Year in review
The PipeBio platform has seen a bunch of development during 2022 which have been well received by our customers. We've come forth with many new features and tools for NGS analysis and Sanger analysis, including tools for visualization and efficient analysis. We picked a few features released during this year for this article.
Scaling analysis up to NovaSeq
We wrote about how to analyze billions of NGS sequences earlier this year, which marks a milestone for a next level of scalable NGS analysis on the PipeBio platform. We’re able to scale up to sequence analysis billions of reads and now have customers routinely analyzing sequences from NovaSeq runs (in a couple of days).
We recently released our new and improved annotation tool. It is now even more accurate being able to detect germline mutations on the nucleotide level as well as define region boundaries and frameshift locations with greater accuracy. As before, our annotation engine supports multiple numbering schemes (IMGT, Kabat, AbM, custom), a variety of species from Human, Alpaca, Llama, Rabbit, Chicken to any custom germline gene databases.
SSO & SCIM
Earlier this year we rolled out support for SSO and SCIM on PipeBio for enterprise customers. SSO allows easy management of access control and employee sign-on activities, which is a requirement for many companies. SCIM again allows automation of user identity management across IT systems and is also supported by PipeBio. Implementation of PipeBio’s SSO and SCIM is straightforward and well-documented.
This year we introduced the phylogenetic tree chart that enables visualization of both sequence alignments and associated metadata, such as ELISA and binding assays. You can use the tree as a flexible tool to visualize the diversity of your antibodies or peptides, clonal families as well as hit pick sequences based on liabilities or developability visually.
The cluster view chart is a precursor to our up and coming charts for better visualizing relationships between sequences and clonal families. We also showed how to use the chart to visualize an immune repertoire from tonsil immune cells, Ig isotypes and B cell stages (naive B cell, Germinal Center, Memory B cell and Plasmablasts) in our article on analyzing single B cell repertoires and 10x Genomics barcoded data.
Hydrophobic regions and protein properties
We implemented coloring and numerical representations of hydrophobic patches for all sequences. We also implemented a tool for calculation of sequence protein properties (such as charge, molecular weight etc.) for sequences. You can find more information about hydrophobicity and protein properties on our website.
We are proud to have released the newest iteration of our website with a fresh look, better navigation and updated content. If you’re reading this blog post, congratulations, you’re already on our new website.
Feel free to explore and if you’re interested in exploring our platform, don’t hesitate to reach out and we’ll arrange a call to show you around.