BioBam Bioinformatics

Long-read sequencing in action! ⚡ Fabian Jetzinger, our Teammate and PhD student in the Long TREC MSCA network recently collaborated with #isONpipeline developers in Stockholm. This tool, integrated into OmicsBox, supports reference-free transcriptome reconstruction from long-read sequencing data. At the #LRUA2024 conference, Fabian presented his research on identifying RNA isoforms across biological replicates through the poster “Call & Join vs. Join & Call.”  During the LongTREC workshop, he highlighted how #OmicsBox facilitates end-to-end long-read RNA analysis, covering mapping, reconstruction, and metatranscriptomics. This exchange of ideas drives innovation and future improvements in our tools! Read the full article and download the poster in our blog! #BioBam #Bioinformatics #LongReads #RNAseq

That’s a wrap! 👏 The BioBam team had an incredible time at the I Congreso Nacional de la Sociedad Española de Bioinformática y Biología Computacional (SEBiBC) in Valencia. As sponsors, it was great to be part of an event that united and connected many talented professionals. A big shoutout to Marta Benegas for her poster presentation on an End-to-End Single-cell analysis in #OmicsBox, which generated insightful discussions and interest from many attendees! We say goodbye -until next time! with new insights, connections, and inspiration. Thank you to all who made this event unforgettable! #BioBam #SEBIBC #Genomics #Bioinformatics

💻🧬 Upcoming webinar: Comprehensive Biological Pathway Analysis 7 November 9:30 | 18:30 CET https://lnkd.in/dQPyWM8c Integrate and Analyze Pathways and Expression Data in OmicsBox with a Practical Use Case. Are you working with transcriptomics or proteomics data? Looking for tools to streamline your pathway analysis? Don't miss this hands-on webinar where you'll learn how to: · Prepare transcriptomics or proteomics datasets of any species, for combined pathway analysis · Link expression data with databases like #KEGG, Reactome, and Gramene · Perform various types of Enrichment Analysis to identify statistically significant altered pathways · Search for, visualize, and extract key insights from relevant pathways · Watch a live demo of OmicsBox with real-world applications Stefan Götz, PhD(Author of Blast2GO) will walk you through linking expression data with major biological databases, performing enrichment analysis, and exploring pathways — all with #OmicsBox. Plus, you'll see these techniques in action with a live demo! Register now for free! #BioBam #Webinar #Bioinformatics #PathwayAnalysis

We are excited to announce that BioBam is sponsoring the I Congreso Nacional de la Sociedad Española de Bioinformática y Biología Computacional (SEBiBC) in Valencia, from October 16th to 18th. At BioBam, we are dedicated to supporting the scientific community and advancing bioinformatics. Our mission is to bridge the tech-gap between computational biology and molecular biology, making bioinformatics more accessible for everyone. This event provides a great opportunity for us to connect with researchers and professionals, share insights, and contribute to the Spanish bioinformatics ecosystem. We look forward to seeing you in Valencia! #Bioinformatics #CongresoBioinformática #BioBam Sociedad Española de Bioinformática y Biología Computacional (SEBiBC)

A few days have passed since #ECCB24 ended, but I’m still reflecting on everything I’ve learned — it was a lot! One aspect that I still recall was the sense of scientific community. I saw many examples of research achieved through the combined efforts of multiple labs and teams. Certainly, big discoveries can be made when we join forces and share knowledge 🗺️. That is why I enjoy attending conferences — they allow me to stay connected with researchers and foster potential long-term collaborations.  That said, I hope that everything I’ve learned and my contribution to #OmicsBox helps make single-cell analysis reachable for any scientist, so my experience can benefit many others 🚀 . See you next year!

New Article! 📋Combining Transcriptomes with TAMA Merge 🧬 Analyzing long-read RNA sequencing data presents unique challenges, especially in identifying novel isoforms. Experimental conditions can greatly influence isoform diversity, making it essential to distinguish true isoforms from artifacts. In this new article Fabian Jetzinger explores these challenges and introduces TAMA Merge, a powerful tool within #OmicsBox 3.3. TAMA Merge enables researchers to combine novel isoforms from different conditions into a unified transcriptome, ensuring even rare isoforms are accurately captured. Discover more by reading the full article: #BioBam #RNASequencing #Bioinformatics #Transcriptomics #TAMAMerge #DataAnalysis

New Webinar! Metagenomics Data Analysis with OmicsBox 26 September 9:30 | 18:30 CET 🦠 A Comprehensive Microbiome Case Study: Targeted Sequencing and WGS Metagenomics We’ll present a practical case study on aging and rejuvenation, using mouse gut microbiome data. You’ll see how #OmicsBox makes complex metagenomics analyses, like those using Kraken2, simple and effective. This webinar will guide you through essential metagenomics analysis techniques, perfect for researchers and bioinformaticians looking to improve their skills. In this webinar, you will learn: 1️⃣ Quality control and assessment. 2️⃣ Taxonomic classification of WGS and 16S rRNA data. 3️⃣ Result interpretation and differential abundance analysis between samples. Speaker: David Seide Team Lead Bioinformatics & Senior Software Engineer Host: Stefan Götz, PhD, Author of Blast2GO Register now for free! #BioBam #Metagenomics #Microbiome #WGS #16SrRNA #Bioinformatics #Kraken2 #MetagenomicAnalysis

Ready to take your #OmicsBox experience to the next level? Check out our latest video packed with essential tips & tricks designed to help you unlock the full potential of our bioinformatics platform. Whether you’re just starting or a seasoned pro, this guide offers the best tips to streamline your workflow and enhance your analysis. 🎥 What you’ll learn: - How to Run a Job - Opening Results - Get Side Panels and Charts - Adjusting Custom Views - Utilizing the Context Menu #Bioinformatics #DataAnalysis #TipsAndTricks #WorkflowOptimization https://lnkd.in/dfg-bQHg

New Article! 📋 Understanding maSigPro Timecourse Results Are you working with temporal gene expression data and looking for a robust tool to manage complex experimental designs? Look no further than #maSigPro! While powerful, understanding how maSigPro works and interpreting its results can be challenging. Marta Benegas has written a detailed, step-by-step guide to help you navigate maSigPro's outputs. This guide is part of the new features in #OmicsBox 3.3 and, by the end, you'll be equipped with the knowledge to extract meaningful insights from your timecourse gene expression data. Read the full article in our blog! #GeneExpression #Bioinformatics #ResearchTools #DataAnalysis

🧬 New Release: #OmicsBox 3.3: improved, faster, stronger! OmicsBox 3.3 is now available, introducing several new features and improvements that reflect the feedback and needs of our community. This release includes additional taxonomic classifications via Silva, Greengene, and GTDB in the #Metagenomics module and significant upgrades in the Transcriptomics module for bulk, single-cell, and long-read transcriptomics. In addition, enhancements include improved time course analysis, a redesigned long-read IsoSeq pipeline, and the TAMA merge option. These updates are designed to support and accelerate scientific research and make bioinformatics easy by providing our users with advanced tools and capabilities for their work. To learn more about the new features and improvements of OmicsBox 3.3, read the full article here: #BioBam #Genomics #Bioinformatics #Software