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UniproUGENE
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ugene.net
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UGENE 1.25.0 has been released
Changes in the release include:

NGS:
New parameter for reads mappers (BWA, Bowtie2, etc.) to remove “unpaired” reads from quality-filtered paired-end FASTQ files before the mapping

Support of different options for CutAdapt parameters in the “Raw NGS data processing” wizards (5′ adapters, 3′ adapters, 5′ and 3′ adapters)

We keep working on the new view for alignment of Sanger reads. Stay tuned!
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Virus genomes reveal factors that spread and sustained the Ebola epidemic.

http://www.nature.com/nature/journal/v544/n7650/full/nature22040.html

23andMe, Inc. Granted First FDA Authorization to Market Direct-to-Consumer Genetic Health Risk Reports.
Mountain View, California – April 6, 2017 – 23andMe, Inc., the leading personal genetics company, today announced that the U.S. Food and Drug Administration (FDA) granted the company the first authorization to market genetic reports on personal risk for certain diseases. The authorization includes reports on genetic risk for ten conditions, including late-onset Alzheimer’s disease, Parkinson’s disease, celiac disease and hereditary thrombophilia (harmful blood clots), among others.

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UGENE 1.26.0 has been released!

Changes in the release include:

1. All databases, supported by SnpEff, are now available for prediction of variant effects.

2. By default, all documents are opened in tabs instead of windows. To change this parameter go to the Application Settings.

3. Support of high-resolution Retina displays.

You can download the latest UGENE version on this page - http://ugene.unipro.ru/download.html.

A new view for working with Sanger reads – the Chromatogram Alignment Editor – is planned for 1.27 version. Stay tuned!
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Whole Genome Sequencing Testing Is Available At The New York Genome Center.

The Center has received conditional approval from the New York State Department of Health to offer whole genome sequencing (WGS) testing.

The test, which is done using the Illumina HiSeq X Ten, is particularly valuable for patients with undiagnosed conditions who have undergone all other available tests. (http://www.bio-itworld.com/2017/1/20/whole-genome-sequencing-testing-is-available-at-the-new-york-genome-center.aspx)

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Diagnosing Disease with a Snapshot. Many genetic conditions come with clues in a person’s face, and new technology can help doctors diagnose them. (https://www.technologyreview.com/s/603038/diagnosing-disease-with-a-snapshot/?utm_campaign=internal&utm_medium=homepage&utm_source=features_1)

HOWTO: predict a protein secondary structure using the GOR IV tool?
Let's have a look at the example of secondary structure prediction of Cytochrome P450. The example compares the predicted secondary structure with obtained experimentally one.
1. Open the main menu "File" and select "Access remote database...".
2. In the appeared dialog specify "P04798" as a "Resource ID" field value and select "SWISS-PROT" as "Database".
3. Click "OK". After that UGENE downloads the Cytochrome P450.
4. Click "OK" in the appeared dialog "Select Correct Document Format".
5. Click "Predict secondary structure" at the toolbar.
6. In the appeared dialog select "GORIV" and click "OK". You will see prediction results.
7. Click "Save".
8. In the appeared dialog leave all parameters by default and click "Create".
Thus, we predict secondary structure of Cytochrome P450 protein.
Now, compare it with a known structure. For clarity, disable the display of all annotations except HELIX, TURN, STRAND and gorIV_results. It can be done in the "Annotations Highlighting" options panel tab. After disabling unnecessary annotations in the Zoom View you will see that the results of prediction match the known structure, however, there are a lot of misses in the prediction.
This example shows that the prediction might only suggest secondary structures, but today experimental methods are the most reliable methods of determining protein structures.
Read more about this functionality in the UGENE documentation: https://ugene.unipro.ru/…/UU…/Secondary+Structure+Prediction

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Google researchers got an eye-scanning algorithm to figure out on its own how to detect a common form of blindness, showing the potential for artificial intelligence to transform medicine remarkably soon (https://www.technologyreview.com/s/602958/an-ai-ophthalmologist-shows-how-machine-learning-may-transform-medicine/?utm_campaign=internal&utm_medium=homepage&utm_source=top-stories_4&set=602989).

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Researchers in the Netherlands have used a light-sensitive molecular motor to control the chirality of a double-stranded ‘helicate’. The motor mimics the way that nature employs certain enzymes to unwind helical structures such as DNA.

https://www.chemistryworld.com/news/light-responsive-molecular-motor-winds-up-helicates/1017698.article
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Genome-wide association studies scan the DNA of many people to spot genetic variants associated with drivers of disease.

But large population groups—including Africans, Latin Americans, and native or indigenous people—are hugely underrepresented in these studies and genomics research in general. (http://www.bio-itworld.com/2016/10/25/solving-the-lack-of-diversity-in-genomic-research/.aspx)
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