cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.17305701
title: Additional file 1 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 1. COSNeti python module USAGE.md file for the integration of relative changes obtained by omics-technologies into Cryo-EM or crystallography based randomly sampled interaction networks of multi-protein complex structures. The module is composed of independent components, written as python scripts (found in the Modules folder), which can be run in batch with bash or python scripts (bash scripts are found in the Batch files’ folder).
DOI: 10.6084/m9.figshare.17305701.v1
title: Additional file 1 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 1. COSNeti python module USAGE.md file for the integration of relative changes obtained by omics-technologies into Cryo-EM or crystallography based randomly sampled interaction networks of multi-protein complex structures. The module is composed of independent components, written as python scripts (found in the Modules folder), which can be run in batch with bash or python scripts (bash scripts are found in the Batch files’ folder).
DOI: 10.6084/m9.figshare.17305707
title: Additional file 2 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 2. Nodes and edges structure of ribosomal networks from mmCIF entries 6SNT, 6GZ5 and 4V7E corresponding to Saccharomyces cerevisiae (Column N-S), Oryctolagus cuniculus (Column H-M) and Triticum aestivum (Column B-G). Each cell corresponds to one string representing a single contact that can be separated by the space character. The first element of the string is the source node, the second element the target node, the third element the number of contacts between them (edge weights), the fourth and fifth columns are color identifiers for the nodes in the networks as outlined in Figure 3.
DOI: 10.6084/m9.figshare.17305707.v1
title: Additional file 2 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 2. Nodes and edges structure of ribosomal networks from mmCIF entries 6SNT, 6GZ5 and 4V7E corresponding to Saccharomyces cerevisiae (Column N-S), Oryctolagus cuniculus (Column H-M) and Triticum aestivum (Column B-G). Each cell corresponds to one string representing a single contact that can be separated by the space character. The first element of the string is the source node, the second element the target node, the third element the number of contacts between them (edge weights), the fourth and fifth columns are color identifiers for the nodes in the networks as outlined in Figure 3.
DOI: 10.6084/m9.figshare.17305713
title: Additional file 3 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 3. Defined ribosomal regions at different walking lengths (WL). Optimized parameters were used, the °Angström threshold was 12, and the iteration number of the consensus sampling was 50 iterations. Tab A contains regions derived from the 6SNT yeast ribosome structure. Tab B contains regions derived from the 6GC5 rabbit ribosome structure. Both tabs contain the selected regions at varying walking lengths, from which Table 2 was built.
DOI: 10.6084/m9.figshare.17305713.v1
title: Additional file 3 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 3. Defined ribosomal regions at different walking lengths (WL). Optimized parameters were used, the °Angström threshold was 12, and the iteration number of the consensus sampling was 50 iterations. Tab A contains regions derived from the 6SNT yeast ribosome structure. Tab B contains regions derived from the 6GC5 rabbit ribosome structure. Both tabs contain the selected regions at varying walking lengths, from which Table 2 was built.
DOI: 10.6084/m9.figshare.17305722
title: Additional file 4 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 4. Baseline proportions for statistical testing of spatial enrichment in ribosome multiprotein complexes test case. (Columns F-H) Mammalian binary input necessary for intcryomics.py featuring changed rProtein paralogs with 1 and non-changed with 0. (Columns K-N) Yeast binary input necessary for intcryomics.py featuring changed rProtein paralogs with 1 and non-changed with 0. Non-tested cases are signaled with grey font. Prioritized and tested case are signaled with black font.
DOI: 10.6084/m9.figshare.17305722.v1
title: Additional file 4 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 4. Baseline proportions for statistical testing of spatial enrichment in ribosome multiprotein complexes test case. (Columns F-H) Mammalian binary input necessary for intcryomics.py featuring changed rProtein paralogs with 1 and non-changed with 0. (Columns K-N) Yeast binary input necessary for intcryomics.py featuring changed rProtein paralogs with 1 and non-changed with 0. Non-tested cases are signaled with grey font. Prioritized and tested case are signaled with black font.
DOI: 10.6084/m9.figshare.17305734.v1
title: Additional file 5 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 5. Community Detection within Graphs. R implementation of walktrap and eigenvector based models algorithms.
DOI: 10.6084/m9.figshare.17305734
title: Additional file 5 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 5. Community Detection within Graphs. R implementation of walktrap and eigenvector based models algorithms.
DOI: 10.6084/m9.figshare.17305743
title: Additional file 6 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 6. Modules or communities found in optimized ribosomal networks from mmCIF entries 6SNT and 6GZ5 corresponding to Saccharomyces cerevisiae (Column H-M) and Oryctolagus cuniculus (Column B-G). Three different contrasting algorithms were used to find communities across optimized ribosomal protein graphs. Namely, Infomap, walktrap and eigenvector based models. The resulting regions were then used to compare to those obtained from the COSNeti procedure as outlined in Table 3. Green highlights the exemplary PET region as was picked out by each algorithm.
DOI: 10.6084/m9.figshare.17305743.v1
title: Additional file 6 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 6. Modules or communities found in optimized ribosomal networks from mmCIF entries 6SNT and 6GZ5 corresponding to Saccharomyces cerevisiae (Column H-M) and Oryctolagus cuniculus (Column B-G). Three different contrasting algorithms were used to find communities across optimized ribosomal protein graphs. Namely, Infomap, walktrap and eigenvector based models. The resulting regions were then used to compare to those obtained from the COSNeti procedure as outlined in Table 3. Green highlights the exemplary PET region as was picked out by each algorithm.
DOI: 10.6084/m9.figshare.17305758.v1
title: Additional file 7 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 7. Percentage of sequence coverage modelled into the exemplary mmCIF/PDBx structures used to optimize the COSNeti workflow. (A) The yeast (Saccharomyces cerevisiae PDB ID: 6snt), (B) rabbit (Oryctolagus cuniculus PDB ID: 6GZ5) and (C) plant (Triticum aestivum PDB ID: 4v7e) ribosomal complexes. The assessment can be replicated in any structure using the python function check_cif_completeness.py as documented in (https://github.com/MSeidelFed/COSNet_i).
DOI: 10.6084/m9.figshare.17305758
title: Additional file 7 of $${\text{COSNet}}_i$$ COSNet i : ComplexOme-Structural Network Interpreter used to study spatial enrichment in metazoan ribosomes

