Yishai Levin @YishaiLevin Twitter profile

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Yishai Levin

@YishaiLevin

17 days

#teammassspec #proteomics please give a warm welcome to Andrew. Our newest lab member

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Yishai Levin

@YishaiLevin

9 months

Palestinian kid explaining how Hamas is preventing by force (hitting them and shooting) families from getting the humanitarian aid. So this aid is fueling the war?

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Yishai Levin

@YishaiLevin

4 years

כולם אומרים תודה לפייזר, תודה לנתניהו אבל מישהו אמר תודה לביולוגים שבזכותם הידע לפתח חיסון כזה קיים? בזכות מחקר בסיסי ארוך שנים ומייגע. אז תודה למדענים הסקרנים שבזכותכם הידע הזה קיים.

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Yishai Levin

@YishaiLevin

11 months

@BarkolAmir @LittleMoiz

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Yishai Levin

@YishaiLevin

3 years

Best T shirt ever

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Yishai Levin

@YishaiLevin

2 years

#TeamMassSpec what do you think of this slide? Accurate?

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Yishai Levin

@YishaiLevin

2 years

@RackMada לא יודע על מה אתה מדבר. אני גר בשכונה מעורבת עם חילונים, דתיים, וקצת חרדים. חיים בשלווה ואחדות. מכבדים אחד את השני בלי שום בעיה. אנשים שופטים את המציאות דרך החדשות. תסגור טלויזיה ו ynet ותראה איזה אנשים מדהימים יש במדינה שלנו.

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Yishai Levin

@YishaiLevin

1 year

@orlev_omer @JohnSimpsonNews

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Yishai Levin

@YishaiLevin

5 years

Quote of the year: “DNA gets all the credit, but proteins do all the work”

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Yishai Levin

@YishaiLevin

6 years

Orbitrap coffee

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Yishai Levin

@YishaiLevin

1 year

When a third of the lab was enlisted to the military (guarding our borders from evil) and the rest are at home watching over the kids, I open my lab notebook (last entry was 11 years ago 😯), pick up the pippets and get to work 💪

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Yishai Levin

@YishaiLevin

9 months

@AbuAliEnglishB1 Also when you look at Jewish buildings in Europe you see armed guards. What does it mean? We are forced to carry arms because of Palestinian terrorism.

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Yishai Levin

@YishaiLevin

1 year

@RavivDrucker

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Yishai Levin

@YishaiLevin

3 years

Conversation with my mom: Me: Mom, you’ll never guess what we discovered today.. Mom: ? Me: we can separate glycopeptide isomers! Mom: just by retention time?! Without Ion Mobility?? . . . (Mom is an Analytical Chemist)

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Yishai Levin

@YishaiLevin

4 years

Our paper is out! #RawBeans is a QC tool for inspecting raw mass spec data quickly and easily. We made an effort to make it easy to run and visually appealing. Give it try

RawBeans: A Simple, Vendor-Independent, Raw-Data Quality-Control Tool

Every laboratory performing mass-spectrometry-based proteomics strives to generate high-quality data. Among the many factors that impact the outcome of any experiment in proteomics is the LC–MS...

pubs.acs.org

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Yishai Levin

@YishaiLevin

7 months

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Yishai Levin

@YishaiLevin

2 years

Our glycopeptide enrichment method is now public (). Glycosylation is among the most fascinating post translational modification but also the most challenging to analyse. We were not please with current glycopeptide enrichment methods.

Optimized Glycopeptide Enrichment Method–It Is All About the Sauce

Protein glycosylation is a family of posttranslational modifications that play a crucial role in many biological pathways and diseases. The enrichment and analysis of such a diverse family of...

pubs.acs.org

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Yishai Levin

@YishaiLevin

4 years

Super excited to get our Exploris 480+FAIMS

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Yishai Levin

@YishaiLevin

3 years

Did it! M Class connected to TIMMY via contact closure, controlled by XCalibur+LC devices on *the same pc* with HyStar and TIMS-Control.

