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Publication Year: 2021 Author Affiliation: Universität Stuttgart

1 to 10 of 95 Results

Deep enzymology data related to Adam et al.: Flanking sequences influence the activity of TET1 and TET2 methylcytosine dioxygenases and affect genomic 5hmC patterns Dec 17, 2021 - Amplicon based bisulfite NGS data Jeltsch, Albert; Bashtrykov, Pavel; Adam, Sabrina, 2021, "Deep enzymology data related to Adam et al.: Flanking sequences influence the activity of TET1 and TET2 methylcytosine dioxygenases and affect genomic 5hmC patterns", https://doi.org/10.18419/darus-2114, DaRUS, V2 Experimental procedures for deep enzymology reactions with randomized substrates: For analysis of flanking sequence preferences of the TET enzymes, a similar approach as described for DNMTs (Emperle et al., 2019; Gao et al., 2020; Adam et al., 2020; Dukatz et al., 2020) was used....
GraphML files for sequence networks of PETases and PURases Dec 1, 2021 - PAZy Buchholz, Patrick C. F., 2021, "GraphML files for sequence networks of PETases and PURases", https://doi.org/10.18419/darus-2054, DaRUS, V1 The GraphML files contain the sequence networks and annotated metadata for protein sequences.
Profile hidden Markov model for PETase homologues Dec 1, 2021 - PAZy Buchholz, Patrick C. F., 2021, "Profile hidden Markov model for PETase homologues", https://doi.org/10.18419/darus-2055, DaRUS, V1, UNF:6:AEjnqfOrnimO5Q2xFDkQDw== [fileUNF] Sixteen protein sequences for enzymes with known activity against polyethylene terephthalate (PET) were clustered using CD-HIT to derive a reduced set of twelve centroid sequences. These twelve protein sequences were aligned in a structure-guided multiple sequence alignment by T-...
Data for: A Comparative Study of Visualizations for Multiple Time Series Dec 1, 2021 - Institut für Visualisierung und Interaktive Systeme Franke, Max; Knabben, Moritz; Lang, Julian; Koch, Steffen; Blascheck, Tanja, 2021, "Data for: A Comparative Study of Visualizations for Multiple Time Series", https://doi.org/10.18419/darus-2134, DaRUS, V1, UNF:6:jaMGOfSI5L/wPcnoJNKcaQ== [fileUNF] Study data of comparative study of visualizations for multiple time series including anonymized participant data from Prolific, data set generation scripts, source code for the study framework, and analysis scripts. This repository also serves as supplemental material for the pub...
Replication Data for: A Hard Templating Approach to Functional Mesoporous Poly(norborn-2-ene)-Based Monolithic Supports Nov 30, 2021 - SFB 1333 A1+B2 - Buchmeiser group, IPOC-MSF Acikalin, Hande; Ziegler, Felix; Buchmeiser, Michael, 2021, "Replication Data for: A Hard Templating Approach to Functional Mesoporous Poly(norborn-2-ene)-Based Monolithic Supports", https://doi.org/10.18419/darus-2243, DaRUS, V1, UNF:6:p82WcxeApActls7MElmKaA== [fileUNF] All primary data files of measurements and processed data of the journal article mentioned under related publications from Buchmeiser group can be found here. Further experimental for reproduction of experiments can be found in the Supporting Information. We report on the first R...
Replication data of Buchmeiser group for: "Confinement Effects for Efficient Macrocyclization Reactions with supported Cationic Molybdenum Imido Alkylidene N-Heterocyclic Carbene Complexes" Nov 30, 2021 - SFB 1333 A1+B2 - Buchmeiser group, IPOC-MSF Ziegler, Felix; Benedikter, Mathis; Wang, Dongren, 2021, "Replication data of Buchmeiser group for: "Confinement Effects for Efficient Macrocyclization Reactions with supported Cationic Molybdenum Imido Alkylidene N-Heterocyclic Carbene Complexes"", https://doi.org/10.18419/darus-2248, DaRUS, V1 All primary data files of measurements and processed data of the journal article mentioned under related publications from Buchmeiser group can be found here. The data is structured according to figures and schemes in the research article and contains the following data types: qp...
Data for: "Olefin Ring-closing Metathesis under Spatial Confinement and Continuous Flow" Nov 26, 2021 - SFB 1333 A1+B2 - Buchmeiser group, IPOC-MSF Ziegler, Felix, 2021, "Data for: "Olefin Ring-closing Metathesis under Spatial Confinement and Continuous Flow"", https://doi.org/10.18419/darus-1690, DaRUS, V1 The use of a 2nd-generation Hoveyda-Grubbs-type catalyst immobilized inside mesoporous silica for the application in selective macro(mono)cyclization (MMC) of an alpha,omega-diene under spatially confined and continuous-flow conditions. Data you will find: NMR-Data for the determ...
NGS data related to Bröhm et al.: Methylation of recombinant mononucleosomes by DNMT3A demonstrates efficient linker DNA methylation and a role of H3K36me3 Nov 25, 2021 - Amplicon based bisulfite NGS data Jeltsch, Albert; Bashtrykov, Pavel; Bröhm, Alexander; Dukatz, Michael; Adam, Sabrina, 2021, "NGS data related to Bröhm et al.: Methylation of recombinant mononucleosomes by DNMT3A demonstrates efficient linker DNA methylation and a role of H3K36me3", https://doi.org/10.18419/darus-1252, DaRUS, V2 Methylation experiments: For the competitive nucleosome methylation experiments, 0.6 pmol of each nucleosome variant were digested with MluI (NEB) for 60 min at 37°C in 10 µL NEB Cutsmart buffer (50 mM KOAc/20 mM Tris-acetate pH 7.9, 10 mM Magnesium Acetate, 100 µg/mL BSA) to rem...
Supplementary material for 'Umbrella sampling and double decoupling data for methanol binding to Candida antarctica lipase B' Nov 25, 2021 - Molecular Simulation Markthaler, Daniel; Hansen, Niels, 2021, "Supplementary material for 'Umbrella sampling and double decoupling data for methanol binding to Candida antarctica lipase B'", https://doi.org/10.18419/darus-2104, DaRUS, V1 This dataset contains all relevant simulation input files (topologies, coordinates, simulation parameters), generated simulation output (final configurations, time series of collective variables) together with scripts used for set-up and analysis of the umbrella sampling and doub...
Code of the tBME method Nov 24, 2021 - tBME project Hsueh, Han-Fang, 2021, "Code of the tBME method", https://doi.org/10.18419/darus-1836, DaRUS, V1 Code and data for the publication "Diagnosis of model errors with a sliding time-window Bayesian analysis" in Journal Water Resource Research (preprint https://arxiv.org/abs/2107.09399) . The folder "tau_plot" includes the files and data to generate the tBME analysis plots for Ca...