description: Additional file 7. Percentage of sequence coverage modelled into the exemplary mmCIF/PDBx structures used to optimize the COSNeti workflow. (A) The yeast (Saccharomyces cerevisiae PDB ID: 6snt), (B) rabbit (Oryctolagus cuniculus PDB ID: 6GZ5) and (C) plant (Triticum aestivum PDB ID: 4v7e) ribosomal complexes. The assessment can be replicated in any structure using the python function check_cif_completeness.py as documented in (https://github.com/MSeidelFed/COSNet_i).
DOI: 10.6084/m9.figshare.17304641.v1
title: Macrophage community AIH is dependent on LPS dose

description: Contains all files required to create figure 1: Macrophage community AIH is dependent on LPS dose.WSPs can be loaded onto FlowJo. Gating strategy saved with the wsp file. Individual FCS files should be kept in the same folder as the wsp when working.
DOI: 10.6084/m9.figshare.17305833.v1
title: Additional file 3 of Cancer screening simulation models: a state of the art review

description: Additional file 3. Classifier training data.
DOI: 10.6084/m9.figshare.17305833
title: Additional file 3 of Cancer screening simulation models: a state of the art review

description: Additional file 3. Classifier training data.
DOI: 10.6084/m9.figshare.17305869
title: Additional file 3 of The oncogenic kinase NEK2 regulates an RBFOX2-dependent pro-mesenchymal splicing program in triple-negative breast cancer cells

description: Additional file 3: Supplemental Tables 3–5. Tables listing results of RNA-seq data analysis.
DOI: 10.6084/m9.figshare.17305869.v1
title: Additional file 3 of The oncogenic kinase NEK2 regulates an RBFOX2-dependent pro-mesenchymal splicing program in triple-negative breast cancer cells

description: Additional file 3: Supplemental Tables 3–5. Tables listing results of RNA-seq data analysis.
DOI: 10.6084/m9.figshare.17305875
title: Additional file 4 of The oncogenic kinase NEK2 regulates an RBFOX2-dependent pro-mesenchymal splicing program in triple-negative breast cancer cells

description: Additional file 4: Supplemental Table 6–8. Tables listing results of comparative analyses of RNA-seq data from this manuscript and data from TCGA and PMID: 28420690.
DOI: 10.6084/m9.figshare.17305893
title: Additional file 8 of Engaging citizens in the development of a health system performance assessment framework: a case study in Ireland

