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51 to 60 of 66 Results
Conserved positions in expansin homologues
Apr 9, 2020 - Expansin Engineering Database
Lohoff, Caroline, 2020, "Conserved positions in expansin homologues", https://doi.org/10.18419/darus-735, DaRUS, V1, UNF:6:HemykMznkJ0tyrf89mswkg== [fileUNF]
Conserved positions in the N- and C-terminal expansin domains of different groups from the Expansin Engineering Database (occurring in at least 70% of the annotated sequence entries). The expansin domains were annotated using hmmscan (from the HMMER software suite) against all se...
Expansin homologues in actinobacterial genomes from South Africa
Apr 9, 2020 - Expansin Engineering Database
Buchholz, Patrick C. F., 2020, "Expansin homologues in actinobacterial genomes from South Africa", https://doi.org/10.18419/darus-699, DaRUS, V1
Hit sequences for putative expansins (or expansin domains) are reported from an exemplary genome screening. Five actinobacterial genomes were selected to show the application of the Expansin Engineering Database (ExED) for the identification of expansin domains. The original nucl...
Occurrence of expansins in the tree of life
Apr 9, 2020 - Expansin Engineering Database
Lohoff, Caroline, 2020, "Occurrence of expansins in the tree of life", https://doi.org/10.18419/darus-693, DaRUS, V1, UNF:6:eK0oQia4QiaiEO0m1BJFeA== [fileUNF]
Comparison between expansins found in the Expansin Engineering Database (ExED) and literature.
Expansin Engineering Database(Universität Stuttgart)
Apr 2, 2020Bioinformatics
Supporting information and original files for bioinformatic investigations using the Expansin Engineering Database (https://exed.biocatnet.de/)
Deep enzymology data related to Gao et al.: Comprehensive structure-function characterization of DNMT3B and DNMT3A reveals distinctive de novo DNA methylation mechanisms
Deep enzymology data related to Gao et al.: Comprehensive structure-function characterization of DNMT3B and DNMT3A reveals distinctive de novo DNA methylation mechanisms
Jan 30, 2020 - Amplicon based bisulfite NGS data
Jeltsch, Albert; Bashtrykov, Pavel; Emperle, Max; Adam, Sabrina; Dukatz, Michael, 2020, "Deep enzymology data related to Gao et al.: Comprehensive structure-function characterization of DNMT3B and DNMT3A reveals distinctive de novo DNA methylation mechanisms", https://doi.org/10.18419/darus-627, DaRUS, V1
Experimental procedures: Libraries of double stranded DNA substrates with CpG, CpH or CpN sites in randomized sequence context were methlyated by DNMT3A or DNMT3B. Reactions were stopped by shock freezing in liquid nitrogen, then treated with proteinase K for 2 hours. Afterwards,...
Deep enzymology data related to Adam et al.: DNA sequence-dependent activity and base flipping mechanisms of DNMT1 regulate genome-wide DNA methylation
Deep enzymology data related to Adam et al.: DNA sequence-dependent activity and base flipping mechanisms of DNMT1 regulate genome-wide DNA methylation
Jan 30, 2020 - Amplicon based bisulfite NGS data
Jeltsch, Albert; Bashtrykov, Pavel; Adam, Sabrina, 2020, "Deep enzymology data related to Adam et al.: DNA sequence-dependent activity and base flipping mechanisms of DNMT1 regulate genome-wide DNA methylation", https://doi.org/10.18419/darus-629, DaRUS, V1
Methylation of long hemimethylated DNA substrates: Methylation of the 349 bp long hemimethylated substrate with DNMT1 was carried out in 1X methylation buffer (100 mM HEPES, 1 mM EDTA, 0.5 mM DTT, 0.1 mg/mL BSA, pH 7.2 with KOH) in the presence of 1 mM AdoMet. For the methylation...
Deep enzymology data related to Adam et al.: DNA sequence-dependent activity and base flipping mechanisms of DNMT1 regulate genome-wide DNA methylation
Deep enzymology data related to Adam et al.: DNA sequence-dependent activity and base flipping mechanisms of DNMT1 regulate genome-wide DNA methylation
Jan 30, 2020 - Amplicon based bisulfite NGS data
Jeltsch, Albert; Bashtrykov, Pavel; Adam, Sabrina, 2020, "Deep enzymology data related to Adam et al.: DNA sequence-dependent activity and base flipping mechanisms of DNMT1 regulate genome-wide DNA methylation", https://doi.org/10.18419/darus-628, DaRUS, V1
Methylation of random flank substrates: Libraries of double stranded DNA substrates with unmethylated or hemimethylated CpG sites in randomized sequence context were methlyated by DNMT1. Reactions were stopped by shock freezing in liquid nitrogen, then treated with proteinase K f...
GraphML files for protein sequence networks of expansin homologues
Jan 30, 2020 - Expansin Engineering Database
Lohoff, Caroline, 2020, "GraphML files for protein sequence networks of expansin homologues", https://doi.org/10.18419/darus-624, DaRUS, V1
GraphML files for undirected weighted graphs with nodes that represent protein sequences of expansin homologues. Protein sequences were clustered by a threshold of sequence identity to derive representative sequences.Pairwise sequence identity between two sequences was derived fr...
Profile hidden Markov models of the ExED
Jan 30, 2020 - Expansin Engineering Database
Lohoff, Caroline, 2020, "Profile hidden Markov models of the ExED", https://doi.org/10.18419/darus-623, DaRUS, V1
Profile hidden Markov models and their underlying multiple sequence alignments for the N- and C-terminal protein domains of expansins.
Query sequences for the update of the ExED
Jan 30, 2020 - Expansin Engineering Database
Lohoff, Caroline; Buchholz, Patrick C. F., 2020, "Query sequences for the update of the ExED", https://doi.org/10.18419/darus-622, DaRUS, V1, UNF:6:eFcDsa8udm3F11lB7M2q6w== [fileUNF]
Query sequences for the individual BLAST searches used to update the Expansin Engineering Database (ExED, https://exed.biocatnet.de/).
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