Deep enzymology data related to Adam et al.: Flanking sequences influence the activity of TET1 and TET2 methylcytosine dioxygenases and affect genomic 5hmC patterns

Dec 17, 2021 - Amplicon based bisulfite NGS data

Jeltsch, Albert; Bashtrykov, Pavel; Adam, Sabrina, 2021, "Deep enzymology data related to Adam et al.: Flanking sequences influence the activity of TET1 and TET2 methylcytosine dioxygenases and affect genomic 5hmC patterns", https://doi.org/10.18419/darus-2114, DaRUS, V2

Experimental procedures for deep enzymology reactions with randomized substrates: For analysis of flanking sequence preferences of the TET enzymes, a similar approach as described for DNMTs (Emperle et al., 2019; Gao et al., 2020; Adam et al., 2020; Dukatz et al., 2020) was used....

GraphML files for sequence networks of PETases and PURases

Dec 1, 2021 - PAZy

Buchholz, Patrick C. F., 2021, "GraphML files for sequence networks of PETases and PURases", https://doi.org/10.18419/darus-2054, DaRUS, V1

The GraphML files contain the sequence networks and annotated metadata for protein sequences.

Profile hidden Markov model for PETase homologues

Dec 1, 2021 - PAZy

Buchholz, Patrick C. F., 2021, "Profile hidden Markov model for PETase homologues", https://doi.org/10.18419/darus-2055, DaRUS, V1, UNF:6:AEjnqfOrnimO5Q2xFDkQDw== [fileUNF]

Sixteen protein sequences for enzymes with known activity against polyethylene terephthalate (PET) were clustered using CD-HIT to derive a reduced set of twelve centroid sequences. These twelve protein sequences were aligned in a structure-guided multiple sequence alignment by T-...

Data for: A Comparative Study of Visualizations for Multiple Time Series

Dec 1, 2021 - Institut für Visualisierung und Interaktive Systeme

Franke, Max; Knabben, Moritz; Lang, Julian; Koch, Steffen; Blascheck, Tanja, 2021, "Data for: A Comparative Study of Visualizations for Multiple Time Series", https://doi.org/10.18419/darus-2134, DaRUS, V1, UNF:6:jaMGOfSI5L/wPcnoJNKcaQ== [fileUNF]

Study data of comparative study of visualizations for multiple time series including anonymized participant data from Prolific, data set generation scripts, source code for the study framework, and analysis scripts. This repository also serves as supplemental material for the pub...

