Zobrazeno 1 - 10
of 11
pro vyhledávání: '"Sarvesh Nikumbh"'
Autor:
Simon Pavlu, Sarvesh Nikumbh, Martin Kovacik, Tadaichi An, Boris Lenhard, Hana Simkova, Pavla Navratilova
Publikováno v:
Computational and Structural Biotechnology Journal, Vol 23, Iss , Pp 264-277 (2024)
Precise localization and dissection of gene promoters are key to understanding transcriptional gene regulation and to successful bioengineering applications. The core RNA polymerase II initiation machinery is highly conserved among eukaryotes, leadin
Externí odkaz:
https://doaj.org/article/786a595c6397481d967d6119e74adb95
Autor:
Sarvesh Nikumbh, Boris Lenhard
Publikováno v:
PLoS Computational Biology, Vol 19, Iss 11, p e1011491 (2023)
Core promoters are stretches of DNA at the beginning of genes that contain information that facilitates the binding of transcription initiation complexes. Different functional subsets of genes have core promoters with distinct architectures and chara
Externí odkaz:
https://doaj.org/article/34b9f53529054f9b899bfcfef82cf886
Autor:
Sarvesh Nikumbh, Nico Pfeifer
Publikováno v:
BMC Bioinformatics, Vol 18, Iss 1, Pp 1-16 (2017)
Abstract Background Knowing the three-dimensional (3D) structure of the chromatin is important for obtaining a complete picture of the regulatory landscape. Changes in the 3D structure have been implicated in diseases. While there exist approaches th
Externí odkaz:
https://doaj.org/article/ce97e9d8ac7f402ba414f5ffbb4b476f
Autor:
Ieva Rauluseviciute, Timothée Launay, Guido Barzaghi, Sarvesh Nikumbh, Boris Lenhard, Arnaud Regis Krebs, Jaime A. Castro-Mondragon, Anthony Mathelier
Transcription factor (TF) binding to DNA is critical to transcription regulation. Although the binding properties of numerous individual TFs are well-documented, a more detailed comprehension of how TFs interact cooperatively with DNA, forming either
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::9263240cca6a925039593f26df902a44
https://doi.org/10.1101/2023.04.28.538684
https://doi.org/10.1101/2023.04.28.538684
Autor:
Boris Lenhard, Sarvesh Nikumbh
Core promoters are stretches of DNA at the beginning of genes that contain information that facilitates the binding of transcription initiation complex. Different functional subsets of genes have core promoters with distinct architectures and charact
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::b31e169ed36849e7904a802cb7bdbe04
https://doi.org/10.1101/2023.03.02.530868
https://doi.org/10.1101/2023.03.02.530868
Preliminary work presented as poster at the premier computational biology conference, ISMB/ECCB 2019
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9341d4aecd4e072fbd041028c9251d63
Publikováno v:
17th International Workshop on Algorithms in Bioinformatics
Leibniz International Proceedings in Informatics
Leibniz International Proceedings in Informatics
Most string kernels for comparison of genomic sequences are generally tied to using (absolute) positional information of the features in the individual sequences. This poses limitations when comparing variable-length sequences using such string kerne
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::07983b73511dd5c066541197d2f0a29f
https://doi.org/10.1101/139618
https://doi.org/10.1101/139618
Autor:
Sarvesh Nikumbh, Pfeifer, Nico
This file provides additional performance plots and visualizations, and more detailed description of the data. Figure S1: Z-scores for various cell lines at different FDRs Figure S2: Lengths of restriction fragments for various regions in different c
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d6f716257cd0516ab994c3e86ce31922
Autor:
Nico Pfeifer, Sarvesh Nikumbh
Publikováno v:
BMC Bioinformatics
BMC Bioinformatics, Vol 18, Iss 1, Pp 1-16 (2017)
BMC Bioinformatics, Vol 18, Iss 1, Pp 1-16 (2017)
Background Knowing the three-dimensional (3D) structure of the chromatin is important for obtaining a complete picture of the regulatory landscape. Changes in the 3D structure have been implicated in diseases. While there exist approaches that attemp
Publikováno v:
Applications of Metaheuristics in Process Engineering ISBN: 9783319065076
Large scale fed-batch operations are industrially important in agricultural and pharmaceutical sectors. In fed-batch operations, we need to optimize the flow rates of rate limiting substrates to maximize the required performance index. Dynamic optimi
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::8354e2ffdf72b006d7d27e7aa747ffd5
https://doi.org/10.1007/978-3-319-06508-3_8
https://doi.org/10.1007/978-3-319-06508-3_8