Murat Can Çobanoğlu

Cancer drug discovery should be solved as a low rank tensor completion problem: biorxiv.org/cgi/content/sh… We describe constructing, using and completing such a tensor; provide true positive and true negative validations. Thanks to team, incl.: @vasanth1786 @didemagac @gr8straj

Have cell types for your single cell data but your visualization doesn't know about them? Check out Haisu. It makes your favorite visualizer (t-SNE, UMAP, & PHATE) label-aware. It also supports hierarchical labels (T cell --> CD8 T cell). @Cobanoglu_Lab plos.io/3b9Ydah

@oflazer Katılmak isteyen herkesi bekliyoruz!

Carnegie Mellon Üniversitesi Mezunlar Derneği Türkiye olarak 19 Haziran 2021 Cumartesi, Türkiye saati ile 16-19 arasında (9am-11am EDT) CMU'lu arkadaşlarımız ile yapay zeka üzerinde konuşacağız. Herkesi davet ediyoruz. Kayıt Linki: us06web.zoom.us/webinar/regist…

Another open #PHDPosition in #ComputerVision for #CellBiology. We are looking for an enthusiastic student to push the envelope in the analysis of molecular dynamics across scales and automate navigation in 5D datasets. Info at bit.ly/3eih8NC. Deadline June 30th!

@HelenGavaghan Yup, exactly :) thanks for reading & sharing our work!

A PROPOSAL TO APPLY TENSOR MATH RATHER THAN MASS MOLECULAR SCREENING TO IDENTIFY POTENTIAL CANDIDATE CANCER DRUGS (HG). Cancer drug discovery as a low rank tensor completion problem biorxiv.org/content/10.110…

@katrinabmar What I find helpful, when I'm in a similar mental space, is to think back from a positive future. As if you were reading a history book on the topic, in this case the reformation of academia, but written in the future and looking back at today.

Finally, I'd like to thank my chair @gdanuser1 and my institution @UTSWNews for all the support I've received during the years it took to realize this project. I hope this tool facilitates cancer drug discovery worldwide. Feel free to reach out with any questions or comments!

Predictive engine built using, including but not limited to: python, pandas, numpy, scipy, statsmodels, RDKit, TensorFlow, Tensorly. Web interface built using nginx, flask, jinja2, Tabulator. Our code for both parts will also shortly be made available as open source.

Cancer drug discovery should be solved as a low rank tensor completion problem: biorxiv.org/cgi/content/sh… We describe constructing, using and completing such a tensor; provide true positive and true negative validations. Thanks to team, incl.: @vasanth1786 @didemagac @gr8straj

Just listened to @jack on NYT The Daily. One comment stuck: algorithms should be explainable. I think we lack metrics that reward transparency. ML methods (incl in biology) shouldn't compete purely on accuracy, but also on interpretability. Explainable 98% accuracy vs opaque 99%?

@kD3AN Maybe exams should be different? If a piece of info is trivially accessible, why act like it isn't? When doing a real job, will the evaluation be task completion or internet use to do so? Maybe more focus on analytical ability than memorization?

@vasanth1786 Thanks Vasanth!

@Cobanoglu_Lab Congrats Murat Can!!!

Our new paper just appeared online: doi.org/10.1093/bioinf… Resolving overlap is important for accurate TF activity inference.

@SpectralFilter @nomad421 @NSF Congratulations Shannon! Great news!

Looking forward to talking at Acıbadem tomorrow!

James Allison's Nobel prize led us to Stockholm, and the fantastic celebrations here. It is a great joy to attend the events here with my gorgeous fiancee @didemagac !

@cihancobanoglu Face recognition is quite mature today. Using OpenFace, for instance, one can deploy similar products rather quickly: cmusatyalab.github.io/openface However, like any new tech, it also presents unique concerns—privacy & security, for instance.

On my flight with Delta, for the first time I boarded the plane with a face recognition device. I didn’t not have to show my passport or boarding pass. I looked at a camera and I was allowed to board instantly. Amazing!!In the future we will be able to board without any documents

Demo of our team's deep learning in VR hackathon project—aka deVoReaNN: youtu.be/E_VWewj_jX8 Repo: github.com/NCBI-Hackathon… Awesome team; awesome hackathon! :)