Automated Author Profile

Špunda, Vladimír

Department of Physics, Faculty of Science, University of Ostrava, 710 00 Ostrava, Czech Republic

Current S-Index

5.1

Sum of Dataset Indices for all datasets

Average Dataset Index per Dataset

0.9

Average Dataset Index per dataset

Total Datasets

6

Total datasets for this author

Average FAIR Score

78.2%

Average FAIR Score per dataset

Total Citations

0

Total citations to the author's datasets

Total Mentions

0

Total mentions of the author's datasets

S-Index Interpretation

S-Index Over Time

Cumulative Citations Over Time

Cumulative Mentions Over Time

Datasets

G-quadruplex in the gene of the large subunit of plant RNA polymerase II: billion years old story (Version: 05)

Supplementary material to the journal article Consist of: Supplementary material S1: Analyzed RPB1 sequences in 40 plant species together with detailed characteristics and G-quadruplex prediction using four different computational approaches. Supplementary material S2: G4 locus is the most conserved within the RPB1 gene (40 bp long potential G4 locus is the most conserved site in the whole ~ 6000 bp long RPB1 gene. See the histogram below the alignment: the position of the G4 locus is depicted, together with the horizontal red dashed line indicating relative nucleotide conservation among aligned sequences of RPB1) Supplementary material S3: Multiple alignment of G4 locus of RPB1 paralogs in Arabidopsis thaliana centered to G4 locus of RPB1 Supplementary material S4: Modelled 3D structure of G4 from Bathycoccus prasinos in PDB format Supplementary material S5: Gel electrophoresis and ThT staining of the selected G4-forming sequences Supplementary material S6: All analyzed RPB1 sequences in FASTA format Supplementary material S7: Aligned RPB1 sequences in FASTA format Supplementary material S8: RPB1 paralogs in Arabidopsis thaliana Supplementary material S9: Spectral composition of light used in the UV experiment. Analysis of emitted light was performed by Ocean Optics (HR4000CG-UV-NIR, USA) device. Supplementary material S10: Difference CD spectra - comparison without and with previous UV treatment

Authors

  • Volná, Adriana ;
  • Bartas, Martin ;
  • Karlický, Václav ;
  • Nezval, Jakub ;
  • Kundrátová, Kristýna ;
  • Pečinka, Petr ;
  • Špunda, Vladimír ;
  • Jiří Červeň
0 Citations0 Mentions79% FAIR0.3 Dataset Index
10.5281/zenodo.40749242021

G-quadruplex in the gene of the large subunit of plant RNA polymerase II: billion years old story (Version: 04)

Supplementary material to the journal article Consist of: Supplementary material S1: Analyzed RPB1 sequences in 40 plant species together with detailed characteristics and G-quadruplex prediction using four different computational approaches. Supplementary material S2: G4 locus is the most conserved within the RPB1 gene (40 bp long potential G4 locus is the most conserved site in the whole ~ 6000 bp long rpb1 gene. See the histogram below the alignment: the position of the G4 locus is depicted, together with the horizontal red dashed line indicating relative nucleotide conservation among aligned sequences of RPB1) Supplementary material S3: Multiple alignment of G4 locus of RPB1 paralogs in Arabidopsis thaliana centered to G4 locus of RPB1 Supplementary material S4: Modelled 3D structure of G4 from Bathycoccus prasinos in PDB format Supplementary material S5: Gel electrophoresis and ThT staining of the selected G4-forming sequences Supplementary material S6: All analyzed RPB1 sequences in FASTA format Supplementary material S7: Aligned RPB1 sequences in FASTA format Supplementary material S8: RPB1 paralogs in Arabidopsis thaliana Supplementary material S9: Spectral composition of light used in the UV experiment. Analysis of emitted light was performed by Ocean Optics (HR4000CG-UV-NIR, USA) device. Supplementary material S10: Difference CD spectra - comparison without and with previous UV treatment

Authors

  • Volná, Adriana ;
  • Bartas, Martin ;
  • Karlický, Václav ;
  • Nezval, Jakub ;
  • Kundrátová, Kristýna ;
  • Pečinka, Petr ;
  • Špunda, Vladimír ;
  • Jiří Červeň
0 Citations0 Mentions77% FAIR1.9 Dataset Index
10.5281/zenodo.49734622021

G-quadruplex in the gene of the large subunit of plant RNA polymerase II: billion years old story (Version: 05)

Supplementary material to the journal article Consist of: Supplementary material S1: Analyzed RPB1 sequences in 40 plant species together with detailed characteristics and G-quadruplex prediction using four different computational approaches. Supplementary material S2: G4 locus is the most conserved within the RPB1 gene (40 bp long potential G4 locus is the most conserved site in the whole ~ 6000 bp long RPB1 gene. See the histogram below the alignment: the position of the G4 locus is depicted, together with the horizontal red dashed line indicating relative nucleotide conservation among aligned sequences of RPB1) Supplementary material S3: Multiple alignment of G4 locus of RPB1 paralogs in Arabidopsis thaliana centered to G4 locus of RPB1 Supplementary material S4: Modelled 3D structure of G4 from Bathycoccus prasinos in PDB format Supplementary material S5: Gel electrophoresis and ThT staining of the selected G4-forming sequences Supplementary material S6: All analyzed RPB1 sequences in FASTA format Supplementary material S7: Aligned RPB1 sequences in FASTA format Supplementary material S8: RPB1 paralogs in Arabidopsis thaliana Supplementary material S9: Spectral composition of light used in the UV experiment. Analysis of emitted light was performed by Ocean Optics (HR4000CG-UV-NIR, USA) device. Supplementary material S10: Difference CD spectra - comparison without and with previous UV treatment

