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alexhgo.bsky.social
Alexander Hogrebe, PhD
@alexhgo.bsky.social
950 followers 390 following 120 posts
Data Scientist at MSAID 🪄 Phospho-proteomics and MS tech 🔬 He/him 🏳️‍🌈 Tooting privately on Mastodon @AlexHgO@fediscience.org 🐘
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alexhgo.bsky.social
Alexander Hogrebe, PhD @alexhgo.bsky.social · Apr 22
I'm truly excited to share MSAID's new publication in @naturemethods.bsky.social 🎉

We compare #CHIMERYS against state-of-the-art search engines for DDA/PRM/DIA, and even push into the realm of direct infusion #proteomics. Huge thanks to the other co-first authors and everyone involved #TeamMassSpec
msaid-de.bsky.social MSAID @msaid-de.bsky.social · Apr 22
🚨 New in @naturemethods.bsky.social
#CHIMERYS has already transformed #proteomics since 2022, powering DDA, DIA & PRM analysis in a single workflow.
Wanna know how CHIMERYS works? 👉 www.nature.com/articles/s41...
#TeamMassSpec #NatureMethods #ASMS2025 🧪🔬
1/7
Reposted by Alexander Hogrebe, PhD
flobayer.bsky.social
Very happy to see that dose-response curves are now super easy to access for everyone in proteomicsDB. Just a few clicks and you can see at which concentrations your favorite drug engages protein target(s), tinkers with signaling pathways, and inhibits cell growth. Read more: doi.org/10.1093/nar/...
Mapping drug mechanisms with ProteomicsDB: unified omics and cell sensitivity data at scale
Abstract. Proteomic and phenotypic cell sensitivity datasets are increasingly important for understanding chemoproteomics and the underlying drug mechanism
doi.org
November 18, 2025 at 8:35 PM
Reposted by Alexander Hogrebe, PhD
acollierastro.bsky.social
ranking pbs kids shows for science
YouTube video by Angela Collier
www.youtube.com
November 18, 2025 at 8:43 PM
Reposted by Alexander Hogrebe, PhD
s4f-bebb.bsky.social
Umbau statt Neubau, das spart erhebliche CO2-Emissionen. Zu diesem Thema gibt es auch eine europäische Petition von @architects4future.bsky.social. Bitte gerne hier unterschreiben: eci.ec.europa.eu/052/public/#...
November 19, 2025 at 11:54 AM
Reposted by Alexander Hogrebe, PhD
ypic.bsky.social
The deadline is fast approaching!

Write down your ideas and submit an application before the 30th of November. For more information, check out our website: eupa.org/ypic/ypic-st...
🚀

#SPF #YPIC #Funding #ResearchOpportunity #Proteomics
November 18, 2025 at 9:14 AM
Reposted by Alexander Hogrebe, PhD
s4f-bebb.bsky.social
10 Jahre nach dem Pariser Abkommen schreitet die #Klimakrise immer schneller voran. Auf der Konferenz #COP30 in Belem muss sich Deutschland klar zum Pariser Abkommen bekennen und eine internationale Klimafinanzierung unterstützen. Kommt zum #Klimastreik:

👉 14.11.2025, 16:00, Pariser Platz, #Berlin
Auch nach 30 Jahren Klimakonferenzen und 10 Jahren Pariser Abkommen schreitet die Klimakrise immer schneller voran. Auf der Konferenz COP30 in Belem muss sich Deutschland klar zum Pariser Abkommen bekennen und eine faire internationale Klimafinanzierung unterstützen. Und wir brauchen endlich einen konsequenten Ausstieg aus Öl, Kohle und Gas! Dafür gehen wir zusammen mit Fridays for Future auf die Straße. 👉 Fr. 14.11.2025, 16:00 Pariser Platz, Berlin
November 6, 2025 at 2:40 PM
Reposted by Alexander Hogrebe, PhD
dgkeyes.com
Post is up! #rstats

rfortherestofus.com/2025/11/quar...
November 12, 2025 at 11:31 PM
Reposted by Alexander Hogrebe, PhD
hansonmark.bsky.social
We wrote the Strain on scientific publishing to highlight the problems of time & trust. With a fantastic group of co-authors, we present The Drain of Scientific Publishing:

