@ibrahimihsan

Previously PhD student at @steinaerts lab and Research Scientist Intern at @GoogleDeepMind. Interested in genomics and ai

 Leuven, Belgium
Joined April 2010
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Exciting news! Our latest research on "Cell type directed design of synthetic enhancers" has been published in @Nature. We've harnessed deep learning to design enhancers with cell-type specificity. Find our paper here: nature.com/articles/s41586-0…. Highlights below: [1/n]
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Ibrahim I. Taskiran retweeted
Sarah Marzi@sj_marzi15 Jan 2024
I'm sure you've all been keenly awaiting the lineup for the @UKDRI #neurogenomics seminars in 2024, so here it is 🥳🧠🧬 Excited to be kicking off the new season tomorrow with @ibrahimihsan from @steinaerts lab. Anyone interested is welcome to join, just DM me for the link.
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Ibrahim I. Taskiran retweeted
Bernardo Almeida@deAlmeida_BP13 Dec 2023
Very happy to see my final PhD paper on designing synthetic enhancers for selected tissues in vivo using #AI out in @Nature 🥳 Big thanks to @AlexanderStark8 and whole @stark_lab , as well as collaborators in @Eileen_Furlong lab! Check out our thread below for more details 👇
StarkLab@stark_lab12 Dec 2023
We are very excited to present a major breakthrough achievement – the de novo design of synthetic enhancers for selected tissues in fruit fly embryos in vivo using deep- and transfer learning, @deAlmeida_BPet al published today in @Nature nature.com/articles/s41586-0…. Thread 👇(1/N)
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We showed that genomic enhancers, as well as random DNA sequences, harbour many single mutations that create repressor binding sites. [8/n]
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Our paper is published alongside a complementary study by @AlexanderStark8, @Eileen_Furlong, and their team. Make sure to read their great work as well: nature.com/articles/s41586-0…. [13/n]

Targeted design of synthetic enhancers for selected tissues in the Drosophila embryo

Nature - Deep learning and transfer learning were used to design tissue-specific enhancers in the Drosophila embryo that were active and specific, validating this approach to achieve tissue-, cell...

nature.com
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As this research chapter closes with the publication of our paper, I'm proud to announce I've completed my Ph.D. and am currently exploring opportunities where I can contribute my expertise to new and exciting challenges. Open to discussions and opportunities! [14/14]
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Our research underscores the critical role of repressor binding site elimination. Introducing repressors into active enhancers (without disrupting activator binding sites) destroys the activity of enhancers. [7/n]
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Utilising a genomic enhancer, we incorporated an additional regulatory code to expand its expression profile to another cell type, demonstrating the versatility of enhancer elements. [4/n]
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Network-explaining techniques allowed us to trace the impact of each mutation and decode its contribution to the resulting enhancer activity. [6/n]
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Reciprocally, we demonstrated that the code of a second cell-type can be deleted from an enhancer that is active in multiple cell-types to restrict its spatial activity. [5/n]
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Starting from the same random DNA sequence, we could evolve it into different cell type-specific enhancers by directing the mutation selection. [3/n]
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Our findings reveal that only a small number of targeted mutations are needed to transform random sequences or inactive genomic regions into enhancers that drive specific cell-type activities. [2/n]
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I’m more than honored to have received one of the best talk awards! It was a very inspiring meeting and I had the chance to meet many beautiful minds :)
Shaun Mahony@mahonylab28 Jul 2023
Congratulations to the joint winners of the @ISCB_RegSys best abstract presentation award at #ISMBECCB2023: Ibrahim Ihsan Taskiran (KU Leuven) and Jacob Schreiber @jmschreiber91 (Stanford)!
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Are you at #ISMBECCB2023? Wanna hear about designing cell type specific enhancers guided by deep learning models? Visit my poster today (B-346) and my talk tomorrow (17h20) at @ISCB_RegSys COSI!
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📢 Join me at ISMB/ECCB 2023 in Lyon from July 23-27! I'm very excited to be a speaker at @ISCB_RegSys track where I'll be sharing our recent work on synthetic enhancer design! Ping me if you'd like to meet! See you there! 🌍 invt.io/1txbi3rpxmt #ISMBECCB2023 @iscb

I've registered for ISMB/ECCB 2023, join me!

Register now

invt.io
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It was a great 4 days with lots of mind-opening talks! Met many brilliant and kind scientists as well :). Thanks for organizing such conference and for the poster prize!
EMBL Events
@EMBLEvents28 Apr 2023
We can't believe #EESBrainGenome is already over! 😭 Our participants were sent off with closing remarks from Matthieu Boulard (EMBL Rome) - and of course we announced the best poster prizes too! Congrats to all winners and presenters 👏🏾🏆 See you next time? 🧠🔍 @ibrahimihsan
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