Authors

  • Volná, Adriana ;
  • Bartas, Martin ;
  • Karlický, Václav ;
  • Nezval, Jakub ;
  • Kundrátová, Kristýna ;
  • Pečinka, Petr ;
  • Špunda, Vladimír ;
  • Jiří Červeň
0 Citations0 Mentions79% FAIR0.3 Dataset Index
10.5281/zenodo.49735142021

G-quadruplex in the gene of the large subunit of plant RNA polymerase II: billion years old story (Version: 03)

Supplementary material to the journal article: Consist of: Difference CD spectra - comparison without and with previous UV treatment (Difference CD spectra - comparison without and with previous UV treatment.pdf) 40 bp long potential G4 locus is the most conserved site in the whole ~ 6000 bp long rpb1 gene. See the histogram below the alignment: the position of the G4 locus is depicted, together with the horizontal red dashed line indicating relative nucleotide conservation among aligned sequences of rpb1 (G4 locus is the most conserved within rpb1 gene.PNG) Prediction of G4-forming potential of inspected rpb1 locus(G4 sequences and scores.xlsx) Graphical abstract (Graphical abstract.PNG) PDB structure of modeled G-quadruplex structure (Modelled 3D structure of G4 from Bathycoccus prasinos.tar.gz) Multiple alignment of rpb1 paralogs (rpa1, rpc1, rpd1a, rpd1b) in Arabidopsis thaliana centered to G4 locus of rpb1 (Multiple_alignment_nrpsG4_arabidopsis.png) Multiple sequence alignment (using MUSCLE algorithm) of rpb1 CDS sequences (rpb1_aligned_sequences_all.txt) All 20 rpb1 CDS sequences in FASTA format (rpb1_sequences_all.txt) Five paralogs from Arabidopsis thaliana (rpa1,rpb1, rpc1, rpd1a, rpd1b) in FASTA format (rpbA_B_C_D sequences arabidopsis.txt) Gel electrophoresis and ThT staining of the selected G4-forming sequences

Authors

  • Volná, Adriana ;
  • Bartas, Martin ;
  • Karlický, Václav ;
  • Nezval, Jakub ;
  • Kundrátová, Kristýna ;
  • Pečinka, Petr ;
  • Špunda, Vladimír ;
  • Jiří Červeň
0 Citations0 Mentions77% FAIR1.9 Dataset Index
10.5281/zenodo.48179962021

G-quadruplex in the gene of the large subunit of plant RNA polymerase II: billion years old story (Version: 02)

Supplementary material to the journal article: Consist of: Difference CD spectra - comparison without and with previous UV treatment (Difference CD spectra - comparison without and with previous UV treatment.pdf) 40 bp long potential G4 locus is the most conserved site in the whole ~ 6000 bp long rpb1 gene. See the histogram below the alignment: the position of the G4 locus is depicted, together with the horizontal red dashed line indicating relative nucleotide conservation among aligned sequences of rpb1 (G4 locus is the most conserved within rpb1 gene.PNG) Prediction of G4-forming potential of inspected rpb1 locus(G4 sequences and scores.xlsx) Graphical abstract (Graphical abstract.PNG) PDB structure of modeled G-quadruplex structure (Modelled 3D structure of G4 from Bathycoccus prasinos.tar.gz) Multiple alignment of rpb1 paralogs (rpa1, rpc1, rpd1a, rpd1b) in Arabidopsis thaliana centered to G4 locus of rpb1 (Multiple_alignment_nrpsG4_arabidopsis.png) Multiple sequence alignment (using MUSCLE algorithm) of rpb1 CDS sequences (rpb1_aligned_sequences_all.txt) All 20 rpb1 CDS sequences in FASTA format (rpb1_sequences_all.txt) Five paralogs from Arabidopsis thaliana (rpa1,rpb1, rpc1, rpd1a, rpd1b) in FASTA format (rpbA_B_C_D sequences arabidopsis .txt)

Authors

  • Volná, Adriana ;
  • Bartas, Martin ;
  • Karlický, Václav ;
  • Nezval, Jakub ;
  • Kundrátová, Kristýna ;
  • Pečinka, Petr ;
  • Špunda, Vladimír ;
  • Jiří Červeň
0 Citations0 Mentions79% FAIR0.3 Dataset Index
10.5281/zenodo.45415732021

G-quadruplex in the gene of the large subunit of plant RNA polymerase II: billion years old story (Version: 01)

Supplementary material to the journal article: Consist of: Graphical abstract Multiple sequence alignment of sequences Difference CD spectra of UV experiment PDB structure of modelled G-quadruplex structure

Authors

  • Volná, Adriana ;
  • Bartas, Martin ;
  • Karlický, Václav ;
  • Nezval, Jakub ;
  • Kundrátová, Kristýna ;
  • Pečinka, Petr ;
  • Špunda, Vladimír ;
  • Jiří Červeň
0 Citations0 Mentions79% FAIR0.3 Dataset Index
10.5281/zenodo.40749252020