cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.31423528.v1
title: Additional file 3 of Genome-wide investigation of SnRK2 gene family in two jute species: Corchorus olitorius and Corchorus capsularis

description: Additional file 3: Table S1. Details of RNA-Seq transcriptome data used for expression analysis of SnRK2 genes in C. capsularis and C. olitorius. Table S2. Identity percentage of similarity in amino acid sequence of paralogous SnRK2 genes. Table S3. Length of the second through the eight exons of SnRK2 genes (data as gff3 format). Table S4. Structural analyses of the SnRK2 proteins in both Corchorus species. Table S5. Gene Ontology (GO) annotation details for Co and CcSnRK2 proteins in both Corchorus species. Table S6. Promoter analysis of SnRK2s genes of two jute species using PlantCare database. Table S7. Promoter analysis of SnRK2s genes of two jutre species using PLACE database. Table S8. Differentially expressed SnRK2 genes in in different plant parts (a), and against waterlogging (b), Salinity (c) & Drought (d) condition. Table S9. Genome-wide identification and classification of SnRK2 genes in 21 plant species.
DOI: 10.13018/bmr50835
title: SARS-CoV-2 Nucleocapsid 1-209 35 C
DOI: 10.13018/bmr50836
title: 1H, 13C, and 15N resonance assignments of Magnesium bound Calmodulin
DOI: 10.13018/bmr50837
title: 1H, 13C, and 15N resonance assignments of Mg2+-Calmodulin bound to BP2 derived from the STRA6 vitamin A transporter
DOI: 10.13018/bmr50839
title: NMR backbone resonance assignment of Japanese encephalitis virus capsid protein
DOI: 10.13018/bmr50842
title: Solution structure of Miz-1 Zinc fingers 10 to 12
DOI: 10.13018/bmr50845
title: Prefoldin Pyrococcus Horikoshii
DOI: 10.13018/bmr50846
title: Imino resonance assignment of murine Ox40 mRNA 3'UTR
DOI: 10.13018/bmr50847
title: ZEBRA-responsive element 2 DNA
DOI: 10.13018/bmr50848
title: methylated ZEBRA-responsive element 2 DNA
DOI: 10.13018/bmr50849
title: 1H, 13C, and 15N resonance assignments of Mg2+/Ca2+-Calmodulin bound to BP2 derived from the STRA6 vitamin A transporter
DOI: 10.13018/bmr50850
title: 1H, 13C, and 15N resonance assignments of Calmodulin bound to peptides derived from the STRA6 vitamin A transporter in the absence and presence of divalent metal ions
DOI: 10.13018/bmr50851
title: 1H, 13C, and 15N resonance assignments of Calmodulin bound to peptides derived from the STRA6 vitamin A transporter in the absence and presence of divalent metal ions
DOI: 10.13018/bmr50852
title: Sequential backbone assignment of mature a-Synuclein fibrils prepared from a-helical intermediate species
DOI: 10.13018/bmr50853
title: Heme chemical shifts assignment of the PpcBF6L from Geobacter sulfurreducens
DOI: 10.13018/bmr50855
title: Heme chemical shifts assignment of the PpcEF6L from Geobacter sulfurreducens
DOI: 10.13018/bmr50858
title: TIM91012
DOI: 10.13018/bmr50859
title: Tim9
DOI: 10.13018/bmr50860
title: Tim9 reduced
DOI: 10.13018/bmr50861
title: Tim10
DOI: 10.13018/bmr50862
title: Tim10
DOI: 10.6084/m9.figshare.31423570
title: Additional file 1 of Baculovirus displaying SARS-CoV-2 spike RBD promotes neutralizing antibody production in a mouse model

description: Additional file 1: Table S1. Vaccines are adopted in several systems and have different immune responses.
DOI: 10.6084/m9.figshare.31423570.v1
title: Additional file 1 of Baculovirus displaying SARS-CoV-2 spike RBD promotes neutralizing antibody production in a mouse model

description: Additional file 1: Table S1. Vaccines are adopted in several systems and have different immune responses.
DOI: 10.13018/bmr50863
title: Tim12
DOI: 10.6084/m9.figshare.31423579
title: Additional file 4 of Baculovirus displaying SARS-CoV-2 spike RBD promotes neutralizing antibody production in a mouse model

