FPbase

Try the new FPbase spectra viewer! Completely rewritten to be faster, more customizable, and full-featured: • SVG/PNG/CSV export • state recovery & URL sharing • keyboard shortcuts for rapid entry 💚 • efficiency calculations • full documentation fpbase.org/spectra

Hi Fluorescence friends! Please follow future updates on Bluesky: bsky.app/profile/fpbase…

@joachimgoedhart @facette_lab @weinberz also commented in the thread by @christlet... but just an update that the names on FPbase have been updated keeping the conventions proposed in this thread here. With "mStayGold" (from Ando et al), StayGold-E138D, and mBaoJin x.com/FPbase/status/…

@facette_lab @weinberz @FPbase 3/3: mBaoJin, which in the original preprint is called mStayGold fpbase.org/protein/mbaoji…

@weinberz @joachimgoedhart @christlet They all retain the alias mStayGold, and so will all still show up when one searches for "mStayGold"

@weinberz @joachimgoedhart @christlet Thanks @christlet for the helpful thread! An update on the FPbase namings: - "mStayGold" now refers to QC2-6 FIQ from Ando et al: fpbase.org/protein/mstayg… - Ivorra-Molla et al is "StayGold-E138D": fpbase.org/protein/staygo… - Piatkevich et al is mBaoJin fpbase.org/protein/mbaoji…

Carefully read this thread (and cited references!!) before choosing between mStayGold, mStayGold, and mStayGold x.com/christlet/stat…

This exercise was less informative than I'd hoped, but perhaps it's interesting to someone else: spectroscopically-inferred estimates of densities of states for a selection of fluorescent proteins spanning the visible spectrum. Data from @FPbase.

recently hit 2,000,000 sessions on @FPbase ! 📈

Mutagenesis of #FbFP #LOV domain: 🟠 22 variants with 486-512 nm emission maxima 🟠 three-channel imaging via spectral unmixing 🟠 two-channel fluorescence lifetime unmixing doi.org/10.1101/2022.1… Congratulations, @ivangushchin, @Aynya5, and all the authors! @FPbase

@bakermind (*not easily)

@bakermind took a look, there are 90 2P spectra currently available in the database. So, this is a user interface problem rather than a data storage problem 😬 ... (GM units are also stored in the database, but easily accessible) my apologies!

Back in the day there was this person at Cornell who published a bunch of two-photon cross sections for fluorophores, and then there was a legendary paper from University of Montana that measured a bunch of RFPs, but I'm still longing for an @FPbase for 2P absorption

Our article reporting hyperfolder YFP (#hfYFP) and other fixative-resistant fluorescent proteins based on #mGreenLantern is now available at @naturemethods. hfYFP enhances electron- and expansion-microscopies, protein purification, and so much more! 🧵nature.com/articles/s4159…

Chapter on using FPbase tools out now in the MMB issue on FPs. Thank you for editing @mayankdu!

@the_anatomist1 @aandr314 @helsinkiuni @Daniel_Wa19 Yes, but with more dyes, proteins, and filters, and no commercial interest 😉

@aandr314 @helsinkiuni @FPbase @Daniel_Wa19 Is it similar to Flourescence SpectraViewer by Thermofisher?

this is genius: @helsinkiuni BioImaging Unit utilizes @FPbase to allow users test their fluorophores fpbase.org/microscope/u4g… cc @Daniel_Wa19

@mycroscopy Wow, that’s a really impressive amount of organization! Very cool, congrats

Nice to know the time we spent making these setups haven’t gone to waste. You can find all the @fpbase microsopes we made here: #content/view/193954699" target="_blank" rel="nofollow noopener">wiki.helsinki.fi/plugins/servle… Just click on each instrument and scroll down to see the fpbase link for it.

@fungalhyphae @aandr314 @helsinkiuni @Daniel_Wa19 Love it! 😍

@aandr314 @helsinkiuni @FPbase @Daniel_Wa19 Dude...... "using the 'GFP' config entered, you should use x " Thanks for pointing out @aandr314 @FPbase this is truly transformative for helping users

anyone out there routinely express FPs in Chlamydomonas? any modern suggestions for SNR? (presumably red, but any expression gotchas?)

@beniroquai That would be 50% of max Extinction coefficient (not QE). If you’re asking whether it “works”, it will be case-specific. Will require more illum power, so more damaging to sample. And may generate more background, depending on sample. But with enough power you’ll get photons :)

GFP @ 450nm? QE ~50%. Any experience? Spectrum from @FPbase