What’s SciY, and the way does it goal to rework lab and manufacturing ecosystems?

SciY consists of 4 totally different corporations unified by a standard imaginative and prescient. Firstly, we have now Arxspan, a totally built-in cloud platform designed for the administration of scientific information. This platform seamlessly merges chemistry and biology information inside a unified system.

Subsequent, we have now Mestrelab Analysis, which offers analytical information processing, evaluation, visualization, and reporting, together with analytical workflow automation by its Mgears utility. It additionally makes a speciality of connecting software program to devices.

Transferring on, there’s Zontal, a GXP-compliant cloud platform for built-in digital labs with life sciences analytics and long-term information preservation capabilities. Lastly, we have now Optimum, which presents PAT software program options for real-time course of management, together with personalized automation, equipment, and integration companies.

With SciY, we have now established a singular ecosystem of distributors that seamlessly combine by truthful information platforms, enabling digital transformation for a variety of laboratory and manufacturing environments.

Please are you able to introduce Arxspan?

Arxspan is a totally built-in cloud platform for scientific information administration that mixes chemistry and biology information in a single system. It’s designed to boost collaborative analysis throughout inside groups and exterior companions.

The digital laboratory pocket book, or the ELN, is completely web-based. It’s simple to make use of and may be deployed globally inside minutes. It has scientific workflow options embedded whereas enabling integration with different programs and software program and built-in infrastructure and information safety. This enables for information sharing internally and externally, and it additionally follows authorized and regulatory compliance.

That is additionally built-in with our registration utility and permits distinctive chemical and organic entities to be registered. The ELN additionally has the choice to hyperlink to our stock so you possibly can observe and handle any bodily gadgets.

Arxspan’s asset utility permits customers to outline, acquire, handle, and retailer asset endpoint information. That is very best for asset improvement features and low and high-throughput screening. All this information may be pulled collectively utilizing our looking and reporting utility.

Arxspan BioDrive, our full answer for molecular biology, is built-in into the Arxspan ELN.

What’s Arxspan BioDrive, and what makes it a flexible molecular biology answer?

The Arxspan BioDrive is a particular platform that empowers molecular biologists to sort out a variety of challenges of their subject. Clients can incorporate particular necessities into an experiment’s configuration to satisfy their distinctive wants. BioDrive, with its distinctive options, presents clean molecular biology workflows. Its environment friendly design and user-friendly navigation improve the general person expertise.

Picture credit score: Arxspan

How can BioDrive be used to deal with each DNA and RNA sequences?

BioDrive simplifies sequence dealing with by mechanically loading sequences as double-strand DNA and producing a corresponding sequence map.

Nonetheless, for extra flexibility, you possibly can select the RNA choice. Whenever you go for RNA, BioDrive permits you to load the sequence as single-stranded or double-stranded RNA. In the event you load a single-strand RNA, the sequence map will show solely the ahead strand.

Moreover, BioDrive incorporates a handy perform that lets you convert DNA into RNA. You may choose both the ahead or reverse strand and remodel it into single-strand RNA. In the event you select each strands, the RNA can be generated as double-stranded.

Furthermore, BioDrive presents a singular functionality for simulating splicing reactions or eradicating annotated introns. As an example, in case your preliminary sequence accommodates introns surrounded by exons, BioDrive can take away the introns and seamlessly hyperlink the exons collectively, leading to a newly fashioned single-strand RNA.

What options does BioDrive provide by way of primers?

In BioDrive, managing primers is made easy by guide addition or importing choices. To manually add a primer, merely choose the area of the sequence the place you plan to position the primer. A devoted primer panel permits you to assign a reputation, specify whether or not it’s an RNA or DNA oligo, and select its orientation on both the ahead or reverse strand.

Moreover, you possibly can customise your primer by including a dangling tail. As an example, you would possibly append a six-nucleotide tail with a selected enzyme recognition website, reminiscent of XhoI. By copying and pasting the sequence, you possibly can seamlessly combine the popularity website into the primer. This modification is visually represented on the map as a dangling tail connected to the primer.

