Yasir Demirtaş
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yasirde.bsky.social
Yasir Demirtaş
@yasirde.bsky.social
110 followers 200 following 2 posts
Training computers to understand genes so I don’t have to. Big data, small p-values, and a stubborn belief that biology makes sense. Data science & ML for functional genomics.

Institute of Human Genetics, Bonn, Germany @Billmann Lab
previously @FZJ INM7
Posts Replies Media Videos
Reposted by Yasir Demirtaş
martinpacesa.bsky.social
I am super excited to announce that I will be starting my lab at the Department of Pharmacology of the University of Zurich in Switzerland next year!
July 25, 2025 at 7:48 AM
Reposted by Yasir Demirtaş
tommytang.bsky.social
chatomics! Bioinformatics is NOT Just Statistics! 🚨 The p-value is small in this example, but is it biologically meaningful?
December 11, 2024 at 2:15 PM
Reposted by Yasir Demirtaş
moritz-negwer.mstdn.science.ap.brid.gy
New deep-learning cell detection pipeline for light-sheet mouse brain image stacks, with an interesting cell-coordinate clustering statistics approach:

A deep learning pipeline for three-dimensional brain-wide mapping of local neuronal ensembles in teravoxel […]

[Original post on mstdn.science]
Fig. 1 a–c, Intact whole brains immunolabeled, cleared and imaged with LSFM were used as input to the ACE pipeline. a, Whole-brain LSFM data are passed to ACE’s segmentation module, consisting of ViT- and CNN-based DL models, to generate binary segmentation maps in addition to a voxel-wise uncertainty map for estimation of model confidence. b, The autofluorescence channel of data is passed to the registration module, consisting of MIRACL registration algorithms, to register to a template brain such as the Allen Mouse Brain Reference Atlas (ARA). High-resolution segmentation maps are then voxelized using a convolution filter and warped to the ARA (10 µm) using deformations obtained from registration. c, Voxelized and warped segmentation maps are passed to ACE’s statistics module. Group-wise heatmaps of neuronal density are obtained by subtracting the average of warped and voxelized segmentation maps in each group to identify neural activity hotspots. To identify significant localized group-wise differences in neuronal activity in an atlas-agnostic manner, a cluster-wise, threshold-free cluster enhancement permutation analysis (using group-wise ANOVA) is conducted. The resulting P value map represents clusters showing significant differences between groups. Correspondingly, ACE outputs a table summarizing these clusters, including their volumes and the portion of each brain region included in each cluster.
January 31, 2025 at 12:41 PM
Reposted by Yasir Demirtaş
valeriavitelli.bsky.social
JOBS ALERT! PhD position & 3-y postdoc position in statistics within my research group at @ocbe.bsky.social @uio.no
Both are linked to a project funded from the Research Council of Norway on Integrative Bayesian clustering for high-dim data in omics

Deadline: 13 June 2025

More info & links below!
May 27, 2025 at 8:00 PM
yasirde.bsky.social
Just got back from the 2nd Pertomics Retreat with my colleagues @shawangela.bsky.social and @thorohde.bsky.social — Great to reconnect with the Pertomics community, share work across different scales.

Special thanks to @manuelkaulich.bsky.social ’s fantastic team for organizing this great event.
May 9, 2025 at 6:17 AM
Reposted by Yasir Demirtaş
thorohde.bsky.social
I am excited to announce the publication of our paper in @molsystbiol.org!
I am incredibly grateful for this wonderful collaboration with the team of @manuelkaulich.bsky.social. A big thank you to @yasirde.bsky.social, @shawangela.bsky.social and to @maxbillmann.bsky.social!
doi.org/10.1038/s443...
BaCoN (Balanced Correlation Network) improves prediction of gene buffering | Molecular Systems Biology
imageimageFunctional buffering between pairs of genes can be predicted by correlating the knockout fitness effect of one with the expression of another gene across cell lines. BaCoN (Balanced Cor...
www.embopress.org
April 24, 2025 at 12:41 PM
Reposted by Yasir Demirtaş
evacschulte.bsky.social
Anyone interested in #lipids #genetics and #MentalHealth ? Then come join us in @UniBonn in Germany for a #postdoc that combines all of that in a cutting-edge and innovative way ! Application deadline is April 30th.
April 18, 2025 at 8:05 PM
yasirde.bsky.social
Just back from the CRISPR and Beyond — Loved being back in Cambridge with the CRISPR community.

It was great to see familiar faces from last year and catch up on the latest developments.(especially members of @manuelkaulich.bsky.social, @leopoldparts.bsky.social 's group).

#WellcomeGenomeCampus
April 7, 2025 at 11:17 PM
Reposted by Yasir Demirtaş
manuelkaulich.bsky.social
If a team wished to include combinatorial gene perturbation and bioinformatics in their program, please reach out.
cancerresearchuk.org Cancer Research UK @cancerresearchuk.org · Mar 5
Just announced! Seven new Cancer Grand Challenges – with awards of up to £20m – available for research teams around the world to tackle the biggest questions in cancer research.

Read more: cruk.ink/4ha3LgZ 1/2
Blue square graphic, with black and white text which reads, ‘Breaking news: Announcing seven new Cancer Grand Challenges’
March 7, 2025 at 5:35 AM
Reposted by Yasir Demirtaş
ruben.the100.ci
Want to make nice graphs with me, starting this summer? I am hiring for two PhD positions at the University of Witten/Herdecke.
Treemap chart showing the fragmented landscape of psychological measures.
March 18, 2025 at 3:31 PM
Reposted by Yasir Demirtaş
ksuhre.bsky.social
Genome-wide Association Studies of Missing Metabolite Measures: Results From Two Population-based Studies

www.medrxiv.org/content/10.1...

I wonder what a GWAS with imputing missing to zero would yield in comparison.
March 17, 2025 at 2:16 PM