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Yishai Levin

@YishaiLevin

3 years

Coming soon: students will be able to run their own samples. If anyone running a core has done this, I’d like to get tips. #TeamMassSpec

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Yishai Levin

@YishaiLevin

1 year

We have it running automatically for every raw data we generate on our systems here’s the paper:

RawBeans: A Simple, Vendor-Independent, Raw-Data Quality-Control Tool

Every laboratory performing mass-spectrometry-based proteomics strives to generate high-quality data. Among the many factors that impact the outcome of any experiment in proteomics is the LC–MS...

pubs.acs.org

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Yishai Levin

@YishaiLevin

2 years

Glycoproteomics of 379 human brain samples: done! What a goldmine of data! Now the fun begins #glycotime #Teamglyco

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Yishai Levin

@YishaiLevin

2 years

Git my T shirt!

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Yishai Levin

@YishaiLevin

3 years

I am blown away by DIA-NN. Looking in Skyline at the data to visually inspect it (cause the numbers are too good to be true) and it is very convincing.

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Yishai Levin

@YishaiLevin

4 years

Head to head: nanoAcquity vs Ultimate 3000

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Yishai Levin

@YishaiLevin

7 months

tims-Tof Ultra 🤩

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Yishai Levin

@YishaiLevin

3 years

TIMS Tof training 🤩

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Yishai Levin

@YishaiLevin

2 years

If I had a $ for every time I hear 'but we saw it using WB' for Co-IP experiments I'd have 10 more mass specs.

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Yishai Levin

@YishaiLevin

2 years

A question to all you software developers in #TeamMassSpec . When you perform spectra recalibration, do you take into account that the mass error distribution looks like this?

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Yishai Levin

@YishaiLevin

2 years

New toys are fun. Especially when they’re engineered so well

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Yishai Levin

@YishaiLevin

2 years

Excellent Skyline user’s meeting at #ASMS2022 . Thanks @mjmaccoss for the opportunity to share our story and the impeccable organization.

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Yishai Levin

@YishaiLevin

4 years

Signed off the 11th mass spec in my short career

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Yishai Levin

@YishaiLevin

2 years

#hupo2022 come see my poster if you’re interested in glycosylation or just say hello today PP01.157

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Yishai Levin

@YishaiLevin

3 years

I feel so privileged to be able to provide my 7 yrld a “molecular seat belt” against COVID19. Thank you to the amazing Israeli healthcare system and to the scientists who made this happened.

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Yishai Levin

@YishaiLevin

4 months

MS1 chromatogram of 250pg HeLa injected from a 384well plate on a #Bruker nanoElute2 and timsTOF Ultra in DIA-PASEF resulting in 2,740 proteins (15,400 peptides), processed with Spectronaut 18.1 with precursor PEP cutoff of 0.001. I think we're ready for scProteomics.

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Yishai Levin

@YishaiLevin

4 months

1/3 Our paper is out! (probably) The largest mass spec based glycoproteomic profiling ever done. 366 human brains were analyzed, quantified >11,000 glycopeptiforms.. #glycotime #teammassspec

Glycoproteome-Wide Discovery of Cortical Glycoproteins That May Provide Cognitive Resilience in...

Background and ObjectivesMolecular omics studies have identified proteins related to cognitive resilience but unrelated to Alzheimer disease and Alzheimer disease–related dementia (AD/ADRD) patholo...

www.neurology.org

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Yishai Levin

@YishaiLevin

3 years

Automating SCOPEMS2 on the #Bravo for #singlecellproteomics . Mock run.

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Yishai Levin

@YishaiLevin

2 years

Our manuscript is out! We compared FFPE vs fresh frozen tumor tissue and used the G-PTMD module in MetaMorpheus @Smith_Chem_Wisc to find interesting differences between the storage methods:

Comparison of matched formalin‐fixed paraffin embedded and fresh frozen meningioma tissue reveals...

