Jack Wadden

Post-doc @UMich in the @KoschmannLab. Research: intro-operative/rapid sequencing, high-accuracy cf-tDNA sensing. @nanopore hacker. He/him 🏳️‍🌈

[Jack Wadden @jackwadden]

SUPER excited for this project to finally be out in
@CommsBio! Important updates since the pre-print include replicates, flowcell re-use, live basecalling/analysis, and ddPCR validation. @nanopore will end up in-OR (not if but when). A few notes below...

[Communications Biology @CommsBio]

Somatic variants for the intraoperative evaluation of tumor mutations can be detected in less than 30 minutes, using rapid DNA extraction, in silico optimized LAMP amplification, and a LAMP product analysis tool: LAMPrey. @jackwadden https://t.co/AGZS5HcLe7

[Jack Wadden @jackwadden]

Such an amazing experience to present to this group at #SNO2023! Come say hi at my poster later (BIOM-58) to talk about how we are rapidly and accurately sequencing a variety of sample types (tumor, csf, blood, biopsy wash water) using @nanopore

[Carl Koschmann @CarlKoschmann]

Excellent Presentation by @jackwadden from @KoschmannLab at SNO2023 (@NeuroOnc) on Nanopore sequencing plasma for H3K27M!

[Jack Wadden @jackwadden]

*cracks knuckles*

[Simpa Salami @samsimsal]

Fanstastic line up of insightful talks at the first ever @UMRogelCancer #liquidbiopsy symposium by @jackwadden @andi_cani @TewariLab with special guest speaker @max_diehn

[Jack Wadden @jackwadden]

@mattloose @gringene_bio *no pun intended lol

[Jack Wadden @jackwadden]

@mattloose @gringene_bio Loose lips are saying “soonish” timed closer to Mk1D rollout, but obviously take with a grain of salt 🤷🏻‍♂️🤞

[Jack Wadden @jackwadden]

@ahmetz @nanopore Happy to share! Ping me at [email protected] and I’ll pass it along. Also happy to answer any questions.

[Jack Wadden @jackwadden]

Even after one day, I'm *SO* happy I came to #NanoporeConf. Amazing networking. If you're here, come nerd out with me about hyper-accurate concatemeric consensus seq, ultra-rapid (<30min) seq, weird isothermal amplification techniques, and liquid biopsy using @nanopore!

[Jack Wadden @jackwadden]

@nanopore In fact, CCS is so close to perfect that we are able to profile the error rate of *individual pores*. It turns out not all pores are created equally and politely excusing the slackers further improves accuracy

[Jack Wadden @jackwadden]

@nanopore I'll be hanging around my poster (#59) from 11:30-12:40. We're showcasing our approach for MRD and cancer monitoring. Concatemer consensus sequencing is so accurate we can track VAFs down to ~0.05%

[Jack Wadden @jackwadden]

Day two at #NanoporeConf! Kicking things off listening to the Data for Breakfast talks. Kudos to @nanopore for committing to open sourcing their code! About halfway through adding support for duplex basecalling of lamplicons to dorado for even more accurate cf-tDNA detection

[Jack Wadden @jackwadden]

Excited to listen to @billytcl, @Carolinmsa, and @adbeggs talk about utility of @nanopore for liquid biopsy #NanoporeConf #LC23

[Jack Wadden @jackwadden]

Here we go! So excited to be at my first London Calling. I’m here presenting my poster (#59) on our same-day, LAMP-based ctDNA RMD monitoring technique. Come say hi! I’m the one with the big scar on my head @nanopore #NanoporeConf

[Vennetilab @vennetilab]

The incredible Drs. @CarlKoschmann &
@NazarianLabs presenting at the @PNOCFoundation @PNOC_kids @act_dmg in SF! So proud!

[Jack Wadden @jackwadden]

@nanopore Thanks @nanopore! And see you all at #nanoporeconf

[Oxford Nanopore @nanopore]

At #AACR23, @jackwadden shared his research developing a new protocol to identify brain tumours in less than an hour, right in the operating room. He discussed his protocol's potential to impact surgical-decision making, in the future. Learn more👇

[Jack Wadden @jackwadden]

Featuring some older ultra-rapid LAMP @nanopore results. We were able to amplify DNA from raw, unprocessed wash water and call clinically relevant mutations within 1hr of sample hands on! We can go a lot faster these days 😜

[Jack Wadden @jackwadden]

Super excited to be at #AACR23 presenting my poster on needle wash diagnostics. We’re sequencing cell-free waste water DNA from biopsy needles and finding exciting potential for clinical diagnostics *AND* research. Come say hi at section 38 poster 18 (#2115)

[Jack Wadden @jackwadden]

@sudharao3 @nanopore Yes! Amplicons and rapid barcoded tagmentation (RBK114)

[Jack Wadden @jackwadden]

Briefly switching gears from my liquid biopsy work back to ultra-rapid @nanopore sequencing. This is a three target panel with 1,000x coverage over all three targets ***within 30mins*** of tissue hands on. Continuously amazed by this tech and kit14 improvements!