Moreover, BioDrive empowers you to make exact alterations, reminiscent of switching amino acids or codons. The binding website evaluation characteristic lets you assess the primer’s binding potential in your DNA sequence. You may outline parameters and let the system calculate the binding, serving to you determine particular binding areas or potential priming websites.

Alternatively, you possibly can import primers from a CSV file. The system permits you to customise parameters like mismatches, melting temperature (Tm), and GC content material. After calculations, you’re introduced with a number of choices that you would be able to additional refine. BioDrive offers you the pliability to change parameters, recalculate, and slender down your selections. Upon getting chosen the specified primer, you possibly can seamlessly combine it into your sequence.

To make sure primer integrity, BioDrive presents a primer evaluation perform. By choosing ‘primer evaluation’ underneath actions, you possibly can study the secondary construction of particular person primers. If you might want to assess primer dimers, you possibly can analyze a ahead primer paired with a reverse primer. The outcomes web page offers insights into the vitality and the formation of homodimers.

For researchers aiming to focus on particular areas, BioDrive presents a complete ‘create primer design’ characteristic. Right here, you possibly can outline parameters reminiscent of goal area, product measurement, and Tm vary. Upon clicking ‘design,’ BioDrive generates a listing of primer pair choices, full with detailed info, together with location, TM, and GC content material. This detailed overview empowers you to make knowledgeable choices based mostly in your analysis necessities.

What libraries does BioDrive provide to clients?

In BioDrive, we provide two buyer libraries that perform in an analogous method: the characteristic library and the oligo library.

The characteristic library lets you create a set of annotation options manually. You may add these options individually or use the import perform to herald a pre-existing listing of annotation options. Equally, the oligo library permits you to handle your primers or information sequences. You’ve gotten the pliability so as to add them manually or import them into the library.

Upon getting populated the oligo library along with your sequences, you possibly can make the most of the ‘detect oligos’ perform. This characteristic scans the focusing on sequence and mechanically provides the complementary oligo to your mission. Throughout the ‘detect oligo’ motion, you possibly can customise parameters and select from a choice of oligos so as to add to your scene.

Please are you able to inform us about BioDrive’s alignment perform characteristic?

With the alignment perform in BioDrive, you might have the pliability to both assess a sequencing file in opposition to a focused sequence or examine two sequences straight.

You may seamlessly load a number of MBI recordsdata by dragging and dropping them onto the platform, permitting for simultaneous alignment. The aligned sequences are displayed aspect by aspect, with any non-matching nucleotide information highlighted in purple. This visible cue helps determine disparities, and you may then choose the particular hint and rating the alignment for additional evaluation.

Alternatively, you should utilize alignment recordsdata, reminiscent of dropping a GenBank file, to check two DNA sequences. This performance proves invaluable when evaluating sequences derived from the identical origin however subjected to modifications. Once more, any disparities between the sequences are highlighted in purple, offering a transparent visible distinction between the variations within the product sequences.

What can the re-indexing perform be used for?

In BioDrive, managing round DNA sequences and linear sequences is made easy by the re-index perform. For round DNA, in the event you want to alter the unique level of the circle, you should utilize the re-index perform to enter a brand new location for the origin. Equally, if you might want to renumber a linear sequence, this can be achieved utilizing the re-index perform.

Moreover, BioDrive presents the pliability to vary the identify of each DNA and RNA sequences. This characteristic proves invaluable in eventualities reminiscent of registering a sequence into your system. BioDrive permits you to replace the quantity to the suitable registration ID in the event you obtain a success for a registration ID. This seamless integration ensures traceability to your sequences.

How can customers make the most of the BioDrive historical past characteristic?

The BioDrive historical past shows all the things you probably did in a selected BioDrive experiment. Each time you load the sequence, generate the sequence, or do an alignment, it’s all captured.

Arxpan BioDrive : A Single Answer for all of your Molecular Biology WantsPlay