Viewing Ensembl Regulation & ENCODE Using the Matrix

submitted by: gspudich
This tutorial demonstrates how to view sequences potentially involved in gene regulation. These sequences are analysed by Ensembl Regulation based mostly on ENCODE data, along with Roadmap Epigenomics data for human. The end of this tutorial shows how to add the full ENCODE data set to a genome display in Ensembl. The Region in Detail in the Ensembl browser will be explored. You may be interested in: Ensembl Regulation docs: ... Region in Detail...

Prolonged Dietary Selenium Deficiency or Excess Does Not Globally Affect Selenoprotein Gene Expression and/or Protein Production in Various Tissues of Pigs

submitted by: leilab
We previously determined the effects of dietary selenium (Se) de?ciency or excess on mRNA abundance of 12 selenoprotein genes in pig tissues. In this study, we determined the effect of dietary Se on mRNA levels of the remaining porcine selenoprotein genes along with protein production of 4 selenoproteins (Gpx1, Sepp1, Selh, and Sels) and body glucose homeostasis. Weanling male pigs (n = 24) were fed a Se-de?cient (,0.02 mg Se/kg), basal diet supplemented with 0, 0.3, or 3.0 mg Se/kg as...
Authors: Yan Liu, Hua Zhao, Qiaoshan Zhang, Jiayong Tang, Ke Li, Xin-Jie Xia, Kang-Ning Wang, Kui Li, Xin Gen Lei

Tip of the Week: ChromoHub

submitted by: OpenHelix

Today's tip of the week is on Chromohub, an annotated phylogeny of chromatin mediated signaling genes. For more information, check out our blog post at


submitted by: nsf

The tragedy of the commons says that self interest and competition can cause people to ruin a shared resource. If people ruin what they share, sometimes the best avenue is to have them not share. Research supported by the National Science Foundation has shown that privatization, cooperation, and regulation can all work to protect commons, but only if proper enforcement exists.

The Toxic Effects of Cigarette Additives. Philip Morris' Project Mix Reconsidered: An Analysis of Documents Released through Lit

submitted by: glantz
This video describes the peer reviewed paper, Wertz MS, Kyriss T, Paranjape S, Glantz SA (2011) The Toxic Effects of Cigarette Additives. Philip Morris' Project Mix Reconsidered: An Analysis of Documents Released through Litigation. PLoS Med 8(12): e1001145. doi:10.1371/journal.pmed.1001145 Background In 2009, the promulgation of US Food and Drug Administration (FDA) tobacco regulation focused attention on cigarette flavor additives. The tobacco industry had prepared for this...

Tip of the Week: MapMi, mapping miRNA sequences

submitted by: OpenHelix

Today's tip is on MapMi, a tool to map miRNA sequences to genomic sequences. See for more information

Tip of the Week: CircuitsDB for TF/miRNA/gene Regulation Networks

submitted by: OpenHelix

For more information about this tip and resource see our blog post at In this tip we introduce CircuitsDB, a database of MicroRNA / Transcription Factor Regulatory Circuits in Human and Mouse. We demonstrate a basic search and then explore the information provided in the result reports.

Genes and Cells that Determine the Lifespan of C. elegans - Part 2: The Regulation of Aging by Signals from the Reproductive System, and, also, a Link Between Aging and Tumor Growth (37:16)

submitted by: video_collector
Once it was thought that aging was just a random and haphazard process. Instead, the rate of aging turns out to be subject to regulation by transcription factors that respond to hormones and other signals. In the nematode C. elegans, in which many key discoveries about aging were first made, the aging process is subject to regulation by food intake, sensory perception, and signals from the reproductive system. Changing genes and cells that affect aging can lengthen lifespan by six fold, and...

Apoptosis: Part 3: Extrinsic Pathway and Regulation of Apoptosis (23:59)

submitted by: scivee-team
Apoptosis a form of programmed cell death that plays important roles during animal development, immune response, elimination of damaged cells, and maintenance of tissue homeostasis. Apoptosis is executed by intracellular proteases named caspases that are activated during the onset of apoptosis by extrinsic and intrinsic pathways. The intrinsic pathway is triggered by the release of proteins such as cytochrome c from mitochondria to cytosol and the extrinsic pathway is activated by the...

The Importance of Marine Picoeukaryotes and the Search for Lost Time

submitted by: dougramsey
Unicellular eukaryotes are responsible for a massive amount of photosynthetic carbon fixation in marine systems. The smallest among these fall within the “pico” size fraction (<2 micrometers in diameter), are broadly distributed – from coastal to open-ocean environments – and are highly diverse. Picoeukaryotes contribute a significant proportion of the biomass and primary production within this size fraction, often rivaling their cyanobacterial counterparts Prochlorococcus and...