description: Additional file 8: Citizen panel’s suggestions of performance measures and performance-related topics.
DOI: 10.6084/m9.figshare.17305893.v1
title: Additional file 8 of Engaging citizens in the development of a health system performance assessment framework: a case study in Ireland

description: Additional file 8: Citizen panel’s suggestions of performance measures and performance-related topics.
DOI: 10.6084/m9.figshare.17305968
title: Additional file 4 of Glutamic acid reshapes the plant microbiota to protect plants against pathogens

description: Additional file 3. Strawberry anthosphere metagenome OTU data.
DOI: 10.6084/m9.figshare.17305968.v1
title: Additional file 4 of Glutamic acid reshapes the plant microbiota to protect plants against pathogens

description: Additional file 3. Strawberry anthosphere metagenome OTU data.
DOI: 10.6084/m9.figshare.17305974
title: Additional file 5 of Glutamic acid reshapes the plant microbiota to protect plants against pathogens

description: Additional file 4. Tomato rhizosphere metagenome OTU data.
DOI: 10.6084/m9.figshare.17305974.v1
title: Additional file 5 of Glutamic acid reshapes the plant microbiota to protect plants against pathogens

description: Additional file 4. Tomato rhizosphere metagenome OTU data.
DOI: 10.6084/m9.figshare.17306031
title: Additional file 1 of Identification of components in Kazakhstan honeys that correlate with antimicrobial activity against wound and skin infecting microorganisms

description: Additional file 1.
DOI: 10.6084/m9.figshare.17306031.v1
title: Additional file 1 of Identification of components in Kazakhstan honeys that correlate with antimicrobial activity against wound and skin infecting microorganisms

description: Additional file 1.
DOI: 10.5281/zenodo.5794772
title: Aplication of eco-enzyme from nutmeg, clove, and eucalyptus plant waste in inhibiting the growth of E. coli and S. aureus

description: That different plant wastes' eco-enzymes also had distinctive colors, where DP and DK were brown, BP was reddish-brown, while DC appeared blackish-brown and clear. These differences occur due to variations in the chemical composition of each material used. Furthermore, the acidic aroma from each eco-enzyme was derived from the decomposition of alcohol compounds into acetic acid during aerobic respiration. The aroma was distinctively different depending on the type of plant waste used. Eco-enzymes and commercial antiseptics also have different abilities to inhibit <em>E. coli</em> and <em>S. aureus </em>growth with the highest inhibition found in eco-enzymes made from eucalyptus leaf waste
DOI: 10.14457/cu.the.2013.2015
title: Catalytic activity of Pd loaded MCM-48
DOI: 10.14457/cu.the.2013.2016
title: Role of surface topography and protein adsorption on film scaffolds on bone cells behavior
DOI: 10.14457/cu.the.2013.2017
title: Deacetylation of chitin hydrogel by using solution plasma
DOI: 10.14457/cu.the.2013.2018
title: Sulfonated poly(2,6-Dimethyl-1,4-phenylene oxide)composite membrane filled by zeolite for direct methanol fuel cell
DOI: 10.14457/cu.the.2013.2019
title: Nucleation and plasticization dual functions of multi-branched poly(L-lactic acid) (PLLA) for PLA
DOI: 10.14457/cu.the.2013.2020
title: Alcohol fuels production by fermentation from chemical pretreatment and enzymatic saccharification of corncob
DOI: 10.14457/cu.the.2013.2021
title: Novel electrospun titanium (IV) oxide composite hollow fibers as anode in lithium-ion batteries
DOI: 10.6084/m9.figshare.17126582
title: MicroRNA data

description: Meta dataset
DOI: 10.6084/m9.figshare.17126582.v1
title: MicroRNA data

description: Meta dataset
DOI: 10.5281/zenodo.5793838
title: Supplementary data for analysing distributed temperature sensing (DTS) measurements from Helsinki, Finland