Tissue biopsies are most commonly archived in a paraffin block following tissue fixation with formaldehyde (FFPE) or as fresh frozen tissue (FFT). While both methods preserve biological samples,...

analyticalsciencejournals.onlinelibrary.wiley.com

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Yishai Levin

@YishaiLevin

10 months

My oldest started her mandatory military service. A weird combination of pride and anxiety. 😭🇮🇱

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Yishai Levin

@YishaiLevin

1 year

Our first Q Exactive. You served us well for 11 years. Still delivering very high mass accuracy and decent sensitivity. But we need to make room for newer, shinier (much more expensive) toys. So long budy. I hope you enjoy measuring metabolites… #teammassspec

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Yishai Levin

@YishaiLevin

3 years

Proteomics folks out there, I have a question about correction for multiple hypothesis testing (FDR). We find a lot of experiments when Q vales are very high with p values very low. We validate the results and find they are indeed significant. What would you do in such cases?

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Yishai Levin

@YishaiLevin

4 years

Running a set of 96 samples. Instead of opening them one by one in Xcalibur to check raw data quality, I ran our RawBeans QC tool and easily spotted a problematic sample during the run.

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Yishai Levin

@YishaiLevin

5 months

Kick-starting another advanced course in proteomics data analysis.

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Yishai Levin

@YishaiLevin

2 years

Tip of the day for #TeamMassSpec : if you’re setting up a PRM method, take the time to optimize the NCE values for each peptide. You can get a significant boost in sensitivity (particularly if you try lower values)

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Yishai Levin

@YishaiLevin

2 years

Impressions from running a 'Sandbox': a system dedicated for indepdendant use by students and postdocs. 1. in our case, it is meant for people who can bring true ready to run samples and know now to process the data.

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Yishai Levin

@YishaiLevin

4 years

Our “super sophisticated” nanospray setup: 1. The LC column; 2. Alligator clip connected to a conductive true zero dead volume tee (Waters p/n 700002843, fittings 700002842); 3. Pre-cut uncoated emitter. Emitters last for about a month.

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Yishai Levin

@YishaiLevin

2 years

Started our annual advanced course in proteomics data analysis. Starting with de novo sequencing gets everyone into business 💪

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Yishai Levin

@YishaiLevin

3 years

Yesterday the students didn’t know what an annotated ms2 spectrum looks like. Today they do 😎 and realize why we need to search against the right db 😉

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Yishai Levin

@YishaiLevin

6 years

Three years of work summarized in 8 pages...

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Yishai Levin

@YishaiLevin

4 years

How romantic

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Yishai Levin

@YishaiLevin

15 days

More of #WatersCorp Andrew. It so fun to watch him work 😎

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Yishai Levin

@YishaiLevin

3 years

How is it that well educated, rational scientists become so superstitious as soon as they approach a mass spectrometer?

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Yishai Levin

@YishaiLevin

2 years

When you give #MSFragger resources its on 🔥 fire 🔥 !!! I went to get a cup of coffee and it was done with an HLA dataset. Wow!

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Yishai Levin

@YishaiLevin

2 years

We have a turbo pump on a QE+ that has been working for 65,400hrs. That's about 7.5 years. Pretty cool

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Yishai Levin

@YishaiLevin

2 years

We started a very long experiment today. First of its kind. Had to post the Hamsa on the MS #TeamGlyco #TeamMassSpec

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Yishai Levin

@YishaiLevin

1 year

@ImtiazMadmood @EllaTravelsLove

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Yishai Levin

@YishaiLevin

2 months

tims separated glycopeptides. So exciting 🤩! Mouse brain glycoproteomics on the #timsTOF Pro #glycotime

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Yishai Levin

@YishaiLevin

5 years

What did you do to the QE?!

