Researchers in Japan have launched FANTOM5, Functional Annotation of the Mammalian Genome, an international effort to globally map transcription initiation in every human cell type.
Joint research by RIKEN and Helicos BioSciences Corporation has played a key role in this project in adapting the Cap Analysis of Gene Expression (CAGE) technique, originally developed by RIKEN, to the HeliscopeTM single molecule sequencer. The use of HeliscopeTM for CAGE completely avoids PCR amplification biases, is quantitative over 5 orders of magnitude, is highly reproducible and can be carried out on as little as 100ng of total RNA.
The FANTOM project is the brainchild of Yoshihide Hayashizaki, who launched the first phase of the project in 2000. The cDNA encyclopedia of mouse full-length cDNAs generated in the FANTOM1, 2 and 3 projects remains to this day the largest collection of mammalian full-length cDNAs. FANTOM3 provided insights into non-coding RNAs and sense-antisense regulation. It also introduced the CAGE technique, developed by Piero Carninci, which generates sequence tags from the 5’ ends of capped RNAs.
In FANTOM4, CAGE was applied to an acute myeloid leukemia cell line undergoing monocytic differentiation. Using CAGE and transcription factor binding site predictions, a transcriptional regulatory model was generated which identified the key transcription factors involved in monocytic differentiation. FANTOM5 takes this one huge leap further by trying to generate transcriptional regulatory models to define every human cell type.
Motivating the project is the idea that to build a full understanding of transcriptional regulation in a human system, we need to collect as large a set of diverse cellular states as possible. Different cellular states will express different subsets of genes, which in turn must be regulated by different combinations of transcription factors. While a large collection of human primary cell types has already been amassed for the project, many more are still needed. Potential collaborators working on rare cell types are invited to contact Alistair Forrest, who is co-coordinating sample collection for the project.For more information, please contact:
RIKEN Omics Science Center is one of 12 research centers in RIKEN and its focus is on developing genome-wide technologies and applications thereof.
Transport of molecular motors into cilia
28.03.2017 | Aarhus University
Asian dust providing key nutrients for California's giant sequoias
28.03.2017 | University of California - Riverside
The Institute of Semiconductor Technology and the Institute of Physical and Theoretical Chemistry, both members of the Laboratory for Emerging Nanometrology (LENA), at Technische Universität Braunschweig are partners in a new European research project entitled ChipScope, which aims to develop a completely new and extremely small optical microscope capable of observing the interior of living cells in real time. A consortium of 7 partners from 5 countries will tackle this issue with very ambitious objectives during a four-year research program.
To demonstrate the usefulness of this new scientific tool, at the end of the project the developed chip-sized microscope will be used to observe in real-time...
Astronomers from Bonn and Tautenburg in Thuringia (Germany) used the 100-m radio telescope at Effelsberg to observe several galaxy clusters. At the edges of these large accumulations of dark matter, stellar systems (galaxies), hot gas, and charged particles, they found magnetic fields that are exceptionally ordered over distances of many million light years. This makes them the most extended magnetic fields in the universe known so far.
The results will be published on March 22 in the journal „Astronomy & Astrophysics“.
Galaxy clusters are the largest gravitationally bound structures in the universe. With a typical extent of about 10 million light years, i.e. 100 times the...
Researchers at the Goethe University Frankfurt, together with partners from the University of Tübingen in Germany and Queen Mary University as well as Francis Crick Institute from London (UK) have developed a novel technology to decipher the secret ubiquitin code.
Ubiquitin is a small protein that can be linked to other cellular proteins, thereby controlling and modulating their functions. The attachment occurs in many...
In the eternal search for next generation high-efficiency solar cells and LEDs, scientists at Los Alamos National Laboratory and their partners are creating...
Silicon nanosheets are thin, two-dimensional layers with exceptional optoelectronic properties very similar to those of graphene. Albeit, the nanosheets are less stable. Now researchers at the Technical University of Munich (TUM) have, for the first time ever, produced a composite material combining silicon nanosheets and a polymer that is both UV-resistant and easy to process. This brings the scientists a significant step closer to industrial applications like flexible displays and photosensors.
Silicon nanosheets are thin, two-dimensional layers with exceptional optoelectronic properties very similar to those of graphene. Albeit, the nanosheets are...
20.03.2017 | Event News
14.03.2017 | Event News
07.03.2017 | Event News
28.03.2017 | Life Sciences
28.03.2017 | Information Technology
28.03.2017 | Physics and Astronomy