description: Additional file 4. S4_ ELISA plate reader raw dataR1.
DOI: 10.6084/m9.figshare.31423579.v1
title: Additional file 4 of Baculovirus displaying SARS-CoV-2 spike RBD promotes neutralizing antibody production in a mouse model

description: Additional file 4. S4_ ELISA plate reader raw dataR1.
DOI: 10.13018/bmr50864
title: Tim12
DOI: 10.13018/bmr50865
title: Complex of the CBP TAZ1 domain and a CITED2-HIF-1alpha fusion peptide
DOI: 10.13018/bmr50866
title: CITED2-HIF-1alpha fusion peptide
DOI: 10.15468/dl.p373wz
title: Occurrence Download

description: A dataset containing 763 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Phyllopezus pollicaris)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 763 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003631-260225131425191/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13018/bmr50867
title: Complex of the CBP TAZ1 domain and a CITED2-HIF-1alpha fusion peptide (L63A)
DOI: 10.13018/bmr50868
title: SOCS2-SH2_GHRpY
DOI: 10.13018/bmr50869
title: SOCS2-SH2_GHRpY_F3
DOI: 10.13018/bmr50870
title: NUDT9 - ADPR complex
DOI: 10.13018/bmr50871
title: A peptide with high affinity for B-Cell lymphoma2(Bcl-2)
DOI: 10.13018/bmr50872
title: Structural description of DNA target search by a disordered transcription factor
DOI: 10.13018/bmr50873
title: Structural description of DNA target search by a disordered transcription factor
DOI: 10.5281/zenodo.17610211
title: Data for the 2025 Evaluation of Experimental Reaction Rates (ETR25)

description: The 2025 Evaluation of Experimental Thermonuclear Reaction Rates (ETR25) is a peer-reviewed study that is carried out by C. Iliadis, R. Longland, K. Setoodehnia, C. Marshall, P. Mohr and A. Psaltis and is published here. In this study, 69 non-Bayesian, thermonuclear reaction rates in the A=2-40 mass region are evaluated for stellar temperatures of 1 MK to 10 GK. These reaction rates are based on experimental input. Each evaluated reaction rate is associated with a RatesMC.in and a TMatch.HF input data files that are used along with the RatesMC computer code to produce the RatesMC.out or TMatch.out output files that contain the tabulated reaction rate. The TMatch.HF files are the Hauser-Feshbach TALYS rates computed by Stephane Goriely at elevated temperatures. 

This dataset contains the RatesMC.in input files, TMatch.HF, RatesMC.out and/or TMatch.out output files for the 2025 evaluation of experimental thermonuclear reaction rates. 

Installation instructions, dependencies, and details on how to run the RatesMC program can be found here and within the Training directory inside the RatesMC Github repository.

Please also visit:



the related Github page at: https://github.com/TUNL-Reaction-Rates-Group/2025-rates-evaluation

our ETR25 webpage at: https://astrodata.tunl.duke.edu/build/html/ETR25.html
DOI: 10.13018/bmr50880
title: CREB 285 to 315 apo
DOI: 10.5281/zenodo.17610210
title: Data for the 2025 Evaluation of Experimental Reaction Rates (ETR25)

description: The 2025 Evaluation of Experimental Thermonuclear Reaction Rates (ETR25) is a peer-reviewed study that is carried out by C. Iliadis, R. Longland, K. Setoodehnia, C. Marshall, P. Mohr and A. Psaltis and is published here. In this study, 69 non-Bayesian, thermonuclear reaction rates in the A=2-40 mass region are evaluated for stellar temperatures of 1 MK to 10 GK. These reaction rates are based on experimental input. Each evaluated reaction rate is associated with a RatesMC.in and a TMatch.HF input data files that are used along with the RatesMC computer code to produce the RatesMC.out or TMatch.out output files that contain the tabulated reaction rate. The TMatch.HF files are the Hauser-Feshbach TALYS rates computed by Stephane Goriely at elevated temperatures. 