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Yishai Levin

@YishaiLevin

2 years

PhD position available. Do you like proteins? Do you like sugar? The Joseph Sagol Neuroscience Center (JSNC) (Israel) is recruiting an outstanding Ph.D. student to investigate the role of the glycoproteome (using mass spec) on brain function (using MRI and PET-CT)

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Yishai Levin

@YishaiLevin

9 months

Cheap labor for the day. Exporting annotated MS/MS spectra 😉 #glycotime

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Yishai Levin

@YishaiLevin

12 days

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Yishai Levin

@YishaiLevin

3 months

I've been using/servicing mass specs for over 20 years now (yikes 😬). Once in a long while you get to use one that is truly transformative. The #bruker timsTOF Ultra is one like that. The sensitivity is just phenomenal. (no stock or business relations to Bruker)

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Yishai Levin

@YishaiLevin

3 years

Anyone interested in playing the numbers game? 0.5ng HeLa on column, DDA: Exploris+FAIMS (trap+analytical): 406 proteins, 1155 peptides TIMS-ToF Pro (analytical only): 512 proteins, 1799 peptides Processed with MSFragger

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Yishai Levin

@YishaiLevin

3 years

The CDC just announced you can start your run and not worry about a thing #TeamMassSpec

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Yishai Levin

@YishaiLevin

3 years

Our Timmy Tof is here!

GINCPM Protein Profiling (proteomics)

@GINCPM_PP

3 years

TIMS-Tof Pro unboxed today. Super excited 🤩

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Yishai Levin

@YishaiLevin

10 months

🎃

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Yishai Levin

@YishaiLevin

4 months

Starting the loooong journey to #asms2024 I’ll be at WP320 if you’re interested in glycoproteomics or just want to say hi 🙂

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Yishai Levin

@YishaiLevin

2 years

One of the coolest collaborations we had so far 🎉💪

Aaron Javitt

@AaronJavitt

2 years

Over half of the peptides in the #immunopeptidome are still unidentified! Check out our new paper in @NatureBiotech where we develop PROMISE to identify modified HLA peptides and illuminate🔦 MS dark matter, revealing new classes of cancer antigens. 🧵1/7

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Yishai Levin

@YishaiLevin

5 years

LoL: explained the LC is connected online to the MS and was asked: via the internet?

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Yishai Levin

@YishaiLevin

2 years

$10k to upgrade to PD 3.0 with Chimerys for 1 year? 😂

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Yishai Levin

@YishaiLevin

10 months

#gretasupportsISIS Greta, if a deadly cruel terror organization would have invaded your home, kill your parents, kidnap your sister and burn your house at a massive scale, you’d expect your government to eliminate that threat. That’s what’s happening in Gaza.

Ella Travels (Ella Kenan)

@EllaTravelsLove

10 months

@GretaThunberg Greta why are you lying? Why did the Hamas start a war? why rape girls and women? why massacre, slaughter and loot and then cry that they're losing? Are you a political activist or a climate activist? #gretasupportsISIS

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Yishai Levin

@YishaiLevin

11 months

@EllaTravelsLove אלה, אין לך מה להתאמץ בלתייג את MIT. זה לא עובד ככה באקדמיה. הדרך הטובה להילחם באקדמיה זה דרך התורמים וגופי המימון. לבדוק מי התורמים הפרטיים של המוסד, ולידע אותם.

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Yishai Levin

@YishaiLevin

3 years

We are looking to purchase the TIMS-ToF SCP and already have the Pro. Does anyone have a 1:1 comparison of the two instruments that is willing to share? Our local rep is unable to provide this (which is very strange to me) @BrukerMassSpec

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Yishai Levin

@YishaiLevin

4 years

One of those amazing moments when the proteomics data shows something completely new about a very important protein. The kind that gives you “goose bumps”

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Yishai Levin

@YishaiLevin

2 years

There’s pride in our house

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Yishai Levin

@YishaiLevin

8 months

@DoctorranaAyaz1 @ShaykhSulaiman

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Yishai Levin

@YishaiLevin

3 months

#automation #proteomics

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Yishai Levin

@YishaiLevin

3 years

Years ago: first installation of a QE: what? You’re relying on fully automated optimization and calibration 😱? Today: first installation of the TIMS ToF: the optimization and calibration is not automated 😱?

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Yishai Levin

@YishaiLevin

3 years

Yes I know, proteomics is not just about IDs and bla, bla, bla. Still, its an important factor. Is anyone else getting less IDs with FAIMS compared to without it? This is what I got from the Pierce HeLa sample. Any thoughts appreciated.