description: Supplementary data used in the analysis of distributed temperature sensing (DTS) measurements from Helsinki, Finland, as described in a journal article manuscript "Quantifying coastal urban surface layer structure using distributed temperature sensing in Helsinki, Finland". Eddy covariance, radiation and precipitation data is provided from the SMEAR III station by the Institute for Atmospheric and Earth System Research at the University of Helsinki under Creative Commons Attribution 4.0 International license (https://creativecommons.org/licenses/by/4.0/). The data can also be accessed programmatically via https://smear.avaa.csc.fi/. All SMEAR III data is time referenced to UTC+2. The 2-metre temperature data is provided by the Finnish Meteorological Institute under Creative Commons Attribution 4.0 International license (https://creativecommons.org/licenses/by/4.0/). All Finnish Meteorological Institute data is referenced to UTC.
DOI: 10.5281/zenodo.5793837
title: Supplementary data for analysing distributed temperature sensing (DTS) measurements from Helsinki, Finland

description: Supplementary data used in the analysis of distributed temperature sensing (DTS) measurements from Helsinki, Finland, as described in a journal article manuscript "Quantifying coastal urban surface layer structure using distributed temperature sensing in Helsinki, Finland". Eddy covariance, radiation and precipitation data is provided from the SMEAR III station by the Institute for Atmospheric and Earth System Research at the University of Helsinki under Creative Commons Attribution 4.0 International license (https://creativecommons.org/licenses/by/4.0/). The data can also be accessed programmatically via https://smear.avaa.csc.fi/. All SMEAR III data is time referenced to UTC+2. The 2-metre temperature data is provided by the Finnish Meteorological Institute under Creative Commons Attribution 4.0 International license (https://creativecommons.org/licenses/by/4.0/). All Finnish Meteorological Institute data is referenced to UTC.
DOI: 10.6084/m9.figshare.17304128.v1
title: MSEP

description: is the data source for the article "A multi-stage planning model for transitioning to low-carbon integrated electric power and natural gas systems".
DOI: 10.48370/ofd/x4ye6a/ppfqsb
title: HMW_Senecio_vernalis_Waldst._&_Kit._H_6545.jpg

description: :unav
DOI: 10.48370/ofd/x4ye6a
title: Starzec wiosenny (Senecio vernalis Waldst. Kit.), 6545

description: Herbarium
DOI: 10.48370/ofd/burbzk/ml3a6o
title: HMW_Senecio_vernalis_Waldst._&_Kit._H_5546.jpg

description: :unav
DOI: 10.48370/ofd/burbzk
title: Starzec wiosenny (Senecio vernalis Waldst. Kit.), 5546

description: Herbarium
DOI: 10.48370/ofd/7hdwjq/0jrtp6
title: HMW_Senecio_vernalis_Waldst._&_Kit._H_5231.jpg

description: :unav
DOI: 10.48370/ofd/7hdwjq
title: Starzec wiosenny (Senecio vernalis Waldst. Kit.), 5231

description: Herbarium
DOI: 10.48370/ofd/binwev/vs7bcm
title: HMW_Senecio_vernalis_Waldst._&_Kit._H_3011.jpg

description: :unav
DOI: 10.48370/ofd/binwev
title: Starzec wiosenny (Senecio vernalis Waldst. Kit.), 3011

description: Herbarium
DOI: 10.48370/ofd/yukxgg/s0e4yb
title: HMW_Senecio_vernalis_Waldst._&_Kit._H_2576.jpg

description: :unav
DOI: 10.48370/ofd/yukxgg
title: Starzec wiosenny (Senecio vernalis Waldst. Kit.), 2576

description: Herbarium
DOI: 10.48370/ofd/pgerxa/xwslyd
title: HMW_Senecio_vernalis_Waldst._&_Kit._H_2575.jpg

description: :unav
DOI: 10.48370/ofd/pgerxa
title: Starzec wiosenny (Senecio vernalis Waldst. Kit.), 2575

description: Herbarium
DOI: 10.48370/ofd/gnkdwc/xrzc7h
title: HMW_Senecio_vernalis_Waldst._&_Kit._H_1767.jpg

description: :unav
DOI: 10.48370/ofd/gnkdwc
title: Starzec wiosenny (Senecio vernalis Waldst. Kit.), 1767

description: Herbarium
DOI: 10.48370/ofd/pema2c/tt0z3p
title: HMW_Senecio_vernalis_Waldst._&_Kit._H_0711.jpg

description: :unav
DOI: 10.48370/ofd/pema2c
title: Starzec wiosenny (Senecio vernalis Waldst. Kit.), 711

description: Hebarium
DOI: 10.48370/ofd/1t8zhj/i700kj
title: HMW_Senecio_vernalis_Waldst._&_Kit._H_0325.jpg

description: :unav
DOI: 10.48370/ofd/1t8zhj
title: Starzec wiosenny (Senecio vernalis Waldst. Kit.), 325