This dataset contains the RatesMC.in input files, TMatch.HF, RatesMC.out and/or TMatch.out output files for the 2025 evaluation of experimental thermonuclear reaction rates. 

Installation instructions, dependencies, and details on how to run the RatesMC program can be found here and within the Training directory inside the RatesMC Github repository.

Please also visit:



the related Github page at: https://github.com/TUNL-Reaction-Rates-Group/2025-rates-evaluation

our ETR25 webpage at: https://astrodata.tunl.duke.edu/build/html/ETR25.html
DOI: 10.13018/bmr50886
title: Exenatide peptide
DOI: 10.13018/bmr50887
title: Backbone Assignments of HNH Nuclease from G. stearothermophilus Cas9
DOI: 10.13018/bmr50888
title: 1H 15N 13C chemical shift assignment of the construct of human ataxin-3 including residues 182-291
DOI: 10.13018/bmr50889
title: NMR backbone assignment of the mitochondrial membrane protein MPV17
DOI: 10.6084/m9.figshare.31423609
title: Additional file 2 of Functional characterization of hypothetical proteins from Monkeypox virus

description: Additional file 2: Supplementary Table 1 (Table S1). The table presents the 30 Hypothetical proteins of Monkeypox virus Zaire-96-I-16 along with the Uniprot Id, Locus tag and protein length. Supplementary Table 2 (Table S2): The table reports the physiochemical properties of 30 hypothetical proteins as predicted by Expasy’s Protparam server. Supplementary Table 3 (Table S3): The table details the list of predicted subcellular location and presence of transmembrane helices in 30 Hypothetical proteins. Supplementary Table 4 (Table S4): The table reports the function of 30 hypothetical proteins as predicted by Protein BLAST. Supplementary Table 5(Table S5): The table presents the function and functional domain of 30 Hypothetical proteins as annotated by SMART,Motif Scan, pfp- fundseqe, InterProscan, PFAM, CATH and Superfamily. Supplementary Table 6 (Table S6): The table entails the QMEANDisCo Global Score of the predicted 3 dimensional structure of 7 Hypothetical proteins. Supplementary Table 7 (Table S7): The table reports the Structure-Based Molecular Function and Structure-Based Biological Process of the 7 Hypothetical proteins from there predicted 3 dimensional structure. Supplementary Table 8 (Table S8): The table presents the ligand binding site prediction of 7 Hypothetical proteins of Monkeypox virus.
DOI: 10.6084/m9.figshare.31423609.v1
title: Additional file 2 of Functional characterization of hypothetical proteins from Monkeypox virus

description: Additional file 2: Supplementary Table 1 (Table S1). The table presents the 30 Hypothetical proteins of Monkeypox virus Zaire-96-I-16 along with the Uniprot Id, Locus tag and protein length. Supplementary Table 2 (Table S2): The table reports the physiochemical properties of 30 hypothetical proteins as predicted by Expasy’s Protparam server. Supplementary Table 3 (Table S3): The table details the list of predicted subcellular location and presence of transmembrane helices in 30 Hypothetical proteins. Supplementary Table 4 (Table S4): The table reports the function of 30 hypothetical proteins as predicted by Protein BLAST. Supplementary Table 5(Table S5): The table presents the function and functional domain of 30 Hypothetical proteins as annotated by SMART,Motif Scan, pfp- fundseqe, InterProscan, PFAM, CATH and Superfamily. Supplementary Table 6 (Table S6): The table entails the QMEANDisCo Global Score of the predicted 3 dimensional structure of 7 Hypothetical proteins. Supplementary Table 7 (Table S7): The table reports the Structure-Based Molecular Function and Structure-Based Biological Process of the 7 Hypothetical proteins from there predicted 3 dimensional structure. Supplementary Table 8 (Table S8): The table presents the ligand binding site prediction of 7 Hypothetical proteins of Monkeypox virus.
DOI: 10.13018/bmr50890
title: Backbone NMR assignments of the mitochondrial membrane protein MPV17 without cysteine residues
DOI: 10.13018/bmr50891
title: NMR backbone chemical shift assignments of the mitochondrial membrane protein MPV17 labeled with MMTS in DPC micelles
DOI: 10.13018/bmr50892
title: 1H, 13C, and 15N resonance assignments of Calmodulin bound to BP1 derived from the STRA6 vitamin A transporter
DOI: 10.13018/bmr50895
title: Chemical Shift Assignment of Human Alpha-Synuclein bound to SDS micelles
DOI: 10.13018/bmr50896
title: Chemical Shift Assignment of SDS micelle-bound alpha-synuclein homogeneusly modified with CEL
DOI: 10.13018/bmr50897
title: hDVL2 DEP (401-510)
DOI: 10.13018/bmr50898
title: hDVL2 DEP domain (401-510) S418E mutant
DOI: 10.48323/0xb0m-y3z19
title: Oxide Growth and Place-Exchange on Au(111) in Alkaline Electrolyte