Replication Data for: A Hard Templating Approach to Functional Mesoporous Poly(norborn-2-ene)-Based Monolithic Supports

Nov 30, 2021 - SFB 1333 A1+B2 - Buchmeiser group, IPOC-MSF

Acikalin, Hande; Ziegler, Felix; Buchmeiser, Michael, 2021, "Replication Data for: A Hard Templating Approach to Functional Mesoporous Poly(norborn-2-ene)-Based Monolithic Supports", https://doi.org/10.18419/darus-2243, DaRUS, V1, UNF:6:p82WcxeApActls7MElmKaA== [fileUNF]

All primary data files of measurements and processed data of the journal article mentioned under related publications from Buchmeiser group can be found here. Further experimental for reproduction of experiments can be found in the Supporting Information. We report on the first R...

Replication data of Buchmeiser group for: "Confinement Effects for Efficient Macrocyclization Reactions with supported Cationic Molybdenum Imido Alkylidene N-Heterocyclic Carbene Complexes"

Nov 30, 2021 - SFB 1333 A1+B2 - Buchmeiser group, IPOC-MSF

Ziegler, Felix; Benedikter, Mathis; Wang, Dongren, 2021, "Replication data of Buchmeiser group for: "Confinement Effects for Efficient Macrocyclization Reactions with supported Cationic Molybdenum Imido Alkylidene N-Heterocyclic Carbene Complexes"", https://doi.org/10.18419/darus-2248, DaRUS, V1

All primary data files of measurements and processed data of the journal article mentioned under related publications from Buchmeiser group can be found here. The data is structured according to figures and schemes in the research article and contains the following data types: qp...

Data for: "Olefin Ring-closing Metathesis under Spatial Confinement and Continuous Flow"

Nov 26, 2021 - SFB 1333 A1+B2 - Buchmeiser group, IPOC-MSF

Ziegler, Felix, 2021, "Data for: "Olefin Ring-closing Metathesis under Spatial Confinement and Continuous Flow"", https://doi.org/10.18419/darus-1690, DaRUS, V1

The use of a 2nd-generation Hoveyda-Grubbs-type catalyst immobilized inside mesoporous silica for the application in selective macro(mono)cyclization (MMC) of an alpha,omega-diene under spatially confined and continuous-flow conditions. Data you will find: NMR-Data for the determ...

NGS data related to Bröhm et al.: Methylation of recombinant mononucleosomes by DNMT3A demonstrates efficient linker DNA methylation and a role of H3K36me3

Nov 25, 2021 - Amplicon based bisulfite NGS data

Jeltsch, Albert; Bashtrykov, Pavel; Bröhm, Alexander; Dukatz, Michael; Adam, Sabrina, 2021, "NGS data related to Bröhm et al.: Methylation of recombinant mononucleosomes by DNMT3A demonstrates efficient linker DNA methylation and a role of H3K36me3", https://doi.org/10.18419/darus-1252, DaRUS, V2

Methylation experiments: For the competitive nucleosome methylation experiments, 0.6 pmol of each nucleosome variant were digested with MluI (NEB) for 60 min at 37°C in 10 µL NEB Cutsmart buffer (50 mM KOAc/20 mM Tris-acetate pH 7.9, 10 mM Magnesium Acetate, 100 µg/mL BSA) to rem...

Supplementary material for 'Umbrella sampling and double decoupling data for methanol binding to Candida antarctica lipase B'

Nov 25, 2021 - Molecular Simulation

Markthaler, Daniel; Hansen, Niels, 2021, "Supplementary material for 'Umbrella sampling and double decoupling data for methanol binding to Candida antarctica lipase B'", https://doi.org/10.18419/darus-2104, DaRUS, V1

This dataset contains all relevant simulation input files (topologies, coordinates, simulation parameters), generated simulation output (final configurations, time series of collective variables) together with scripts used for set-up and analysis of the umbrella sampling and doub...

Code of the tBME method

Nov 24, 2021 - tBME project

Hsueh, Han-Fang, 2021, "Code of the tBME method", https://doi.org/10.18419/darus-1836, DaRUS, V1

Code and data for the publication "Diagnosis of model errors with a sliding time-window Bayesian analysis" in Journal Water Resource Research (preprint https://arxiv.org/abs/2107.09399) . The folder "tau_plot" includes the files and data to generate the tBME analysis plots for Ca...

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