Search results
- 1.0580571 - MBÚ 2025 RIV GB eng J - Journal Article
Pospíšil, Jiří - Schwarz, Marek - Ziková, Alice - Vítovská, Dragana - Hradilová, Miluše - Kolář, Michal - Křenková, Alena - Hubálek, Martin - Krásný, Libor - Vohradský, Jiří
σE of Streptomyces coelicolor can function both as a direct activator or repressor of transcription.
Communications Biology. Roč. 7, January 6 (2024), č. článku 46. E-ISSN 2399-3642
R&D Projects: GA ČR(CZ) GF22-06342K; GA MŠMT(CZ) LM2023055; GA MŠMT(CZ) LX22NPO5103
Research Infrastructure: ELIXIR CZ III - 90255
Institutional support: RVO:61388971 ; RVO:68378050 ; RVO:61388963
Keywords : σ factors * proteins * Streptomyces coelicolor * gene expression
OECD category: Microbiology; Biochemistry and molecular biology (UMG-J)
Impact factor: 5.9, year: 2022
Method of publishing: Open access
https://www.nature.com/articles/s42003-023-05716-y
Permanent Link: https://hdl.handle.net/11104/0349344File Download Size Commentary Version Access 2024_Pospisil_Communications Biology.pdf 1 2.8 MB Publisher’s postprint open-access - 2.0565503 - MBÚ 2023 RIV CH eng J - Journal Article
Vohradský, Jiří
Quantitative Aspect of Bacillus subtilis σB Regulatory Network—A Computational Simulation.
Biology. Roč. 11, č. 12 (2022), č. článku 11121729. E-ISSN 2079-7737
R&D Projects: GA MŠMT(CZ) LM2018131
Institutional support: RVO:61388971
Keywords : Bacillus subtilis sigma B * computer simulation * regulatory network
OECD category: Biology (theoretical, mathematical, thermal, cryobiology, biological rhythm), Evolutionary biology
Impact factor: 4.2, year: 2022
Method of publishing: Open access
https://www.mdpi.com/2079-7737/11/12/1729
Permanent Link: https://hdl.handle.net/11104/0337037 - 3.0547237 - MBÚ 2022 RIV GB eng J - Journal Article
Schwarz, Marek - Vohradský, Jiří - Pánek, Josef
rboAnalyzer webserver: web service for non-coding RNA characterization from NCBI BLAST output.
Bioinformatics. Roč. 37, č. 17 (2021), s. 2755-2756. ISSN 1367-4803. E-ISSN 1460-2059
R&D Projects: GA MŠMT(CZ) LM2015047; GA MŠMT(CZ) EF16_013/0001777
Institutional support: RVO:61388971
Keywords : RNA * BLAST * sequence
OECD category: Computer sciences, information science, bioinformathics (hardware development to be 2.2, social aspect to be 5.8)
Impact factor: 6.931, year: 2021
Method of publishing: Limited access
https://academic.oup.com/bioinformatics/article-abstract/37/17/2755/6125384?redirectedFrom=fulltext
Permanent Link: http://hdl.handle.net/11104/0323582 - 4.0541594 - MBÚ 2022 RIV CH eng J - Journal Article
Vohradský, Jiří - Schwarz, Marek - Ramaniuk, Olga - Ruiz-Larrabeiti, Olatz - Vaňková Hausnerová, Viola - Šanderová, Hana - Krásný, Libor
Kinetic Modeling and Meta-Analysis of the Bacillus subtilis SigB Regulon during Spore Germination and Outgrowth.
Microorganisms. Roč. 9, č. 1 (2021). E-ISSN 2076-2607
R&D Projects: GA MŠMT(CZ) LM2018131; GA MŠMT(CZ) EF16_013/0001777; GA ČR(CZ) GA20-12109S
Institutional support: RVO:61388971
Keywords : Bacillus subtilis * SigB * gene regulatory networks * computational modeling * promoter sequence analysis
OECD category: Biology (theoretical, mathematical, thermal, cryobiology, biological rhythm), Evolutionary biology
Impact factor: 4.926, year: 2021
Method of publishing: Open access
https://www.mdpi.com/2076-2607/9/1/112
Permanent Link: http://hdl.handle.net/11104/0319132 - 5.0532087 - MBÚ 2021 RIV CH eng J - Journal Article
Schwarz, Marek - Vohradský, Jiří - Modrák, Martin - Pánek, Josef
rboAnalyzer: A Software to Improve Characterization of Non-coding RNAs From Sequence Database Search Output.
Frontiers in genetics. Roč. 11, Jul 28 (2020), č. článku 675. E-ISSN 1664-8021
R&D Projects: GA MŠMT(CZ) LM2015047; GA MŠMT(CZ) EF16_013/0001777
Institutional support: RVO:61388971
Keywords : RNA * sequence * database
OECD category: Computer sciences, information science, bioinformathics (hardware development to be 2.2, social aspect to be 5.8)
Impact factor: 4.599, year: 2020
Method of publishing: Open access
https://www.frontiersin.org/articles/10.3389/fgene.2020.00675/full
Permanent Link: http://hdl.handle.net/11104/0310693 - 6.0531246 - MBÚ 2021 RIV US eng J - Journal Article
Pospíšil, Jiří - Strunin, Dmytro - Ziková, Alice - Hubálek, Martin - Vohradský, Jiří
A Comparison of Protein and mRNA Expression during Development of the Soil Dwelling Prokaryote (S. coelicolor).
