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TRANSFAC: a database on transcription factors and their DNA binding sites.
Wingender E, Dietze P, Karas H, Knüppel R. Wingender E, et al. Among authors: knuppel r. Nucleic Acids Res. 1996 Jan 1;24(1):238-41. doi: 10.1093/nar/24.1.238. Nucleic Acids Res. 1996. PMID: 8594589 Free PMC article.
TRANSFAC retrieval program: a network model database of eukaryotic transcription regulating sequences and proteins.
Knüppel R, Dietze P, Lehnberg W, Frech K, Wingender E. Knüppel R, et al. J Comput Biol. 1994 Fall;1(3):191-8. doi: 10.1089/cmb.1994.1.191. J Comput Biol. 1994. PMID: 8790464
Combining structural analysis of DNA with search routines for the detection of transcription regulatory elements.
Karas H, Knüppel R, Schulz W, Sklenar H, Wingender E. Karas H, et al. Among authors: knuppel r. Comput Appl Biosci. 1996 Oct;12(5):441-6. doi: 10.1093/bioinformatics/12.5.441. Comput Appl Biosci. 1996. PMID: 8996793
TRANSFAC, TRRD and COMPEL: towards a federated database system on transcriptional regulation.
Wingender E, Kel AE, Kel OV, Karas H, Heinemeyer T, Dietze P, Knüppel R, Romaschenko AG, Kolchanov NA. Wingender E, et al. Among authors: knuppel r. Nucleic Acids Res. 1997 Jan 1;25(1):265-8. doi: 10.1093/nar/25.1.265. Nucleic Acids Res. 1997. PMID: 9016550 Free PMC article.
TRANSFAC database as a bridge between sequence data libraries and biological function.
Wingender E, Karas H, Knüppel R. Wingender E, et al. Among authors: knuppel r. Pac Symp Biocomput. 1997:477-85. Pac Symp Biocomput. 1997. PMID: 9390316
Insights into the evolutionary conserved regulation of Rio ATPase activity.
Knüppel R, Christensen RH, Gray FC, Esser D, Strauß D, Medenbach J, Siebers B, MacNeill SA, LaRonde N, Ferreira-Cerca S. Knüppel R, et al. Nucleic Acids Res. 2018 Feb 16;46(3):1441-1456. doi: 10.1093/nar/gkx1236. Nucleic Acids Res. 2018. PMID: 29237037 Free PMC article.
A versatile cis-acting element reporter system to study the function, maturation and stability of ribosomal RNA mutants in archaea.
Jüttner M, Weiß M, Ostheimer N, Reglin C, Kern M, Knüppel R, Ferreira-Cerca S. Jüttner M, et al. Among authors: knuppel r. Nucleic Acids Res. 2020 Feb 28;48(4):2073-2090. doi: 10.1093/nar/gkz1156. Nucleic Acids Res. 2020. PMID: 31828323 Free PMC article.
Toward Time-Resolved Analysis of RNA Metabolism in Archaea Using 4-Thiouracil.
Knüppel R, Kuttenberger C, Ferreira-Cerca S. Knüppel R, et al. Front Microbiol. 2017 Feb 24;8:286. doi: 10.3389/fmicb.2017.00286. eCollection 2017. Front Microbiol. 2017. PMID: 28286499 Free PMC article.
The Archaeal Proteome Project advances knowledge about archaeal cell biology through comprehensive proteomics.
Schulze S, Adams Z, Cerletti M, De Castro R, Ferreira-Cerca S, Fufezan C, Giménez MI, Hippler M, Jevtic Z, Knüppel R, Legerme G, Lenz C, Marchfelder A, Maupin-Furlow J, Paggi RA, Pfeiffer F, Poetsch A, Urlaub H, Pohlschroder M. Schulze S, et al. Among authors: knuppel r. Nat Commun. 2020 Jun 19;11(1):3145. doi: 10.1038/s41467-020-16784-7. Nat Commun. 2020. PMID: 32561711 Free PMC article.
In Vivo RNA Chemical Footprinting Analysis in Archaea.
Knüppel R, Fenk M, Jüttner M, Ferreira-Cerca S. Knüppel R, et al. Methods Mol Biol. 2020;2106:193-208. doi: 10.1007/978-1-0716-0231-7_12. Methods Mol Biol. 2020. PMID: 31889259
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