description: Raw data for publication: DOI: 10.1021/acselectrochem.5c00505

 
description: Understanding the oxidation processes of noble metals is essential for the elaborate design of functional and stable materials for electrochemical applications, where electrocatalysis is currently central due to the need of efficient direct energy conversion devices. Single crystalline gold (Au(111)) is an important noble metal standard, as it has high relevance as electrocatalyst material and is best suited for the study of fundamental surface and interface processes due to its high nobility and the model applicability of the processes at its electrified solid/liquid interface. Under electrochemical conditions, Au(111) oxidation proceeds via a place-exchange mechanism, in which surface Au atoms exchange positions with adsorbed oxygen species. While this process is well studied in acidic media, where it results in the nucleation and growth of adatom and vacancy islands alongside partial dissolution, its behavior in alkaline media remains less explored. Here, we investigate the oxidation of Au(111) in 0.1 M NaOH, providing new insights into the oxidation process and associated surface restructuring mechanisms. Using electrochemical scanning tunneling microscopy, we directly observe the growth of a surface oxide layer across the Au(111) terraces, which reveals the slow, kinetically limited dynamics of the place-exchange process. Once this place-exchange process has occurred, the pristine surface structure is not restored upon electrochemical reduction within experimental timescales, as vacancy islands form and persist. These findings are crucial for developing strategies to mitigate catalyst degradation and enhance the stability of Au-based materials in electrochemical applications.
DOI: 10.48323/rwakc-a2940
title: Oxide Growth and Place-Exchange on Au(111) in Alkaline Electrolyte

description: Raw data for publication: DOI: 10.1021/acselectrochem.5c00505

 
description: Understanding the oxidation processes of noble metals is essential for the elaborate design of functional and stable materials for electrochemical applications, where electrocatalysis is currently central due to the need of efficient direct energy conversion devices. Single crystalline gold (Au(111)) is an important noble metal standard, as it has high relevance as electrocatalyst material and is best suited for the study of fundamental surface and interface processes due to its high nobility and the model applicability of the processes at its electrified solid/liquid interface. Under electrochemical conditions, Au(111) oxidation proceeds via a place-exchange mechanism, in which surface Au atoms exchange positions with adsorbed oxygen species. While this process is well studied in acidic media, where it results in the nucleation and growth of adatom and vacancy islands alongside partial dissolution, its behavior in alkaline media remains less explored. Here, we investigate the oxidation of Au(111) in 0.1 M NaOH, providing new insights into the oxidation process and associated surface restructuring mechanisms. Using electrochemical scanning tunneling microscopy, we directly observe the growth of a surface oxide layer across the Au(111) terraces, which reveals the slow, kinetically limited dynamics of the place-exchange process. Once this place-exchange process has occurred, the pristine surface structure is not restored upon electrochemical reduction within experimental timescales, as vacancy islands form and persist. These findings are crucial for developing strategies to mitigate catalyst degradation and enhance the stability of Au-based materials in electrochemical applications.
DOI: 10.6084/m9.figshare.31423627
title: Additional file 5 of Elastography in the assessment of the Achilles tendon: a systematic review of measurement properties

description: Additional file 5: Appendix 5. Articles methodology inconsistencies.
DOI: 10.6084/m9.figshare.31423627.v1
title: Additional file 5 of Elastography in the assessment of the Achilles tendon: a systematic review of measurement properties