Proteomics. Roč. 20, č. 14 (2020), č. článku 2000032. ISSN 1615-9853. E-ISSN 1615-9861
R&D Projects: GA MŠMT(CZ) LM2015055; GA MŠMT(CZ) LM2015047; GA MŠMT(CZ) LM2018131
Research Infrastructure: C4SYS - 90055; ELIXIR-CZ - 90047; ELIXIR-CZ II - 90131
Institutional support: RVO:61388971 ; RVO:61388963
Keywords : computational modeling * mass spectrometry * mRNA
OECD category: Biology (theoretical, mathematical, thermal, cryobiology, biological rhythm), Evolutionary biology; Analytical chemistry (UOCHB-X)
Impact factor: 3.984, year: 2020
Method of publishing: Open access
https://onlinelibrary.wiley.com/doi/abs/10.1002/pmic.202000032
Permanent Link: http://hdl.handle.net/11104/0310042 - 7.0518202 - MBÚ 2020 RIV GB eng J - Journal Article
Jelínek, Jan - Hoksza, D. - Hajič, J. - Pešek, J. - Drozen, J. - Hladík, T. - Klimpera, M. - Vohradský, Jiří - Pánek, Josef
rPredictorDB: a predictive database of individual secondary structures of RNAs and their formatted plots.
Database - The Journal of Biological Databases and Curation. Roč. 2019, APR 25 (2019), č. článku baz047. ISSN 1758-0463. E-ISSN 1758-0463
R&D Projects: GA ČR GA15-00885S; GA MŠMT(CZ) LM2015047
Research Infrastructure: ELIXIR-CZ - 90047
Institutional support: RVO:61388971
Keywords : search * expression * sequence * PDB
OECD category: Biology (theoretical, mathematical, thermal, cryobiology, biological rhythm), Evolutionary biology
Impact factor: 2.593, year: 2019
Method of publishing: Open access
https://academic.oup.com/database/article/doi/10.1093/database/baz047/5479229
Permanent Link: http://hdl.handle.net/11104/0303370File Download Size Commentary Version Access 126 rPredictorDB a predictive database of individual.pdf 2 8.4 MB Publisher’s postprint require - 8.0506585 - MBÚ 2020 RIV US eng J - Journal Article
Bobek, Jan - Straková, Eva - Ziková, Alice - Vohradský, Jiří
Changes in activity of metabolic and regulatory pathways during germination of S-coelicolor.
BMC Genomics. Roč. 15, DEC 23 (2014), č. článku 1173. ISSN 1471-2164. E-ISSN 1471-2164
R&D Projects: GA ČR GAP302/11/0229; GA ČR GAP302/10/0468
Institutional support: RVO:61388971
Keywords : Germination * Streptomyces * Microarrays
OECD category: Microbiology
Impact factor: 3.986, year: 2014
Method of publishing: Open access
https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-15-1173
Permanent Link: http://hdl.handle.net/11104/0297810 - 9.0500022 - MBÚ 2020 RIV GB eng J - Journal Article
Šmídová, Klára - Ziková, Alice - Pospíšil, Jiří - Schwarz, Marek - Bobek, J. - Vohradský, Jiří
DNA mapping and kinetic modeling of the HrdB regulon in Streptomyces coelicolor.
Nucleic Acids Research. Roč. 47, č. 2 (2019), s. 621-633. ISSN 0305-1048. E-ISSN 1362-4962
R&D Projects: GA MŠMT(CZ) LM2015055; GA MŠMT(CZ) LM2015047
Research Infrastructure: C4SYS - 90055; ELIXIR-CZ - 90047
Institutional support: RVO:61388971
Keywords : Streptomyces coelicolor * HrdB protein * HrdB–RbpA complex
OECD category: Bioprocessing technologies (industrial processes relying on biological agents to drive the process) biocatalysis, fermentation; Biology (theoretical, mathematical, thermal, cryobiology, biological rhythm), Evolutionary biology (MBU-M)
Impact factor: 11.502, year: 2019
Method of publishing: Open access
https://academic.oup.com/nar/article/47/2/621/5146190
Permanent Link: http://hdl.handle.net/11104/0292191File Download Size Commentary Version Access 126 DNA mapping and kinetic modeling of.pdf 8 790.9 KB Publisher’s postprint require - 10.0491992 - MBÚ 2019 RIV GB eng J - Journal Article
Modrák, Martin - Vohradský, Jiří
Genexpi: a toolset for identifying regulons and validating gene regulatory networks using time-course expression data.
BMC Bioinformatics. Roč. 19, APR 13 (2018), č. článku 137. ISSN 1471-2105. E-ISSN 1471-2105
R&D Projects: GA MŠMT(CZ) LM2015055
Institutional support: RVO:61388971
Keywords : Gene network inference * Transcription regulation * Time series
OECD category: Computer sciences, information science, bioinformathics (hardware development to be 2.2, social aspect to be 5.8)
Impact factor: 2.511, year: 2018
Permanent Link: http://hdl.handle.net/11104/0285589File Download Size Commentary Version Access Genexpi.pdf 5 1.2 MB Publisher’s postprint require