Zobrazeno 1 - 10
of 66
pro vyhledávání: '"Yaron Orenstein"'
Publikováno v:
iScience, Vol 27, Iss 9, Pp 110772- (2024)
Summary: Studies determining protein-protein interactions (PPIs) by deep mutational scanning have focused mainly on a narrow range of affinities within complexes and thus include only partial coverage of the mutation space of given proteins. By inser
Externí odkaz:
https://doaj.org/article/1f31284ae7f544d0ab1cdb03de09352b
Autor:
Inbal Vaknin, Or Willinger, Jonathan Mandl, Hadar Heuberger, Dan Ben-Ami, Yi Zeng, Sarah Goldberg, Yaron Orenstein, Roee Amit
Publikováno v:
Nature Communications, Vol 15, Iss 1, Pp 1-17 (2024)
Abstract We demonstrate a transcriptional regulatory design algorithm that can boost expression in yeast and mammalian cell lines. The system consists of a simplified transcriptional architecture composed of a minimal core promoter and a synthetic up
Externí odkaz:
https://doaj.org/article/86a25de504a84dddba6f03abb43c97a9
Publikováno v:
BMC Bioinformatics, Vol 23, Iss 1, Pp 1-18 (2022)
Abstract Background The human body is inhabited by a diverse community of commensal non-pathogenic bacteria, many of which are essential for our health. By contrast, pathogenic bacteria have the ability to invade their hosts and cause a disease. Char
Externí odkaz:
https://doaj.org/article/0cee292138a84f53abcb7b73616a3c85
Publikováno v:
PLoS Computational Biology, Vol 19, Iss 3, p e1010948 (2023)
G-quadruplexes are non-B-DNA structures that form in the genome facilitated by Hoogsteen bonds between guanines in single or multiple strands of DNA. The functions of G-quadruplexes are linked to various molecular and disease phenotypes, and thus res
Externí odkaz:
https://doaj.org/article/5ac06a8d5688401ea621dbabde411047
Publikováno v:
Frontiers in Cell and Developmental Biology, Vol 11 (2023)
During neurogenesis, the generation and differentiation of neuronal progenitors into inhibitory gamma-aminobutyric acid-containing interneurons is dependent on the combinatorial activity of transcription factors (TFs) and their corresponding regulato
Externí odkaz:
https://doaj.org/article/1bc69c7123e946aa96a91a9071ca3cc7
Autor:
Noa Katz, Eitamar Tripto, Naor Granik, Sarah Goldberg, Orna Atar, Zohar Yakhini, Yaron Orenstein, Roee Amit
Publikováno v:
Nature Communications, Vol 12, Iss 1, Pp 1-15 (2021)
Phage-coat proteins can be used to build synthetic biology parts. Here the authors use an oligo library and machine learning to predict and verify sequences based on binding scores.
Externí odkaz:
https://doaj.org/article/9616667022114a1680b5c585955aa3b8
Publikováno v:
BMC Genomics, Vol 19, Iss 1, Pp 1-8 (2018)
Abstract Background RNA-binding proteins (RBPs) play vital roles in many processes in the cell. Different RBPs bind RNA with different sequence and structure specificities. While sequence specificities for a large set of 205 RBPs have been reported t
Externí odkaz:
https://doaj.org/article/773f62087fcc4355b7e0160844bbc197
Publikováno v:
Molecular Systems Biology, Vol 13, Iss 2, Pp 1-14 (2017)
Abstract Transcription factors (TFs) achieve DNA‐binding specificity through contacts with functional groups of bases (base readout) and readout of structural properties of the double helix (shape readout). Currently, it remains unclear whether DNA
Externí odkaz:
https://doaj.org/article/876b281482a048a19b64c8224d32e93e
Publikováno v:
PLoS Computational Biology, Vol 13, Iss 10, p e1005777 (2017)
With the rapidly increasing volume of deep sequencing data, more efficient algorithms and data structures are needed. Minimizers are a central recent paradigm that has improved various sequence analysis tasks, including hashing for faster read overla
Externí odkaz:
https://doaj.org/article/2bcc38fa38294aeab76d492cda7ef0e7
Publikováno v:
PLoS ONE, Vol 7, Iss 9, p e46145 (2012)
The new technology of protein binding microarrays (PBMs) allows simultaneous measurement of the binding intensities of a transcription factor to tens of thousands of synthetic double-stranded DNA probes, covering all possible 10-mers. A key computati
Externí odkaz:
https://doaj.org/article/34b28a7ccb8d48728bd7acbc228f034a