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Yishai Levin

@YishaiLevin

2 years

Me, when the LC breaks down mid run…

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Yishai Levin

@YishaiLevin

16 days

The setup is so easy. It tells you exactly which consumables you need and how many for a given protocol. Tells you which blocks you need and how many. It has sensors and a camera so it checks you set it up properly. Absolutely human/idiot proof!

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Yishai Levin

@YishaiLevin

4 years

😎

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Yishai Levin

@YishaiLevin

1 year

@EllaTravelsLove Al Jazeera footage of the misfired Islamic Jeehad rocket. Thanks to @AbuAliEnglishB1 for the scoop

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Yishai Levin

@YishaiLevin

2 years

The @YMerbl and us are recruiting a post-doc to develop cutting-edge proteomic approaches including mapping the degradation landscape and single cell proteomics. If you’re interested, let me know which poster/presentation I should check out. #ASMS2022 #TeamMassSoec

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Yishai Levin

@YishaiLevin

2 years

Outside our lab

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Yishai Levin

@YishaiLevin

8 months

@Malcolm_XY_ @ShaykhSulaiman

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Yishai Levin

@YishaiLevin

5 years

1,511 peptides from single K562 cells, label free. Not bad for a start

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Yishai Levin

@YishaiLevin

2 years

7,700 proteins quantified in mouse brain (frontal cortex)! (TIMS-ToF Pro, DIA-PASEF, 80total run time, Spectronaut 17)

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Yishai Levin

@YishaiLevin

2 years

#TeamMassSpec So let me get this straight, y’all moved to Mastodon but each to a different server?!

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Yishai Levin

@YishaiLevin

3 years

Seeing actual peptide peaks from single cells on our mass spec is thrilling!

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Yishai Levin

@YishaiLevin

1 year

Lumos: has an IRM problem. Exploris: vacuum pump just died. HFX: recovering from a vacuum problem. TTP: clogged column and collision cell needs replacement. #TeamMassSpec , can I switch to #TeamGenomics ?

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Yishai Levin

@YishaiLevin

3 years

Proteomics people, I need help troubleshooting a set of single cell runs. This is a SCOPEMS experiment, FACS sorting into 384 plate, digestion in the plate, TMT10, carrier of 100cells, controls and 6 single cells per TMT batch. I ran them on the Exploris 480+FAIMS (-45,-65)

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Yishai Levin

@YishaiLevin

4 years

After seeing how the Biden admin. treats Saudi Arabia regarding assassination of Jamal Khashqji, its worth asking how Biden will treat the case ofIranian journalist executed by Iran on 12.12.20 in both cases the regimes kidnapped journalists and executed them. double standards?

Abu Ali

@Abualiexpress

4 years

אחרי שראינו איך נוהג ממשל ביידן בסעודיה על רקע רצח העיתונאי הסעודי ג'מאל ח'אשקג'י הגיע הזמן לשאול כיצד ינהג ממשל ביידן בסוגיית רוח אללה זם - העיתונאי האיראני שהוצא להורג באיראן ב 12.12.20 בשני המקרים המשטרים חטפו עיתונאים מבני עמם והוציאו אותם להורג. מוסר כפול? #روح_الله_زم

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Yishai Levin

@YishaiLevin

2 months

@ProteomicsNews 😧 “you pay with peanuts, you get the monkeys”

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Yishai Levin

@YishaiLevin

1 year

Ever wonder what goes on inside the M Class during an injection? Here you go.

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Yishai Levin

@YishaiLevin

11 months

@InfjHakan @bjork

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Yishai Levin

@YishaiLevin

8 months

@AdameMedia @ShaykhSulaiman

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Yishai Levin

@YishaiLevin

2 years

A question for TIMS-ToF users on #TeamMassSpec , do you run the 'wellness' test with GluFib+tune mix? Is this test really sensitive enough to show a drop in MS sensitivity?

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Yishai Levin

@YishaiLevin

5 years

1,245 proteins (min 2 peptides) from 500 clinical cells! Using @ProtifiLlc s-trap

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