Recent Publications

Cross-platform DNA motif discovery and benchmarking to explore binding specificities of poorly studied human transcription factors

Nov 28, 2024

bioRxiv : the preprint server for biology

Ilya E Vorontsov, Ivan Kozin, Sergey Abramov, Alexandr Boytsov, Arttu Jolma, Mihai Albu, Giovanna Ambrosini, Katerina Faltejskova, Antoni J Gralak, Nikita Gryzunov, Sachi Inukai, Semyon Kolmykov, Pavel Kravchenko, Judith F Kribelbauer-Swietek, Kaitlin U Laverty, Vladimir Nozdrin, Zain M Patel, Dmitry Penzar, Marie-Luise Plescher, Sara E Pour, Rozita Razavi, Ally W H Yang, Ivan Yevshin, Arsenii Zinkevich, Matthew T Weirauch, Philipp Bucher, Bart Deplancke, Oriol Fornes, Jan Grau, Ivo Grosse, Fedor A Kolpakov, Codebook/GRECO-BIT Consortium, Vsevolod J Makeev, Timothy R Hughes, Ivan V Kulakovskiy

Extensive binding of uncharacterized human transcription factors to genomic dark matter

Nov 28, 2024

bioRxiv : the preprint server for biology

Rozita Razavi, Ali Fathi, Isaac Yellan, Alexander Brechalov, Kaitlin U Laverty, Arttu Jolma, Aldo Hernandez-Corchado, Hong Zheng, Ally W H Yang, Mihai Albu, Marjan Barazandeh, Chun Hu, Ilya E Vorontsov, Zain M Patel, Codebook Consortium, Ivan V Kulakovskiy, Philipp Bucher, Quaid Morris, Hamed S Najafabadi, Timothy R Hughes

GHT-SELEX demonstrates unexpectedly high intrinsic sequence specificity and complex DNA binding of many human transcription factors

Nov 28, 2024

bioRxiv : the preprint server for biology

Arttu Jolma, Aldo Hernandez-Corchado, Ally W H Yang, Ali Fathi, Kaitlin U Laverty, Alexander Brechalov, Rozita Razavi, Mihai Albu, Hong Zheng, Codebook Consortium, Ivan V Kulakovskiy, Hamed S Najafabadi, Timothy R Hughes

Identification of methylation-sensitive human transcription factors using meSMiLE-seq

Nov 28, 2024

bioRxiv : the preprint server for biology

Antoni J Gralak, Katerina Faltejskova, Ally W H Yang, Clemence Steiner, Julie Russeil, Nadia Grenningloh, Sachi Inukai, Mustafa Demir, Riccardo Dainese, Cooper Owen, Eugenia Pankevich, Codebook/GRECO-BIT Consortium, Timothy R Hughes, Ivan V Kulakovskiy, Judith F Kribelbauer-Swietek, Guido van Mierlo, Bart Deplancke

Perspectives on Codebook: sequence specificity of uncharacterized human transcription factors

Nov 28, 2024

bioRxiv : the preprint server for biology

Arttu Jolma, Kaitlin U Laverty, Ali Fathi, Ally W H Yang, Isaac Yellan, Ilya E Vorontsov, Sachi Inukai, Judith F Kribelbauer-Swietek, Antoni J Gralak, Rozita Razavi, Mihai Albu, Alexander Brechalov, Zain M Patel, Vladimir Nozdrin, Georgy Meshcheryakov, Ivan Kozin, Sergey Abramov, Alexandr Boytsov, Codebook Consortium, Oriol Fornes, Vsevolod J Makeev, Jan Grau, Ivo Grosse, Philipp Bucher, Bart Deplancke, Ivan V Kulakovskiy, Timothy R Hughes

Single-cell transcriptome analysis reveals CD34 as a marker of human sinoatrial node pacemaker cardiomyocytes

Nov 28, 2024

Nature communications

Amos A Lim, Delaram Pouyabahar, Mishal Ashraf, Kate Huang, Michelle Lohbihler, Brandon M Murareanu, Matthew L Chang, Maggie Kwan, Faisal J Alibhai, Thinh Tran, Amine Mazine, Michael A Laflamme, Gary D Bader, Zachary Laksman, Stephanie Protze

Identification of VISTA regulators in macrophages mediating cancer cell survival

Nov 27, 2024

Science advances

Abdalla M Abdrabou, Sharif U Ahmed, Mengqi Jonathan Fan, Bill T V Duong, Kangfu Chen, Pei-Ying Lo, Julia M Mayes, Fatemeh Esmaeili, Amin GhavamiNejad, Hossein Zargartalebi, Randy Singh Atwal, Sichun Lin, Stephane Angers, Shana O Kelley

Functional profiling of murine glioma models highlights targetable immune evasion phenotypes

Nov 26, 2024

Acta neuropathologica

Nicholas Mikolajewicz, Nazanin Tatari, Jiarun Wei, Neil Savage, Adrian Granda Farias, Vassil Dimitrov, David Chen, Zsolt Zador, Kuheli Dasgupta, Magali Aguilera-Uribe, Yu-Xi Xiao, Seon Yong Lee, Patricia Mero, Dillon McKenna, Chitra Venugopal, Kevin R Brown, Hong Han, Sheila Singh, Jason Moffat

QBox: An Automated Portable System for Multiplex Quantum Dot Barcode Diagnostics

Nov 25, 2024

ACS nano

Matthew Osborne, Hongmin Chen, Pranav Kadhiresan, Nafisa Mahbub, Ayden Malekjahani, Hannah N Kozlowski, Buddhisha Udugama, Luan N M Nguyen, Stephen Perusini, Samira Mubareka, Warren C W Chan

Acute myeloid leukemia drug tolerant persister cells survive chemotherapy by transiently increasing plasma membrane rigidity, that also increases their sensitivity to immune cell killing

Nov 21, 2024

Haematologica

Yael Morgenstern, JongBok Lee, Yoosu Na, Brandon Y Lieng, Nicholas S Ly, William D Gwynne, Rose Hurren, Li Ma, Dakai Ling, Marcela Gronda, Andrea Arruda, Avraham Frisch, Tsila Zuckerman, Yishai Ofran, Mark D Minden, Li Zhang, Catherine O'Brien, Andrew T Quaile, J Rafael Montenegro-Burke, Aaron D Schimmer

Recent Publications

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