description: Additional file 5: Appendix 5. Articles methodology inconsistencies.
DOI: 10.13018/bmr50899
title: 1HN, 13C, and 15N backbone resonance assignments of the dimerization and earmuff domains of SET/TAF-1B/I2PP2A (residues 23-225)
DOI: 10.13018/bmr50900
title: A peptide with high affinity for murine double minute2
DOI: 10.13018/bmr50901
title: SH3-PRR2 peptide complex
DOI: 10.13018/bmr50902
title: NMR structure of the antimicrobial RiLK1 peptide in SDS micelles
DOI: 10.13018/bmr50903
title: TCPTP residues 1-302
DOI: 10.13018/bmr50904
title: TCPTP residues 303-387
DOI: 10.34882/dezim.mindset-iat.download.1.0.0
title: MIND.set – Implicit Associations toward Arab and White Men (IAT)
DOI: 10.13018/bmr50905
title: TCPTP residues 303-387 RK variant
DOI: 10.13018/bmr50906
title: Chemical shifts of human Dss1
DOI: 10.13018/bmr50907
title: Rules for designing protein fold switches and their implications for the folding code
DOI: 10.13018/bmr50908
title: human CSNAP
DOI: 10.13018/bmr50909
title: Rules for designing protein fold switches and their implications for the folding code
DOI: 10.13018/bmr50910
title: Rules for designing protein fold switches and their implications for the folding code
DOI: 10.5281/zenodo.18787599
title: Influence of Extracellular Magnesium Ions on the Functional State and Biophysical and Structural Properties of Connexin36 Hemichannels

description: Molecular dynamics simulations of 1 microsecond (compressed) of Cnx WT and Cnx E49A, lipids and water were removed to reduce the file size.
DOI: 10.13018/bmr50912
title: Structure of the transmembrane domain of the CD28 dimer
DOI: 10.5281/zenodo.18787598
title: Influence of Extracellular Magnesium Ions on the Functional State and Biophysical and Structural Properties of Connexin36 Hemichannels

description: Molecular dynamics simulations of 1 microsecond (compressed) of Cnx WT and Cnx E49A, lipids and water were removed to reduce the file size.
DOI: 10.13018/bmr50913
title: PTP1B 1-301 L204A
DOI: 10.13018/bmr50914
title: Backbone (NH, CA, CB) chemical shifts of free ERH-2 from C.elegans
DOI: 10.13018/bmr50915
title: WT nsp1
DOI: 10.13018/bmr50916
title: Backbone 1H, 13C and 15N chemical shift assignments of HIV-1 p6.
DOI: 10.13018/bmr50917
title: The solution structure of human HEBP1
DOI: 10.13018/bmr50918
title: Isoleucine d1 methyl assignments for Actin bound with Ca-ATP
DOI: 10.6084/m9.figshare.31423666
title: Additional file 9 of In silico comparative structural and functional analysis of arsenite methyltransferase from bacteria, fungi, fishes, birds, and mammals

description: Additional file 9. Identification of probable signal sequences within enzymes.
DOI: 10.6084/m9.figshare.31423666.v1
title: Additional file 9 of In silico comparative structural and functional analysis of arsenite methyltransferase from bacteria, fungi, fishes, birds, and mammals

description: Additional file 9. Identification of probable signal sequences within enzymes.
DOI: 10.6084/m9.figshare.31423669
title: Additional file 10 of In silico comparative structural and functional analysis of arsenite methyltransferase from bacteria, fungi, fishes, birds, and mammals

description: Additional file 10. Studies on probable transmembrane helixes within enzymes.
DOI: 10.6084/m9.figshare.31423669.v1
title: Additional file 10 of In silico comparative structural and functional analysis of arsenite methyltransferase from bacteria, fungi, fishes, birds, and mammals

description: Additional file 10. Studies on probable transmembrane helixes within enzymes.
DOI: 10.13018/bmr50919
title: Assignment of MIL(ProS)V(ProS)A methyl group-labelled MNV P-domain
DOI: 10.5281/zenodo.18787736
title: TiledAttention on NVIDIA DGX GB10: Supplementary Benchmark and Nsight Compute Results

