chan WY, Lee TL. (2015) GermlncRNA: a unique catalogue of long non-coding RNAs and associated regulations in male germ cell development. Database (Oxford) bav044. [abstract]
The position will require the candidate to have expertise in biochemical assays for the discovery of proteins or RNAs that interact with a number of nuclear and cytoplasmic
lncRNAs found through RNA-seq of human vascular cells treated under a variety of conditions. The sponsor’s lab, located in brand new space within the University of Rochester Medical Center’s Cardiovascular Research Institute (see http://www.urmc.rochester.edu/cvri/ ), is well funded and has many projects related to lncRNAs and the emerging CRISPR-Cas9 genome editing system. Applicants should be highly motivated with a goal of developing an independent research program for faculty-hood. Applicants should submit their CV, 2 letters of reference and a brief synopsis of their research interests and skills to firstname.lastname@example.org
The University of Rochester is an equal opportunity employer.
It is becoming increasingly clear that short and long noncoding RNAs critically participate in the regulation of cell growth, differentiation, and (mis)function. However, while the functional characterization of short non-coding RNAs has been reaching maturity, there is still a paucity of well characterized long noncoding RNAs, even though large studies in recent years are rapidly increasing the number of annotated ones.
The long noncoding RNA PVT1 is encoded by a gene that has been long known since it resides in the well-known cancer risk region 8q24. However, a couple of accidental concurrent conditions have slowed down the study of this gene, that is, a preconception on the primacy of the protein-coding over noncoding RNAs and the prevalent interest in its neighbor MYC oncogene. Recent studies have brought PVT1 under the spotlight suggesting interesting models of functioning, such as competing endogenous RNA activity and regulation of protein stability of important oncogenes, primarily of the MYC oncogene. Despite some advancements in modelling the PVT1 role in cancer, there are many questions that remain unanswered concerning the precise molecular mechanisms underlying its functioning.
- Colombo T, Farina L, Macino G, Paci P. (2015) PVT1: A Rising Star among Oncogenic Long Noncoding RNAs. Biomed Res Int 2015:304208. [article]
Highly motivated postdoctoral candidates are invited to lead several new projects to address fundamental questions in Biology. Current directions in the lab include nucleic acid interactions with proteins and small molecules, and microRNA biology.
The Johns Hopkins Medical Institutions provide a stimulating and collaborative environment for biomedical research. Our lab is affiliated with the Department of Biochemistry and Molecular Biology of the Bloomberg School of Public Health and the Department of Neuroscience of the School of Medicine. The Baltimore/Washington D.C. area also offers rich professional and living opportunities.
Candidates should have a doctoral degree and strong research background. Please send a statement of research experience and career goals, a copy of Curriculum Vitae, and contact information of at least one reference to Dr. Jiou Wang at email@example.com.
More information available at: http://www.jhsph.edu/faculty/directory/profile/5049/Wang/Jiou. The Johns Hopkins University is an Equal Opportunity Employer.