B. Uyar

发表

Short linear motifs: ubiquitous and functionally diverse protein interaction modules directing cell regulation.

Aidan Budd, Norman E. Davey, Holger Dinkel, 2014, Chemical reviews.

Fine tuning of RFX/DAF-19-regulated target gene expression through binding to multiple sites in Caenorhabditis elegans

Nansheng Chen, D. Baillie, B. Uyar, 2011, Nucleic acids research.

Attributes of short linear motifs.

Norman E. Davey, Robert J. Weatheritt, T. Gibson, 2012, Molecular bioSystems.

Mutations in Disordered Regions Can Cause Disease by Creating Dileucine Motifs

Holger Gerhardt, Michael Krauss, Carmen Birchmeier, 2018, Cell.

Mutations in disordered regions cause disease by creating endocytosis motifs

M. Selbach, A. Akalin, B. Uyar, 2017, bioRxiv.

Parallel genetics of regulatory sequences in vivo

Petar Glažar, N. Rajewsky, A. Akalin, 2020, bioRxiv.

FACT Sets a Barrier for Cell Fate Reprogramming in Caenorhabditis elegans and Human Cells

S. Lacadie, A. Akalin, B. Uyar, 2018, Developmental cell.

RNA-seq analysis of the C. briggsae transcriptome

Nansheng Chen, D. Baillie, I. Vergara, 2012, Genome research.

Homology and evidence-based genome annotation of Caenorhabditis species

B. Uyar, 2010 .

Identifying tumor cells at the single-cell level using machine learning

A. Akalin, B. Uyar, V. Franke, 2022, Genome Biology.

Multi-Omics Alleviates the Limitations of Panel Sequencing for Cancer Drug Response Prediction

A. Akalin, B. Uyar, V. Franke, 2022, bioRxiv.

Single-cell analyses of aging, inflammation and senescence

A. Kowald, G. Fuellen, A. Akalin, 2020, Ageing Research Reviews.

SARS-CoV-2 infection dynamics revealed by wastewater sequencing analysis and deconvolution

N. Rajewsky, M. Landthaler, A. Akalin, 2022, Science of The Total Environment.

The IκB kinase complex is a regulator of mRNA stability

G. Dittmar, P. Mertins, A. Akalin, 2018, The EMBO journal.

Identifying tumor cells at the single cell level

A. Akalin, B. Uyar, V. Franke, 2021, bioRxiv.

Parallel genetics of regulatory sequences using scalable genome editing in vivo.

Petar Glažar, N. Rajewsky, A. Akalin, 2021, Cell reports.

FACT sets a barrier for cell fate reprogramming in C. elegans and Human

S. Lacadie, A. Akalin, B. Uyar, 2017, bioRxiv.

Degrons in cancer

Zsuzsanna Dosztányi, Bálint Mészáros, Bora Uyar, 2017, Science Signaling.

Multi-omics and deep learning provide a multifaceted view of cancer

A. Akalin, B. Uyar, V. Franke, 2021, bioRxiv.

The eukaryotic linear motif resource ELM: 10 years and counting

Ignacio E. Sánchez, Aidan Budd, Marta Strumillo, 2013, Nucleic Acids Res..

HOT or not: examining the basis of high-occupancy target regions

Altuna Akalin, Bora Uyar, Ricardo Wurmus, 2017, bioRxiv.

PiGx: reproducible genomics analysis pipelines with GNU Guix

Altuna Akalin, Bora Uyar, Ricardo Wurmus, 2018, GigaScience.

Reproducible genomics analysis pipelines with GNU Guix

Altuna Akalin, Bora Uyar, Ricardo Wurmus, 2018 .

ELM—the database of eukaryotic linear motifs

Richard J. Edwards, Aidan Budd, Allegra Via, 2011, Nucleic Acids Res..

COVID-19 infection dynamics revealed by SARS-CoV-2 wastewater sequencing analysis and deconvolution

T. Borodina, N. Rajewsky, M. Landthaler, 2021, medRxiv.

Transcriptional repression of NFKBIA triggers constitutive IKK‐ and proteasome‐independent p65/RelA activation in senescence

Soyoung Lee, C. Schmitt, A. Akalin, 2021, The EMBO journal.

A novel IKK- and proteasome-independent mechanism of RelA activation triggers senescence associated secretome via transcriptional repression of NFKBIA

Soyoung Lee, C. Schmitt, A. Akalin, 2019, bioRxiv.

RCAS: an RNA centric annotation system for transcriptome-wide regions of interest

Uwe Ohler, Nikolaus Rajewsky, Altuna Akalin, 2017, Nucleic acids research.

genBlastG: using BLAST searches to build homologous gene models

Ke Wang, Jun Wang, Nansheng Chen, 2011, Bioinform..

ELM 2016—data update and new functionality of the eukaryotic linear motif resource

Toby J. Gibson, Kim Van Roey, Manjeet Kumar, 2015, Nucleic Acids Res..

Proteome-wide analysis of human disease mutations in short linear motifs: neglected players in cancer? †

Robert J. Weatheritt, T. Gibson, N. Davey, 2014 .

Identifying tumor cells at the single-cell level using machine learning

A. Akalin, B. Uyar, V. Franke, 2022, Genome Biology.

The conserved histone chaperone LIN‐53 is required for normal lifespan and maintenance of muscle integrity in Caenorhabditis elegans

A. Akalin, B. Uyar, S. Kempa, 2019, Aging cell.

The conserved histone chaperone LIN-53 links lifespan and healthspan regulation in Caenorhabditis elegans

A. Akalin, B. Uyar, S. Kempa, 2019, bioRxiv.

Proteome-wide analysis of human disease mutations in short linear motifs: neglected players in cancer?

Norman E. Davey, Robert J. Weatheritt, T. Gibson, 2014, Molecular bioSystems.

How pathogens use linear motifs to perturb host cell networks.

Allegra Via, Bora Uyar, Christine Brun, 2015, Trends in biochemical sciences.

PiGx: reproducible genomics analysis pipelines with GNU Guix

A. Akalin, B. Uyar, V. Franke, 2018, GigaScience.

Pathogenic mutations of human phosphorylation sites affect protein-protein interactions

M. Selbach, A. Akalin, Y. Ishihama, 2023, bioRxiv.

Proteome-wide analysis of human disease mutations in short linear motifs: neglected players in cancer?

Norman E. Davey, Robert J. Weatheritt, T. Gibson, 2014, Molecular bioSystems.

BIOINFORMATICS APPLICATIONS

Nansheng Chen, R. She, B. Uyar, 2022 .

Parallel genetics of regulatory sequences in vivo

Petar Glažar, N. Rajewsky, A. Akalin, 2020, bioRxiv.