loosolab

Applied bioinformatics lab with a focus on omics screens and epigenetics

[loosolab @loosolab]

🎆Excited to share our new Paper on FRED in Nature Scientific Reports. Here we suggest a tool for standardized FAIR metadata generation and management for omics research.
https://t.co/PdH3YjABFK

@CPI_ExStra @mpi_hlr #FAIR

[loosolab @loosolab]

🚀 Our new paper is out in Cell iScience!

SC-Framework is a robust, FAIR, and semi-interactive environment for reproducible single-cell data analysis. I

Read it here: https://t.co/eZ0L4I2wvA

#SingleCell #Bioinformatics #FAIR #OpenScience #scRNAseq

[loosolab @loosolab]

Excited to share that Jan was presenting a poster on our PEAKQC package and the sc-framework at the scverse Conference in Stanford, California @scverse_team

[loosolab @loosolab]

📢 Paper Alert: Now in Briefings in Bioinformatics and scverse (@scverse_team)!
PEAKQC, a Python package for robust QC of single-cell ATAC-seq data, identifies high-quality cells accurately.
👉 https://t.co/BEFKHWbdTZ

[loosolab @loosolab]

🚀 Two exciting days of Computational Biology at the Cardio-Pulmonary Institute (@mpi_hlr, @CPI_ExStra) ! 🔬 Workshop on single-cell analysis + the CPI repository ressource;
💡 Hackathon with the Schulz Lab @TheMarcelSchulz
Collaboration, coding & discovery #Bioinformatics

[loosolab @loosolab]

🚀 Just released: Multicrispr², an R package for gRNA library design!
✅ Single & paired gRNAs
✅ Prime editing
✅ Scales to large projects
✅ Multitude of parameters
Perfect for high-throughput CRISPR workflows
🔗https://t.co/22x8NvL2pP

#CRISPR #Bioinformatics #Pertomics

[loosolab @loosolab]

Code fest alert! Our Bioinformatics Core unit at @MPI_hlr is hosting a Hackathon today! Our team is working together to improve automated reports, streamline workflows, and enhance our CPI repository (@cpi_exstra). #Bioinformatics #Hackathon #MPI_hlr"

[loosolab @loosolab]

🏃‍♂️ Team spirit on the move! The @loosolab team proudly took part in the JP Morgan Corporate Challenge in Frankfurt. Great energy, and a great run! 💪🌟 #JPMCC #FrankfurtRun #JPMorganCorporateChallenge

[loosolab @loosolab]

🚀 Excited to announce PeakQC (@mpi_hlr), our new tool for single-cell quality assessment using scATAC-seq fragment patterns, is now part of the scverse (@scverse_team) ecosystem! 🎉
🔗Check it out: https://t.co/QFBQieCxNl
#scATAC #SingleCell

[loosolab @loosolab]

🎉 Congratulations to Moritz (@mpi_hlr) on the launch of NucleoDetective, his tool for chromatin research! 🧬 Presented at the @EMBLEvents #EMBLChromatin — and awarded the Poster Prize by community vote! 🏆
#CPI_ExStra #Epigenetics #Chromatin

[loosolab @loosolab]

🎉 Jan and Moritz present peakQC and NucleoDetective at the @EMBLEvents Chromatin & Epigenetics conference!
🧬 peakQC: Defines a new metric to filter scATAC-seq data.
📍 NucleoDetective: Pinpoints nucleosome positions from ATAC/scATAC data.
#Epigenetics #scATAC #Chromatin #EMBL

[loosolab @loosolab]

Had an amazing time @mpi_hlr retreat in Ringberg Castle. Presented posters, led a workshop on data exploration and our repository platform, enjoyed discussions with talented people from across the institute, and soaked up in the breathtaking scenery

[loosolab @loosolab]

Had a fantastic time at the first CPI Hub2 workshop 🎉 at @mpi_hlr. Highlights included expert talks from Prof. Bartkuhn and Prof. Schulz @TheMarcelSchulz, along with workshops on the SC framework (10.5281/zenodo.11065517), and handling FAIR metadata. #CPI_ExStra

[loosolab @loosolab]

We participated in three amazing workshops on STARE (https://t.co/u9fxqCeG3o), STITCHIT(https://t.co/sE2JNO2DbK) and our BCU (bioinformatics core unit) repository, which is a cloud based web service used to manage and share large-scale omics dataset at the MPI-HLR BN @mpi_hlr !

[loosolab @loosolab]

Some impressions on our joint CPI hackathon @CPI_ExStra with the Schulzlab @TheMarcelSchulz on the MPI HLR BN @mpi_hlr.
We had amazing talks and workshops on sc-ATAC analysis and FAIR data.🧑‍💻
Besides work, we enjoyed great pizza and a walk through #BadNauheim.🍕🚶

[loosolab @loosolab]

Also in Poster #75, Jan will talk about a standardized framework specific for analysis of single cell ATAC-seq. Lots of input from the loosolab at this #gcb2023 🥳

[loosolab @loosolab]

We are here at the @gcb2023 - very exciting talks already and looking forward to the next days of bioinformatics science! Join us at the poster session 17.30-19.30 to learn more about our research:

[loosolab @loosolab]

Finally poster #124, Sweta presents her work on identifying alternative proteins through CRISPR-mediated functional profiling. See you all at the poster session!