Forum for Science, Industry and Business

Sponsored by:     3M 
Search our Site:

 

New software provides and overview of the big data of genome sequencing

01.03.2016

The amount of information that a genome researcher creates and which makes the basis of his scientific work has grown a million times during the last two decades. Today, the challenge does not consist in creating the data, but in exploring them and deducing meaningful conclusions. We believe that this analytical tool, which we have called "EaSeq" can help researchers in doing so, says Associate Professor Klaus Hansen

ChIP sequencing - an insight into the workflow of human cells


This is a selection of the many data visualization options provided by EaSeq.

Credit: Mads Lerdrup

The EaSeq software has been developed for analysis of so called ChIP sequencing. DNA sequencing is used for mapping the sequence of the base pairs, which our DNA consists of, and ChIP sequencing is a derived method in which the sequences are used to determine the presence of different cell components in the genome at a given time.

Roughly speaking, ChIP sequencing can be compared to a microscope, which enables us to observe the presence of different cell components in the entire genome at a given time.

The method is still quite young and holds the potential to be applied within many more scientific fields, which can benefit from understanding how healthy and pathological cells control and uses genes, says Associate Professor Mads Lerdrup

Better analytical tools means a broader range of applications

While ChIP sequencing has made it possible to produce enormous amounts of data very fast, the analysis of these data has - until now - been a tedious process. Most of the analytical software being used requires knowledge of computer programming and researchers have therefore been dependent on specialists in order to decode and analyze their data.

EaSeq offers a far more visual and intuitive alternative, which makes it possible for biomedical researchers to study and test hypotheses using their own data. This means that instead of waiting for weeks for others to carry out an analysis, researchers will be able to perform the analyses themselves in a matter of hours.

Today, DNA sequencing is gaining ground within the clinical area where it is e.g. being used for diagnosis and targeting of treatment within the cancer area. The developers of EaSeq see similar perspectives for ChIP sequencing in the clinical work, and in that context strong analytical tools will be pivotal.

- The DNA sequence itself tells us very little about how cells actual decodes the DNA, and to understand this we need to map out which cell components are present in different parts of the genome at a specific time. It is our hope that we by increasing feasibility can enable researchers to faster uncover such knowledge and apply it clinically, says Associate professor Mads Lerdrup

Media Contact

Mads Lerdrup
mads.lerdrup@bric.ku.dk
45-35-32-57-46

http://www.bric.ku.dk/ 

Mads Lerdrup | EurekAlert!

More articles from Information Technology:

nachricht Smart Computers
21.08.2017 | Albert-Ludwigs-Universität Freiburg im Breisgau

nachricht AI implications: Engineer's model lays groundwork for machine-learning device
18.08.2017 | Washington University in St. Louis

All articles from Information Technology >>>

The most recent press releases about innovation >>>

Die letzten 5 Focus-News des innovations-reports im Überblick:

Im Focus: Fizzy soda water could be key to clean manufacture of flat wonder material: Graphene

Whether you call it effervescent, fizzy, or sparkling, carbonated water is making a comeback as a beverage. Aside from quenching thirst, researchers at the University of Illinois at Urbana-Champaign have discovered a new use for these "bubbly" concoctions that will have major impact on the manufacturer of the world's thinnest, flattest, and one most useful materials -- graphene.

As graphene's popularity grows as an advanced "wonder" material, the speed and quality at which it can be manufactured will be paramount. With that in mind,...

Im Focus: Exotic quantum states made from light: Physicists create optical “wells” for a super-photon

Physicists at the University of Bonn have managed to create optical hollows and more complex patterns into which the light of a Bose-Einstein condensate flows. The creation of such highly low-loss structures for light is a prerequisite for complex light circuits, such as for quantum information processing for a new generation of computers. The researchers are now presenting their results in the journal Nature Photonics.

Light particles (photons) occur as tiny, indivisible portions. Many thousands of these light portions can be merged to form a single super-photon if they are...

Im Focus: Circular RNA linked to brain function

For the first time, scientists have shown that circular RNA is linked to brain function. When a RNA molecule called Cdr1as was deleted from the genome of mice, the animals had problems filtering out unnecessary information – like patients suffering from neuropsychiatric disorders.

While hundreds of circular RNAs (circRNAs) are abundant in mammalian brains, one big question has remained unanswered: What are they actually good for? In the...

Im Focus: RAVAN CubeSat measures Earth's outgoing energy

An experimental small satellite has successfully collected and delivered data on a key measurement for predicting changes in Earth's climate.

The Radiometer Assessment using Vertically Aligned Nanotubes (RAVAN) CubeSat was launched into low-Earth orbit on Nov. 11, 2016, in order to test new...

Im Focus: Scientists shine new light on the “other high temperature superconductor”

A study led by scientists of the Max Planck Institute for the Structure and Dynamics of Matter (MPSD) at the Center for Free-Electron Laser Science in Hamburg presents evidence of the coexistence of superconductivity and “charge-density-waves” in compounds of the poorly-studied family of bismuthates. This observation opens up new perspectives for a deeper understanding of the phenomenon of high-temperature superconductivity, a topic which is at the core of condensed matter research since more than 30 years. The paper by Nicoletti et al has been published in the PNAS.

Since the beginning of the 20th century, superconductivity had been observed in some metals at temperatures only a few degrees above the absolute zero (minus...

All Focus news of the innovation-report >>>

Anzeige

Anzeige

Event News

Call for Papers – ICNFT 2018, 5th International Conference on New Forming Technology

16.08.2017 | Event News

Sustainability is the business model of tomorrow

04.08.2017 | Event News

Clash of Realities 2017: Registration now open. International Conference at TH Köln

26.07.2017 | Event News

 
Latest News

Cholesterol-lowering drugs may fight infectious disease

22.08.2017 | Health and Medicine

Meter-sized single-crystal graphene growth becomes possible

22.08.2017 | Materials Sciences

Repairing damaged hearts with self-healing heart cells

22.08.2017 | Life Sciences

VideoLinks
B2B-VideoLinks
More VideoLinks >>>