DNASTAR » Anne Stover

Making Accuracy Our First Priority

Anne Stover — Wed, 05 Jul 2017 11:36:12 +0000

Upcoming Webinar on Accurate Protein and Antibody Modeling

On July 12 at 12:00 PM EDT, we are offering a free webinar focusing on accurate protein and antibody modeling.

Join DNASTAR Senior Scientist Dr. Steve Darnell and Vice President Dr. Tom Lynch as they demonstrate our three NovaCloud web applications that are now available for structural and molecular biologists looking for accurate, fast, and easy-to-interpret results.

New White Paper!

Accuracy of de novo assembly of Sanger trace data: SeqMan Pro versus three alternative pipelines

We know that when it comes to the software you use for your research, nothing is more important than accuracy. Obtaining reliable results you can trust is non-negotiable. That’s why we devote so much time to testing our software—to make sure you get the right result, every time.

Recently, we put our SeqMan Pro application to the test, by evaluating the results of de novo assemblies and comparing them to three other commercial software applications: Geneious, Sequencher, and CLC Bio. The results?

Of the four products tested, our SeqMan Pro gave the highest accuracy when assembling Sanger ABI trace data. Read More

SNP Validation Control

in Lasergene Genomics Suite

Lasergene Genomics Suite offers a validation control workflow which involves running an assembly in SeqMan NGen to verify that you are getting the SNPs that you know are present. This workflow enables you to validate your entire process, including sample preparation, sequencing, and software. Ultimately you will identify sample specific variants and be able to look at the sensitivity, specificity, and balanced accuracy of your project.

#1 in Accuracy for NGS Alignment

and Variant Calling

DNASTAR has conducted numerous studies comparing the accuracy of sequence alignment and variant detection in SeqMan NGen (part of Lasergene Genomics Suite) to results obtained from other aligners.

Our results demonstrate that SeqMan NGen has fewer false negatives and better sensitivity compared to each of the other four workflows tested. SeqMan NGen also aligns exome data and performs variant calling an average of 3.5 times faster than the alternative pipelines: BWA+GATK, CLC Bio’s Genomics Workbench, and Geneious. Read More

LakePharma Protein Engineering Symposium

Witness the accuracy of our Structural Biology software first hand by joining DNASTAR Vice President Tom Lynch in San Francisco on October 6 for the LakePharma Protein Engineering Symposium.

If you’ll be in the area the week of October 2nd and would like to chat one-on-one, let us know!

Comprehensive NGS Tools from Assembly to Analysis

Anne Stover — Wed, 31 May 2017 10:44:32 +0000

Upcoming Webinar: Combined NGS Analysis for Genomic Variation, Gene Expression, and Gene Regulation
	On June 22 at 12:00 EDT, we are offering a free 30-minute webinar on combined NGS analysis for genomic variation, gene expression, and gene regulation. Join DNASTAR’s Matthew Keyser as he demonstrates how to use Lasergene Genomics Suite for combined analysis of any NGS data for genomics and transcriptomics.
Visualizing Genes/SNPs from ArrayStar in GenVision Pro	In the course of virtually any genomics workflow, identifying a group of genes, variants, peaks, or fragments of interest within ArrayStar is typically a desired step in the process. With Lasergene 14.1, we’ve now made it easier to work with these sets by allowing you to send them as a group to GenVision Pro for further analysis. See how it’s done in our 1-minute quick tip video.
Join us at ASM	We will be in New Orleans, June 1-5, attending ASM Microbe 2017 – one of our favorite conferences of the year. If you are planning on attending or will be in the area and would like to meet, please let us know!
New Poster: Automating Workflows in DNASTAR’s Lasergene Genomics Suite for High-Throughput Applications
Abstract: In the era of increasingly large and complex data sets, it is becoming more important to automate tasks for thorough and complete data analysis. DNASTAR’s Lasergene Genomics Suite has proven itself as a powerful and accurate tool for genomic assembly and analysis and it is used globally by researchers who need an easy to use and feature-rich genomics toolset for a wide range of workflows. Read more

SeqMan Pro: The most accurate assembler of Sanger ABI trace data

Anne Stover — Thu, 25 May 2017 15:20:28 +0000

Recently, we put our SeqMan Pro application to the test, by evaluating the results of de novo assemblies and comparing them to three competing software applications: Geneious, Sequencher DNA Sequence Analysis Software, and CLC Bio Genomics Workbench.

Two data sets were tested, and consisted of Sanger ABI reads from E. coli and from a Shigella plasmid. We looked at the number of contigs produced, the number of errors that occurred, the number of reads assembled, the contig length, and the percentage of the reference covered.

The results? Of the four products tested, SeqMan Pro’s default assembly method gave the highest accuracy when assembling Sanger ABI trace data. Compared to the other three applications, SeqMan Pro 14.1 created single contigs in both tests, made the fewest errors, and had the greatest number of reads incorporated into the assemblies. It also created the most complete coverage of the target sequence without introducing circular redundancy.