description: Description: This Zenodo record provides supplementary materials for the TiledAttention study, containing the full contents of benchmark-gb10/results from the TiledAttention repository. It includes benchmark and tile-tuning outputs (benchmark_results.csv, tuning_results.csv), reproducibility and sensitivity tables (table3_reproducibility.md, table4_tiling_sensitivity.md), study summary metadata, and Nsight Compute profiling artifacts (.ncu-rep and raw CSV exports) for representative attention workloads. The benchmarks cover sequence lengths $S={512,1024,2048,4096,8192}$, head dimensions $D={64,96,128,160}$, $float16$/$bfloat16$, and causal/non-causal modes; the baseline used in this environment is PyTorch SDPA (torch_sdpa). These files are intended to support reproducibility, independent analysis, and figure/table verification for the associated manuscript.

 

Code:  https://github.com/thisistaimur/TiledAttention/
DOI: 10.5281/zenodo.18787737
title: TiledAttention on NVIDIA DGX GB10: Supplementary Benchmark and Nsight Compute Results

description: Description: This Zenodo record provides supplementary materials for the TiledAttention study, containing the full contents of benchmark-gb10/results from the TiledAttention repository. It includes benchmark and tile-tuning outputs (benchmark_results.csv, tuning_results.csv), reproducibility and sensitivity tables (table3_reproducibility.md, table4_tiling_sensitivity.md), study summary metadata, and Nsight Compute profiling artifacts (.ncu-rep and raw CSV exports) for representative attention workloads. The benchmarks cover sequence lengths $S={512,1024,2048,4096,8192}$, head dimensions $D={64,96,128,160}$, $float16$/$bfloat16$, and causal/non-causal modes; the baseline used in this environment is PyTorch SDPA (torch_sdpa). These files are intended to support reproducibility, independent analysis, and figure/table verification for the associated manuscript.

 

Code:  https://github.com/thisistaimur/TiledAttention/
DOI: 10.13018/bmr50920
title: 1H, 13C, and 15N Chemical Shift Assignments of cAMP-Binding Domains A and B of the PKA Regulatory Subunit
DOI: 10.13018/bmr50921
title: Backbone resonance assignment of human HEBP2
DOI: 10.6084/m9.figshare.31423681
title: Additional file 1 of Potential role of PIM1 inhibition in the treatment of SARS-CoV-2 infection

description: Additional file 1: PPI prediction between PIM1 and the studied genes.
DOI: 10.6084/m9.figshare.31423681.v1
title: Additional file 1 of Potential role of PIM1 inhibition in the treatment of SARS-CoV-2 infection

description: Additional file 1: PPI prediction between PIM1 and the studied genes.
DOI: 10.13018/bmr50922
title: RNA91
DOI: 10.6084/m9.figshare.31423684
title: Additional file 2 of Potential role of PIM1 inhibition in the treatment of SARS-CoV-2 infection

description: Additional file 2: Functional PPI enrichments of the studied genes.
DOI: 10.6084/m9.figshare.31423684.v1
title: Additional file 2 of Potential role of PIM1 inhibition in the treatment of SARS-CoV-2 infection

description: Additional file 2: Functional PPI enrichments of the studied genes.
DOI: 10.13018/bmr50923
title: RNA90
DOI: 10.6084/m9.figshare.31423687.v1
title: Additional file 1 of Analysis of genetic diversity and population structure of Moroccan date palm (Phoenix dactylifera L.) using SSR and DAMD molecular markers

description: Additional file 1: Table S1. Latitude and longitude of collected accessions.
DOI: 10.13018/bmr50924
title: RNA89
DOI: 10.6084/m9.figshare.31423687
title: Additional file 1 of Analysis of genetic diversity and population structure of Moroccan date palm (Phoenix dactylifera L.) using SSR and DAMD molecular markers

description: Additional file 1: Table S1. Latitude and longitude of collected accessions.
DOI: 10.13018/bmr50925
title: RNA75
DOI: 10.13018/bmr50926
title: RNA74
DOI: 10.13018/bmr50927
title: RNA73