Martin Depken
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Explore the profile of Martin Depken including associated specialties, affiliations and a list of published articles.
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39
Citations
1025
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Recent Articles
1.
Klein M, DAS A, Bera S, Anderson T, Kocincova D, Lee H, et al.
bioRxiv
. 2025 Jan;
PMID: 39829827
Coronaviruses (CoV) encode sixteen non-structural proteins (nsps), most of which form the replication-transcription complex (RTC). The RTC contains a core composed of one nsp12 RNA-dependent RNA polymerase (RdRp), two nsp8s...
2.
Olivi L, Bagchus C, Pool V, Bekkering E, Speckner K, Offerhaus H, et al.
Nucleic Acids Res
. 2024 Apr;
52(9):5241-5256.
PMID: 38647045
CRISPR-Cas systems have widely been adopted as genome editing tools, with two frequently employed Cas nucleases being SpyCas9 and LbCas12a. Although both nucleases use RNA guides to find and cleave...
3.
Bera S, America P, Maatsola S, Seifert M, Ostrofet E, Cnossen J, et al.
Nucleic Acids Res
. 2022 Jul;
50(13):7511-7528.
PMID: 35819191
Transcription initiation is the first step in gene expression, and is therefore strongly regulated in all domains of life. The RNA polymerase (RNAP) first associates with the initiation factor $\sigma$...
4.
Janissen R, Eslami-Mossallam B, Artsimovitch I, Depken M, Dekker N
Cell Rep
. 2022 Apr;
39(4):110749.
PMID: 35476989
Pausing by bacterial RNA polymerase (RNAp) is vital in the recruitment of regulatory factors, RNA folding, and coupled translation. While backtracking and intra-structural isomerization have been proposed to trigger pausing,...
5.
Eslami-Mossallam B, Klein M, Smagt C, Sanden K, Jones Jr S, Hawkins J, et al.
Nat Commun
. 2022 Mar;
13(1):1367.
PMID: 35292641
The S. pyogenes (Sp) Cas9 endonuclease is an important gene-editing tool. SpCas9 is directed to target sites based on complementarity to a complexed single-guide RNA (sgRNA). However, SpCas9-sgRNA also binds...
6.
Fu R, He W, Dou J, Villarreal O, Bedford E, Wang H, et al.
Nat Commun
. 2022 Jan;
13(1):474.
PMID: 35078987
The specificity of CRISPR/Cas9 genome editing is largely determined by the sequences of guide RNA (gRNA) and the targeted DNA, yet the sequence-dependent rules underlying off-target effects are not fully...
7.
Seifert M, Bera S, van Nies P, Kirchdoerfer R, Shannon A, Le T, et al.
Elife
. 2021 Oct;
10.
PMID: 34617885
The absence of 'shovel-ready' anti-coronavirus drugs during vaccine development has exceedingly worsened the SARS-CoV-2 pandemic. Furthermore, new vaccine-resistant variants and coronavirus outbreaks may occur in the near future, and we...
8.
Bera S, Seifert M, Kirchdoerfer R, van Nies P, Wubulikasimu Y, Quack S, et al.
Cell Rep
. 2021 Aug;
36(9):109650.
PMID: 34433083
Coronaviruses have evolved elaborate multisubunit machines to replicate and transcribe their genomes. Central to these machines are the RNA-dependent RNA polymerase subunit (nsp12) and its intimately associated cofactors (nsp7 and...
9.
Seifert M, Bera S, van Nies P, Kirchdoerfer R, Shannon A, Le T, et al.
bioRxiv
. 2021 Apr;
PMID: 33851161
Teaser: We revise Remdesivir's mechanism of action and reveal SARS-CoV-2 ability to evade interferon-induced antiviral ddhCTP.
10.
Bera S, Seifert M, Kirchdoerfer R, van Nies P, Wubulikasimu Y, Quack S, et al.
bioRxiv
. 2021 Apr;
PMID: 33791706
Coronaviruses have evolved elaborate multisubunit machines to replicate and transcribe their genomes. Central to these machines are the RNA-dependent RNA polymerase subunit (nsp12) and its intimately associated cofactors (nsp7 and...