Read our latest white paper to learn more about these de novo assembly trials, then download a free trial of Lasergene to try SeqMan Pro for yourself!

Take our survey and get a special promotional discount

Anne Stover — Tue, 16 May 2017 10:36:36 +0000

Summer is coming, which seems like as good a reason as any to offer you a special promotion!

Just take a brief, 12-question survey about DNASTAR software, and receive 10% off your next purchase PLUS have your name entered into a drawing for a $100 Amazon gift card!

New Tools for your Structural Bio Research

Anne Stover — Tue, 02 May 2017 10:02:43 +0000

April was a busy month for our Structural Biology Team!
We started our busy April by releasing two new applications as part of NovaCloud, a collection of cloud apps that generate highly accurate structural models of both proteins and protein-protein complexes that are unattainable through standard modeling methodologies. New to NovaCloud are NovaDock, for high-resolution protein-protein docking, and NovaFold Antibody, for generating structural models of antibodies and antibody fragments in minutes. Combined with our current NovaFold structure prediction software, we now offer a complete suite of applications for high quality structure predictions on the cloud. Next, we attended Oxford Global’s 10th Annual Proteins & Antibodies Congress in London where we enjoyed meeting with many of you and hearing about your research. Last weekend we arrived in Boston, ready for another awesome PEGS conference. Excited to see what May has in store! See our summer travel plans
Upcoming NovaCloud Webinar	Next week, we are offering a free 30-minute webinar on our new NovaCloud web applications. DNASTAR Senior Scientist Dr. Steve Darnell and Vice President Dr. Tom Lynch will demonstrate our three NovaCloud applications for structural and molecular biologists looking for fast, accurate, and easy-to-interpret results. Join us on May 10 at 12:00 EDT.
Feature Creation Now Available in Protean 3D	It’s a feature many of you have asked for, and so with our latest Lasergene 14.1 release, we added the ability to create custom annotations to a protein sequence or structure in Protean 3D. Check out our Quick Tip video (1:12) to see how it’s done. Watch Video
Try our New NovaCloud Applications!	Before the NovaCloud webinar next week, try a prediction for yourself by using one of our new NovaCloud Services applications – academic and government users can predict their first structure for free! Access NovaFold Access NovaFold Antibody Access NovaDock

Using Sashimi plots for differential exon expression

Anne Stover — Tue, 11 Apr 2017 10:00:38 +0000

A few weeks ago, we shared a video of our popular RNA-Seq workflow, which gave a bird’s eye view of how mRNA isoforms can easily be visualized and analyzed by using our new Sashimi plots in GenVision Pro.

This week, we are focusing exclusively on Sashimi plots – how to add them to your project and how to interpret them – all neatly packaged into a Quick Tip video that’s less than a minute. Check it out below!

Got a minute? See how to edit feature styles for auto-annotation

Anne Stover — Tue, 04 Apr 2017 10:38:34 +0000

With the release of Lasergene 14.1, you can now use SeqBuilder to accurately automatically annotate your sequences — either one at a time or as a large batch — using a carefully curated database of features.

So, what happens when you want to change the feature styles used by that database? Simply access our new Feature Library Manager to make the styles your own.

Check out our newest 1-minute Quick Tip video below to see how it works!

Lasergene Weekly: Quick and easy RNA-Seq alignment and analysis

Anne Stover — Tue, 28 Mar 2017 10:00:06 +0000

Our popular RNA-Seq workflow now lets you easily visualize and analyze mRNA isoforms, a critical piece in gene expression analysis. In this 45-minute webinar on April 5, 2017 at 12:00 pm EDT, Matt Keyser will walk you through RNA-Seq project setup and analysis in Lasergene Genomics Suite, including enhanced sample comparison, isoform analysis, and genome-scale visualization in GenVision Pro.

Lasergene Weekly: Edit your alignment or genomic tracks in PowerPoint

Anne Stover — Tue, 21 Mar 2017 11:00:23 +0000

Both MegAlign Pro and GenVision Pro, with their visually stunning graphics, have always been favorites for exporting graphics for publication. But with Lasergene 14.1, we’ve added a little something extra — now export your sequence alignment or genomic tracks to PowerPoint as an editable image. Once in PowerPoint, you can un-group the elements of the image and resize, re-color, re-label, or edit virtually any aspect of the image to meet your presentation needs.

Check out our newest video below to see how it works!

mRNA Isoform Analysis and Visualization Now Available

Anne Stover — Tue, 14 Mar 2017 11:40:59 +0000

Our popular RNA-Seq workflow now allows you to take another critical step in gene expression analysis with the ability to easily visualize and analyze mRNA isoforms. We’ve built this functionality into GenVision Pro by adding Sashimi plots, which display the depth of coverage for each exon (shown as a bar graph) alongside arcs representing the number of reads split across each junction. As with all tracks in GenVision Pro, the appearance of Sashimi plots is fully customizable, including user-defined thresholds for the number of split reads required to display an arc, and the maximum arc length.

Watch our new video to see how these plots can be used to evaluate isoforms, as part of our comprehensive RNA-Seq analysis pipeline.