a 🧵 1/n

Drain: arxiv.org/abs/2511.04820
Strain: direct.mit.edu/qss/article/...
Oligopoly: direct.mit.edu/qss/article/...
A table showing profit margins of major publishers. A snippet of text related to this table is below. 1. The four-fold drain 1.1 Money Currently, academic publishing is dominated by profit-oriented, multinational companies for whom scientific knowledge is a commodity to be sold back to the academic community who created it. The dominant four are Elsevier, Springer Nature, Wiley and Taylor & Francis, which collectively generated over US$7.1 billion in revenue from journal publishing in 2024 alone, and over US$12 billion in profits between 2019 and 2024 (Table 1A). Their profit margins have always been over 30% in the last five years, and for the largest publisher (Elsevier) always over 37%. Against many comparators, across many sectors, scientific publishing is one of the most consistently profitable industries (Table S1). These financial arrangements make a substantial difference to science budgets. In 2024, 46% of Elsevier revenues and 53% of Taylor & Francis revenues were generated in North America, meaning that North American researchers were charged over US$2.27 billion by just two for-profit publishers. The Canadian research councils and the US National Science Foundation were allocated US$9.3 billion in that year. A figure detailing the drain on researcher time. 1. The four-fold drain 1.2 Time The number of papers published each year is growing faster than the scientific workforce, with the number of papers per researcher almost doubling between 1996 and 2022 (Figure 1A). This reflects the fact that publishers’ commercial desire to publish (sell) more material has aligned well with the competitive prestige culture in which publications help secure jobs, grants, promotions, and awards. To the extent that this growth is driven by a pressure for profit, rather than scholarly imperatives, it distorts the way researchers spend their time. The publishing system depends on unpaid reviewer labour, estimated to be over 130 million unpaid hours annually in 2020 alone (9). Researchers have complained about the demands of peer-review for decades, but the scale of the problem is now worse, with editors reporting widespread difficulties recruiting reviewers. The growth in publications involves not only the authors’ time, but that of academic editors and reviewers who are dealing with so many review demands. Even more seriously, the imperative to produce ever more articles reshapes the nature of scientific inquiry. Evidence across multiple fields shows that more papers result in ‘ossification’, not new ideas (10). It may seem paradoxical that more papers can slow progress until one considers how it affects researchers’ time. While rewards remain tied to volume, prestige, and impact of publications, researchers will be nudged away from riskier, local, interdisciplinary, and long-term work. The result is a treadmill of constant activity with limited progress whereas core scholarly practices – such as reading, reflecting and engaging with others’ contributions – is de-prioritized. What looks like productivity often masks intellectual exhaustion built on a demoralizing, narrowing scientific vision. A table of profit margins across industries. The section of text related to this table is below: 1. The four-fold drain 1.1 Money Currently, academic publishing is dominated by profit-oriented, multinational companies for whom scientific knowledge is a commodity to be sold back to the academic community who created it. The dominant four are Elsevier, Springer Nature, Wiley and Taylor & Francis, which collectively generated over US$7.1 billion in revenue from journal publishing in 2024 alone, and over US$12 billion in profits between 2019 and 2024 (Table 1A). Their profit margins have always been over 30% in the last five years, and for the largest publisher (Elsevier) always over 37%. Against many comparators, across many sectors, scientific publishing is one of the most consistently profitable industries (Table S1). These financial arrangements make a substantial difference to science budgets. In 2024, 46% of Elsevier revenues and 53% of Taylor & Francis revenues were generated in North America, meaning that North American researchers were charged over US$2.27 billion by just two for-profit publishers. The Canadian research councils and the US National Science Foundation were allocated US$9.3 billion in that year. The costs of inaction are plain: wasted public funds, lost researcher time, compromised scientific integrity and eroded public trust. Today, the system rewards commercial publishers first, and science second. Without bold action from the funders we risk continuing to pour resources into a system that prioritizes profit over the advancement of scientific knowledge.
November 11, 2025 at 11:52 AM
Reposted by Alexander Hogrebe, PhD
clauswilke.com
I see @hadley.nz write "I was lucky to have deep conversations about relational database design and Codd’s third normal form much earlier in life than usual" and wonder at what age most people have these conversation. I'm in my fifties and haven't had them yet.
hadley.github.io/25-tidyverse...
A personal history of the tidyverse
hadley.github.io
November 12, 2025 at 2:23 AM
Reposted by Alexander Hogrebe, PhD
s4f-bebb.bsky.social
Seit fünf Jahren veröffentlicht @klimafakten.bsky.social gemeinsam mit anderen Institutionen eine regelmäßig aktualisierte Zusammenfassung zum Stand der #Klimaforschung. Eine neue Ausgabe ist jetzt erschienen unter: www.klimafakten.de/kommunikatio...
Cover: "Klimafaktenpapier. Basisfakten zum Klimawandel, die in der Wissenschaft unumstritten sind. November 2025"
November 11, 2025 at 7:55 AM
alexhgo.bsky.social
Are you at #HUPO2025? Come say hi at my poster 073 this afternoon, where I present recent developments on our CHIMERYS Platform #proteomics
msaid-de.bsky.social MSAID @msaid-de.bsky.social · 11d
Thrilled to be attending #HUPO2025 in Toronto! Visit us at Booth #403, where we’ll be presenting the newest updates to our proteomics platform and unveiling CHIMERYS 5. We can’t wait to engage with all of you. #Proteomics #TeamMassSpec
November 10, 2025 at 1:27 PM
Reposted by Alexander Hogrebe, PhD
bioconductor.bsky.social
🎓 Upcoming Online Course: R/Bioconductor for Mass Spectrometry & Proteomics

