Erin Humphries

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3) Storage at RT speeds everything up.

At that point, I'd question whether the tissue represents the original biology. You will recover some proteins, but will they be meaningful? I'd guess a week vs decade would give very different results but I have no data to support that.

People have tried and it usually doesn’t go well. The big issues with liquid formalin storage are:

1) Formaldehyde slowly oxidises to formic acid, which drops the pH.

2) Acid environment accelerates peptide bond hydrolysis (formalin is usually 10% NBF, 90% PBS), with D and N AAs hit hardest.

Peptide-RNA photo-crosslinks with tunable RNA chain map protein-RNA interfaces Photo-crosslinking mass spectrometry enables the identification of protein-RNA interactions in living cells, pinpointing interaction interfaces at single-amino acid resolution. However, current isolat...

New preprint: We isolate peptide–RNA photo-crosslinks with tunable RNA chains from living cells for mass spec. This maps over 4,700 crosslinking sites across 744 proteins and offers the first glimpse into the RNA sequences in crosslinks by MS. Read here: doi.org/10.1101/2025...

Absolutely! The idea of stepping away from MS crosses my mind almost every day now that I’m teaching full time. It's incredibly rewarding to have students who are excited to see you. After a tough PhD, teaching has reminded me just how much joy I can find in my work

Casual Teacher - Science (Expressions of Interest) Job in Campbelltown, Sydney NSW - SEEK Expressions of Interest for Casual Teacher in Science at Western Sydney University, The College.

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Next two subjects are teaching human anatomy and physiology

DeCrypt KRAS signaling using all the common inhbiitors! This one had so many steps to get behind the paywall of that I thought I was trying to find a certain global leader's name thousands of ti...

They DecryptED all the KRAS small molecule inhibitors! Including cysteine enrichments! proteomicsnews.blogspot.com/2025/08/decr...

Thanks @tum.de for highlighting Jakob's recent paper in @cellpress.bsky.social in the university news:
www.ls.tum.de/en/ls/public...

If you haven't had the chance to read the publication, you can check it out here: doi.org/10.1016/j.ce...

The human proteome with direct physical access to DNA Zero-distance photo-crosslinking reveals direct protein-DNA interactions in living cells, enabling quantitative analysis of the DNA-interacting proteome on a timescale of minutes with single-amino-aci...

🚨Our new paper is online🚨
We use zero-distance⚡photo-crosslinking⚡to reveal direct protein-DNA interactions in living cells, enabling quantitative analysis of the DNA-interacting proteome on a timescale of minutes. #DNA #Chromatin #Proteomics
www.cell.com/cell/fulltex...

Join us for a fun-filled evening at Miss Chief Bar & Eatery for the FeMS Meet-Up at #AUS-oMicS! www.eventbrite.com.au/e/fems-meet-...

sev on X: "Paper alert! We report the first inhibitors for nucleoside kinases NME1-4 and for the nucleotide-binding protein HINT1. On top, we provide probes for MBLAC2, an off-target of every second (!) hydroxamic acid-based HDAC inhibitor! https://t.co/uuRCO78xFz 👇🧵" / X Paper alert! We report the first inhibitors for nucleoside kinases NME1-4 and for the nucleotide-binding protein HINT1. On top, we provide probes for MBLAC2, an off-target of every second (!) hydroxamic acid-based HDAC inhibitor! https://t.co/uuRCO78xFz 👇🧵

New paper!
Our chemoproteomic survey of phenylhydroxamic acids identifies the first drug-like inhibitors for nucleotide-binding protein HINT1 and nucleoside kinases NME1-4. On top, we found probes for the HDAC inhibitor off-target MBLAC2. Check out the open-access article! tinyurl.com/yh92vh6b

I am thrilled to share after years of work/procrastination that the MassQL manuscript is finally published in @natmethods.nature.com - "A universal language for finding mass spectrometry data patterns". This was an team effort from all co-authors that helped shape MassQL and how it could be used.

With the intense pressure to publish and the rise of AI, I try to replicate previous findings before embarking on a new project. I'd rather kill it early than spend months uncovering why it was destined to fail. It's a significant drain on resources and my time but it's the reality we face.

As a nerdy mass spectrometrist, what you would want to do all day is to design proteomics projects, dive into the data, draw conclusions, and solve the puzzle.. Sometimes, the job you are in may not be ideal to continue doing that.. In that case either you could compromise and stay on or leave.. 1/6

The editor should have at least moderated the comments. I'll never forget the demeaning and intimidating feedback from this CEO. It shattered the little confidence I had, and their refusal to remain impartial has cost them a customer.

