Sinan U. Umu (@sinanugur) header
Sinan U. Umu (@sinanugur) profile picture

Sinan U. Umu

@sinanugur

Physicist, I do (Computational Biology, Bioinformatics, Biostatistics) Researcher @ Department of Pathology (UiO) Available on Bioconda: MirMachine, cellsnake

 Oslo, Norway
sinanugur.github.io/
Joined April 2009
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Photo by Sinan U. Umu (@sinanugur)Photo by Sinan U. Umu (@sinanugur)Photo by Sinan U. Umu (@sinanugur)Photo by Sinan U. Umu (@sinanugur)Photo by Sinan U. Umu (@sinanugur)Photo by Sinan U. Umu (@sinanugur)Photo by Sinan U. Umu (@sinanugur)Photo by Sinan U. Umu (@sinanugur)
Easydecon: A Lightweight Workflow for Cell Type Analysis in High-Definition Spatial Transcriptomics Assays biorxiv.org/content/10.1101/…
Easydecon: A Lightweight Workflow for Cell Type Analysis in High-Definition Spatial Transcriptomics...

Easydecon: A Lightweight Workflow for Cell Type Analysis in High-Definition Spatial Transcriptomics...

Spatial transcriptomics enables mapping gene expression within tissue structures. The VisiumHD platform by 10x Genomics advances this further, offering near-single-cell resolution across tissue...

biorxiv.org
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A gene may template many dozens of products. Its products can have diverse, even opposing functions. Ascribing the functions of the products to the gene is a simplistic approximation that has outlived its usefulness.
Image from Prof. Nikolai Slavov (@slavov_n)
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Cool abstract
Cell (@CellCellPress) profile pictureCell@CellCellPress27 Jul 2025
In the latest issue! Neuropeptides specify and reprogram division of labor in the leafcutter ant Atta cephalotes dlvr.it/TM8GVY
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Supplementary figure 16
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Sinan U. Umu retweeted
Oded Rechavi (@OdedRechavi) profile picture
Oded Rechavi
@OdedRechavi7 Dec 2024
Abstract Vs. Results
Image from Oded Rechavi (@OdedRechavi)
Image from Oded Rechavi (@OdedRechavi)
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"Activation of NF-κB pathway in DCs via TLR4 signaling upregulates pro-inflammatory TNF-α, IL-6, and IL-1β, which enhances Th17 differentiation through IL-23R engagement while inflammasome activation drives IL-18 secretion and recruits neutrophils..."
Image from Jake Wintermute 🧬/acc (@SynBio1)
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No I do not want to fill out another doodle poll covering 20 days
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lcamtuf (@lcamtuf) profile picture
lcamtuf@lcamtuf21 Nov 2024
Life pro tip: you can draw any line you want through a scatter plot, they're not checking this
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Sinan U. Umu retweeted
goosewin (@Goosewin) profile picture
goosewin
@Goosewin12 Nov 2024
python ecosystem is a dumpster fire
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We thank to the reviewers for their useful comments.
Image from Sinan U. Umu (@sinanugur)
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There is a new #Snakemake tutorial that complements the general tutorial by specifically introducing how to use #Snakemake for plotting and interactive reporting, including how to combine #Snakemake with #Datavzrd: snakemake.readthedocs.io/en/…
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Welcome to bioinformatics.
Programmer Humor (@PR0GRAMMERHUM0R) profile pictureProgrammer Humor
@PR0GRAMMERHUM0R23 Oct 2024
thereIsNothingWeCanDo redd.it/1g9n624
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MicroRNAs are back.
The Nobel Prize (@NobelPrize) profile pictureThe Nobel Prize
@NobelPrize7 Oct 2024
BREAKING NEWS The 2024 #NobelPrize in Physiology or Medicine has been awarded to Victor Ambros and Gary Ruvkun for the discovery of microRNA and its role in post-transcriptional gene regulation.
Image from The Nobel Prize (@NobelPrize)
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Sinan U. Umu retweeted
Oded Rechavi (@OdedRechavi) profile picture
Oded Rechavi
@OdedRechavi3 Oct 2024
Connecting to a Microsoft Teams call
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The new version of @MirGeneDB 3.0 is out! Great to be part of this work. You access the preprint now and soon available on NAR.
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timeHasChanged reddit.com/r/programmerhumor…
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Concerning.
Elisabeth Bik (@MicrobiomDigest) profile pictureElisabeth Bik@MicrobiomDigest26 Aug 2024
AI can be used to make convincing looking fake data. There is no way we can distinguish real from fake anymore. It is safe to assume that genAI has already resulted in many fake papers. Scientific publishing is not prepared for this.
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Reading grant application reviewers comments:
Oded Rechavi (@OdedRechavi) profile pictureOded Rechavi
@OdedRechavi19 Jul 2024
We thank the reviewers for their helpful suggestion
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We thank the reviewers for their helpful suggestion
Image from Oded Rechavi (@OdedRechavi)
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tenOutOfTenDentistsRecommend reddit.com/r/programmerhumor…
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