📅 November 17–19, 2025

Join Dr Laurent Gatto for a hands-on course on mass spectrometry–based proteomics analysis using R and Bioconductor.

👉 Register & learn more: www.physalia-courses.org/courses-work...
R/Bioconductor for Mass Spectrometry and Proteomics
Dates 17-19 November 2025 To foster international participation, this course will be held online
www.physalia-courses.org
November 6, 2025 at 10:00 AM
Reposted by Alexander Hogrebe, PhD
erictopol.bsky.social
Why fundamental research is fundamental to progress, seeding major breakthroughs
Editorial @nature.com this week
And 7 basic science discoveries that changed the world
nature.com/articles/d41...
nature.com/articles/d41...
October 29, 2025 at 12:58 PM
Reposted by Alexander Hogrebe, PhD
needhibhalla.bsky.social
@joann-trejo.bsky.social, @marymunson4.bsky.social and I have a commentary in @natcellbio.nature.com on recent attacks on DEI in biomedical research: "If scientific research, especially biomedical research, is meant to serve everyone, then it requires that everyone has an opportunity to participate"
Scaling back DEI programmes and the loss of scientific talent
Nature Cell Biology - Programmes that support diversity, equity and inclusion (DEI) in science are under attack in the USA. Data indicate that diversity in the scientific workforce increases...
www.nature.com
October 23, 2025 at 4:36 PM
alexhgo.bsky.social
Proud to be one of the supporting scientists calling the #EU and heads of state to commit to their stated goals of #climate action - to boost our economies, secure our independence and protect lives
guypeer.bsky.social Guy Pe'er @guypeer.bsky.social · Oct 20
Open Letter by scientists to the Council:
"Climate Neutrality Is Europe’s Greatest Economic Opportunity”.
Ahead of the European Council meeting on 23.10.2025,
2,178 scientists urge EU Heads of States & Governments to take ambitious decisions for the 2040 targets.
zenodo.org/records/1739...
October 22, 2025 at 10:08 AM
alexhgo.bsky.social
A great easy on the differences of LIES, BULLSHIT and WANK (= making strong claims that may not be challenged for ensuring personal moral superiority or fighting fear)
October 19, 2025 at 7:36 AM
Reposted by Alexander Hogrebe, PhD
eff.org
Happy Amazon Prime Day! Amazon collects mountains of data about how you use the service, but there is a setting you can change to make it harder for the company to use that data to sell you more things. #OptOutOctober www.eff.org/deeplinks/2...
October 7, 2025 at 4:39 PM
Reposted by Alexander Hogrebe, PhD
davidho.bsky.social
Carbon offsets, though widely used, often fail to deliver real emission cuts. They undermine global climate goals by enabling polluters to avoid reducing fossil-fuel use.
Carbon credits are failing to help with climate change — here’s why
The idea that emissions can be offset through projects that claim to avoid releases or to remove carbon dioxide from the atmosphere is fatally flawed.
www.nature.com
October 17, 2025 at 8:26 AM
alexhgo.bsky.social
Super spannende erste Folge - ich freue mich auf das, was da noch kommt
neudenken-podcast.bsky.social NEU DENKEN mit Maja Göpel @neudenken-podcast.bsky.social · Oct 17
"Wir starren auf ein Tacho und fragen und fragen nicht mehr, wo wir eigentlich wirklich hin wollen oder ob wir noch genug im Tank haben."

