Abterra Biosciences’ Post

Single cell RNA-sequencing #scRNAseq has become a unique skill for exciting new discoveries. CPI member Prof. Dr. Wesley Abplanalp from the Goethe-Universität Frankfurt has specialized on single-cell-analysis and offers a platform for #collaborations between other CPI members. RNA sequencing (RNA-seq) is a modern method to determine the nucleotide sequence of #RNA. RNA molecules actively support important intracellular functions and their nucleotide sequence shows useful information about specific cell behavior. Due to the small amount of specific RNA molecules in individual cells, in the past, RNA-seq has been performed with ensembles of thousands to billions of cells. Today RNA-seq has become possible on a single cell level. Find more about our faculties and platforms here: https://lnkd.in/eXKtxsyD

See how direct detection can transform your miRNA studies with efficiency and speed using nCounter technology! #miRNA #GeneExpression #Nanosting #drugdevelopment

Assessing the quality of gDNA is of utmost importance in NGS workflows. Long-read sequencing offers researchers the capability to analyze genomes more comprehensively and accurately. This webinar will provide an overview of the applications and key benefits of the Agilent Femto Pulse system particularly its use in PacBio long-read sequencing workflows. Register now: https://bit.ly/3UB3MkK #NGS #RNAseq #DNASequencing

BoltonLab (Ar)tifact Filtering (C)lonal (H)ematapoiesis Variant Calling Pipeline "This pipeline is designed to process mutant/wildtype H.sapiens sequencing data from Illumina based sequencing for low VAF CH variants. It features four variant callers (Mutect2, VarDictJava, Lofreq2, and Pindel) for variant detection and performs various false positive filters and detection methods (fp_filter, PoN Fisher’s Exact Test, XGB model, etc.). This pipeline also generates VEP style annotations for all called variants as well as additional putative driver annotations generated from various database sources (TOPMed, MSK-IMPACT, COSMIC, OncoKB, etc.)" #ClonalHematopoiesis #ClonalExpansion #bioinformatics #tools #CLI #bioinformaticstools https://lnkd.in/gchvXtRf

Assessing levels of circulating free and EV-associated nucleic acids in the plasma of glioblastoma patients: in their latest work, Elisabeth Rackles, Juan Manuel Falcon Perez at CIC bioGUNE and collaborators reported a straightforward and reproducible method to analyse cell-free nucleic acids in plasma and EVs using conventional flow cytometry, which can be easily translated into clinical practice https://lnkd.in/e-P587k3 They demonstrated that Pyronin Y-fluorescent staining of EVs isolated from cell-conditioned media is an effective method for detecting DNA and RNA using flow cytometry. An article co-authored by Elena Zaccheroni, Patricia Hernández López, Stefania Faletti, Massimiliano Del Bene, Francesco DiMeco and Giuliana Pelicci #extracellularvesicles #exosomes #glioblastoma #RNA #flowcytometry #Vesiculab

Congrats on the prize! There has always been someone working with microRNAs (miRNAs) in every lab I have worked since the grad school. I believe the impact has been obvious since the discoveries. As another small non-coding RNA has been decided to be Nobel-worthy, I have a few suggestions to improve some aspects of the experimental designs further. I think we are making progress in describing tissue specificity and working on identifying challenges. This is great! However, in the case of miRNAs, turnover/rate and dynamicity of expression might also matter. I realized that high throughput(HT) time-point miRNA or co-expression (miRNA-mRNA) studies are rare. Time/phase/stage-dependent profiling (associating the pathways/targets for the given time to verify) might be helpful to get a consistent profile of differentially expressed miRNAs (DEmiRs). If you are looking for HT complete RNA profiling (including miRNA and mRNA) of the same single cells, I can share three assays that you can check out: * Smart-seq Total * VASA-Seq * scComplete-seq If you use scComplete-seq&enough budget for scRNA-seq, you can always reach me on how to improve the small RNA (including miRNA and piRNA) detection rate by modifying a few steps. All the best, #nobelprize #miRNA #microRNA #discovery #totalRNA #highthroughput #singlecell #scRNAseq

Go big with PacBio - move towards larger scale studies with Kinnex kits, and witness an increased throughput for full-length RNA, single-cell RNA, and 16S rRNA that short-reads would struggle to provide. Our Kinnex kits utilize highly accurate HiFi sequencing to capture full-length transcripts, with no assembly required. This enables a higher-resolution picture of transcriptomes at the isoform level, which is crucial for understanding human biology and disease. Learn more: https://bit.ly/4g1tOaX #Kinnex #PacBio #RNASequencing

Check out this new app note highlighting the performance of our Watchmaker RNA Library Prep Kit with Polaris Depletion on the Beckman Coulter Life Sciences Biomek i7 Hybrid NGS Workstation https://lnkd.in/gQRa_nP9 ✅ Generate 96 RNA libraries in under 8 hours ✅ Use RNA inputs as low as 1 ng ✅ Achieve excellent performance with FFPE samples What more could you ask for?? #AutoMagic #NGS #Genomics

RNA 5-methylcytosine marks mitochondrial double-stranded RNAs for degradation and cytosolic release: Molecular Cell https://lnkd.in/g88AF3Mx

Explore a cutting-edge method for cell profiling, targeted digital cytometry, in our new webinar. Discover how CiberMed’s iSort™, paired with Agilent SureSelect targeted NGS, achieves highly accurate cell type composition profiling from bulk RNA isolated from peripheral blood and FFPE tissue samples. Register now: https://lnkd.in/gkEVvwae #Webinar #DigitalCytometry #CellTypeProfiling #TargetedSequencing #ImmuneCellProfiling #CellProfiling #Cytometry #TargetedRMAsequencing #RNAsequencing #NGS