I would withdraw the manuscript and go elsewhere. I have done this after receiving an unprofessional non blind review where I was sworn at, referred to as a slave and told of revisions I could do from bed. The editor failed to protect me, so I chose not to let the journal benefit from my work.

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These adorable puppy eyes are irresistible and Ruby loves people food!

Because we need to share the joy of pancakes with our cherished pets 😁

I support a healthy and competitive scientific environment so I would be willing to try it. I haven't tried the 32-plex yet as I have concerns about deuterium.

From Parasites to Proteomics: how Dr. Samantha Emery-Corbin is Bridging Biology and Big Data - IonOpticks Interview with Dr Samantha Emery-Corbin, a research fellow at the Monash Proteomics and Metabolomics Platform in Melbourne.

“Habit becomes the enemy of innovation. And there’s a lot of space to innovate.”

Dr. Samantha Emery-Corbin, research fellow at the Monash Proteomics and Metabolomics Platform, discusses the art of scientific storytelling and potentially transformative sepsis treatment research.

bit.ly/41EGEXa

Many non-US attendees I've spoken to are exploring other conferences this year. Those with funding are thinking about EuPA/ HUPO. I look forward to attending ASMS again in the future.

There is still time to apply for the Q2 empowerment award! 🏆

This project builds on previous findings, broadens the scope of comparison, and opens up new avenues for future research. The road to publication had its challenges, but I'm happy to have it out there and hope it sparks some interesting discussions moving forward.

Another chapter of my PhD thesis has been published! We observed a strong overlap and correlation between #FFPE (formalin-fixed paraffin-embedded) and FF (fresh-frozen) tissues in #proteomics and #phosphoproteomics.
pubs.acs.org/doi/10.1021/...

Very much so. We have another FFPE paper coming out very soon 😊

The effect of storage time and temperature on the proteomic analysis of FFPE tissue sections - Clinical Proteomics Formalin-fixed paraffin-embedded (FFPE) tissues present an important resource for cancer proteomics. They are more readily available than fresh frozen (FF) tissues and can be stored at ambient tempera...

Congratulations to my colleagues Jennifer Koh and Erin Sykes on their latest FFPE paper investigating the stability of tissue sections stored at room temperature versus -80°C over 48 weeks 🎉

Come and celebrate our 150th year. Explore our events, our history, and the foundation we’ve built for the future.

Opportunity for lecturer in medicinal chemistry at University of Adelaide (Australia) eligibility: women & non-binary candidates | ref: 515560 | closing: 11-Feb-2025 #MedChem #ChemJobs #OzChem #chemsky 🧪
careers.adelaide.edu.au/cw/en/job/51...

Formaldehyde Fixation Helps Preserve the Proteome State during Single-Cell Proteomics Sample Processing and Analysis Mass spectrometry-based single-cell proteomics (SCP) is gaining momentum but remains limited to a few laboratories due to the high costs and specialized expertise required. The ability to send samples to specialized core facilities would benefit nonspecialist laboratories and popularize SCP for biological applications. However, no methods have been tested in SCP to “freeze” the proteome state while maintaining cell integrity for transfer between laboratories or prolonged sorting using fluorescence-activated cell sorting (FACS). This study evaluates whether short-term formaldehyde (FA) fixation can maintain the cell states. We demonstrate that short-term FA fixation does not substantially affect protein recovery, even without heating and strong detergents, and maintains analytical depth compared with classical workflows. Fixation also preserves drug-induced specific perturbations of the protein abundance during cell sorting and sample preparation for SCP analysis. Our findings suggest that FA fixation can facilitate SCP by enabling sample shipping and prolonged sorting, potentially democratizing access to SCP technology and expanding its application in biological research, thereby accelerating discoveries in cell biology and personalized medicine.

🚨 More research on single-cell proteomics!
We evaluated how formaldehyde-based fixation preserve proteome state, drug response and cell integrity. Ultimately, cell fixation can facilitate access to #singlecell by enabeling sample shiping and prolonged sorting 📦

pubs.acs.org/doi/10.1021/...

Calling all #TeamMassSpec experts. I’m planning to revisit the classic SCX fractionation protocol but ran into a challenge - I can’t find a vendor for syringes with metal springs to make stage tips. I’d be so grateful for any suggestions or advice you might have 🙏
*attaching picture as an example