@beyond-ideology.bsky.social im Gespräch mit Wirtschaftswissenschaftler Achim Truger über die Wachstumsorientierung am BIP.
October 17, 2025 at 10:04 AM
Reposted by Alexander Hogrebe, PhD
eubic-ms.org
Registration is now open for the EuBIC-MS Winter School 2026!

Join us in Harrachov, Czechia for a week of keynotes, workshops, and networking on computational MS.

Info and registration: eubic-ms.org/events/2026-...

#EuBIC2026 #MassSpectrometry #MassSpec #Bioinformatics #Proteomics #Metabolomics
Register now! Five days of keynotes, workshops, flash talks, posters, and more on computational mass spectrometry Confirmed keynote speakers Armin Soleymaniniya · Arthur Declercq · Claire Koenig · Hannah Boekweg · Jonas Scheid · Karel Berka · Matthias Anagho-Mattanovich · Roman Bushuiev · Valdemaras Petrosius 📆 19-23 January 2026 📍 Harrachov, Czechia
October 16, 2025 at 9:36 AM
Reposted by Alexander Hogrebe, PhD
kronigert.bsky.social
Struggling to compare Bruker timsTOF methods or extract window schemes from raw .d files? I developed a free desktop tool to solve this: timsCompare! 🚀

It automates the manual work of extracting method parameters, presenting them in a structured and comparable view.

(A thread 🧵)
October 15, 2025 at 11:01 AM
Reposted by Alexander Hogrebe, PhD
eff.org
There's a more secure alternative to texting via your phone's native messaging app. Signal is a free app that employs end-to-end encryption and we have a step-by-step guide to help you learn how to use it. ssd.eff.org/module/how-...
How to: Use Signal
Download location: Google Play Store, Apple App Store System requirements: Android 5 or later, iOS 13 or later Version used in this guide: Android: 7.38.6 iPhone: 7.5.1 License: GPLv3 Level: Beginner Time required: 15-20 minutes Other reading: https://signal.org/ https://support.signal.org/ https://signal.org/blog/ Table of Contents Download and Install Signal Register and Verify...
ssd.eff.org
October 14, 2025 at 8:34 PM
Reposted by Alexander Hogrebe, PhD
beyond-ideology.bsky.social
www.linkedin.com/posts/neu-de...
NEU DENKEN - Der Podcast mit Maja Göpel von Mission Wertvoll | NEU DENKEN Podcast | 26 comments
Populismus ist anstrengend! Schwarz-weiß, du bist schlecht, ich bin besser, laut, lauter, wer schreit am lautesten? Genau das müssen wir aufbrechen. Brücken bauen, differenzieren, die Materie verstehe...
www.linkedin.com
October 15, 2025 at 6:41 AM
Reposted by Alexander Hogrebe, PhD
fisherke.bsky.social
-80 freezer at -20
unenthusiast.com Marjorie James Keenan @unenthusiast.com · Oct 12
In honour of spooky month, share a 4 word horror story that only someone in your profession would understand.

rm -rf ~/
hammancheez.bsky.social hammancheez @hammancheez.bsky.social · Oct 12
"The chancellor approved it"
October 12, 2025 at 9:56 PM
Reposted by Alexander Hogrebe, PhD
realscientists.de
Thema heute ist Wissenschaft als Beruf. Ein großes Thema auf Bsky und in der Wissenschaft ist das unsägliche #WissZVG und die Probleme, die für #IchbinHanna und #IchbinReyhan daraus entstehen. Dazu haben @amreibahr.bsky.social, @drkeichhorn.bsky.social, @kubon.bsky.social uva geschrieben
October 10, 2025 at 7:42 AM
Reposted by Alexander Hogrebe, PhD
s4f-bebb.bsky.social
#Berlin spart sich kaputt – auch beim Klima. Die geplanten Kürzungen im Haushalt bedrohen zentrale Programme wie das Berliner Energie- und Klimaschutzprogramm. Heute wird ab 14:00 gegen die Kürzungspläne demonstriert. Der #Klimablock trifft sich beim Heißluftballon der “Welt”.
ACHTUNG! #Unkürzbar Demo hat einen neuen Startpunkt. 10.10. 14:00 Zimmerstraße
October 10, 2025 at 6:57 AM