🔍 AI-assisted error detection: By comparing a video of an experiment to the baseline protocol, our agent detects common mistakes. It found 3/4 of all errors in our benchmark dataset, though domain-specific knowledge & spatial recognition need improvement. #GenerativeAI #QualityControl 3/🧵

✍️ Automated protocol generation: Just record yourself doing an experiment while explaining the steps. Our agent analyzes the video and audio to generate a detailed, formatted protocol in minutes. #MultimodalAI #FutureOfScience 2/🧵

Anticipated Results: Expect deep coverage with 7,000 protein groups and 29,000 Class I phosphosites in 21 min! Synchro-PASEF combines high sensitivity, selectivity and speed - no compromises. Shows superior quantitative performance, especially at low inputs and fast gradients. #proteomics 10/🧵

🔧 Troubleshooting: We have you covered for (every) challenge you encounter. We explain how to the clean the emitter, improve timsTOF performance, or manage sample load. #troubleshooting #proteomics #TeamMassSpec 9/🧵

📋 Step-by-step #protocol of PASEF workflow: From calibration to automated method generation with py_diAID. Dive into #timsTOF acquisition followed by analysis with AlphaDIA, Spectronaut & DIA-NN. Use our dia-PASEF & synchro-PASEF methods. Everything you need for successful #proteomics analysis! 8/🧵

Methods selection simplified: One robust method covers all standard proteomics samples. For modified peptides like #phosphoproteomics #peptidomics #HLA specialized methods (orange) are essential. Why? Chemical properties dictate precursor behavior. 7/🧵

Fine-tuning PASEF:
1) Optimal DIA isolation windows maximize precursor cloud coverage.
2) Short cycle times (500ms with synchro-PASEF) ensure high reproducibility.
3) Need enhanced sensitivity? Longer TIMS accumulation captures low abundant ions.
#proteomics #massspec 6/🧵

🛠️ Meet py_diAID on GitHub: Our open-source #python tool that makes dia-PASEF & synchro-PASEF method development easy! Optimize your windows for any sample type - from #proteomics over #phosphoproteomics to #peptidomics #HLA. Validate methods before running or transform your own method into a GIF 5/🧵

⚡️ synchro-PASEF: Our newest scan mode uses a super-fast moving quadrupole for high selectivity with up to precursor resolution - keeping all advantages of DDA & DIA. Result: 2-3x faster cycle times than dia-PASEF (only 500ms) AND superior quantitative reproducibility. #synchroPASEF #DIA 4/🧵

dia-PASEF: Optimal DIA isolation windows in both m/z AND ion mobility space maximize precursor coverage. Our optimized methods capture nearly the entire precursor cloud in shorter cycle times - giving you a robust method with deep proteomes. #diaPASEF #DIA 3/🧵

#PASEF 's magic: By decoupling ion accumulation from mass detection, PASEF captures nearly ALL ions with high sensitivity. Plus, ion mobility separation gives you cleaner spectra by sorting precursors & fragments in an extra dimension. Less overlapping peaks! #timsTOF #Bruker 2/🧵