description: Herbarium
DOI: 10.48370/ofd/l1j6xx/22gvki
title: HMW_Senecio_vernalis_Waldst._&_Kit._H_4201.jpg

description: :unav
DOI: 10.48370/ofd/l1j6xx
title: Starzec wiosenny (Senecio vernalis Waldst. Kit.), 4201

description: Herbarium
DOI: 10.48370/ofd/p881pg/jxfmxf
title: HMW_Senecio_vernalis_Waldst._&_Kit._H_2578.jpg

description: :unav
DOI: 10.48370/ofd/p881pg
title: Starzec wiosenny (Senecio vernalis Waldst. Kit.), 2578

description: Herbarium
DOI: 10.48370/ofd/eupbgu/lqcp14
title: HMW_Senecio_vernalis_Waldst._&_Kit._H_2574.jpg

description: :unav
DOI: 10.48370/ofd/eupbgu
title: Starzec wiosenny (Senecio vernalis Waldst. Kit.), 2574

description: Herbarium
DOI: 10.48370/ofd/rjksq3/xfwqfx
title: HMW_Senecio_viscosus_L._H_7165.jpg

description: :unav
DOI: 10.48370/ofd/rjksq3
title: Starzec lepki (Senecio viscosus L.), 7165

description: Herbarium
DOI: 10.48370/ofd/od93vm/dxziyr
title: HMW_Senecio_viscosus_L._H_7165.jpg

description: :unav
DOI: 10.48370/ofd/od93vm
title: Starzec lepki (Senecio viscosus L.), 7165

description: Herbarium
DOI: 10.48370/ofd/ihjesd/najjdr
title: HMW_Senecio_viscosus_L._H_1558.jpg

description: :unav
DOI: 10.48370/ofd/ihjesd
title: Starzec lepki (Senecio viscosus L.), 1558

description: Herbarium
DOI: 10.48370/ofd/ugyhtt/t2jzxv
title: HMW_Senecio_viscosus_L._H_3242.jpg

description: :unav
DOI: 10.48370/ofd/ugyhtt
title: Starzec lepki (Senecio viscosus L.), 3242

description: Herbarium
DOI: 10.48370/ofd/we4nty/gjyq7r
title: HMW_Serratula_tinctoria_L._H_5807.jpg

description: :unav
DOI: 10.48370/ofd/we4nty
title: Sierpik barwierski (Serratula tinctoria L.), 5807

description: Herbarium
DOI: 10.48370/ofd/pm4mcj/fjlezz
title: HMW_Serratula_tinctoria_L._H_0211.jpg

description: :unav
DOI: 10.48370/ofd/pm4mcj
title: Sierpik barwierski (Serratula tinctoria L.), 211

description: Herbarium
DOI: 10.48370/ofd/3fz4x8/s6d6wt
title: HMW_Serratula_tinctoria_L._H_7733.jpg

description: :unav
DOI: 10.48370/ofd/3fz4x8
title: Sierpik barwierski (Serratula tinctoria L.), 7733

description: Herbarium
DOI: 10.48370/ofd/ls8agk/kjsnf1
title: HMW_Serratula_tinctoria_L._H_3932.jpg

description: :unav
DOI: 10.48370/ofd/ls8agk
title: Sierpik barwierski (Serratula tinctoria L.), 3932

description: Herbarium
DOI: 10.48370/ofd/zxts2n/vqmvbp
title: HMW_Serratula_tinctoria_L._H_4695.jpg

description: :unav
DOI: 10.48370/ofd/zxts2n
title: Sierpik barwierski (Serratula tinctoria L.), 4695

description: Herbarium
DOI: 10.48370/ofd/wdovil/gigswb
title: HMW_Serratula_tinctoria_L._H_3921.jpg

description: :unav
DOI: 10.48370/ofd/wdovil
title: Sierpik barwierski (Serratula tinctoria L.), 3921

description: Herbarium
DOI: 10.48370/ofd/rsmu9g/0v824j
title: HMW_Serratula_tinctoria_L._H_0219.jpg

description: :unav
DOI: 10.48370/ofd/rsmu9g
title: Sierpik barwierski (Serratula tinctoria L.), 219

description: Herbarium
DOI: 10.17632/bpbnvvv3vm.1
title: CLEAR and CLARITY studies of secukinumab versus ustekinumab by body region

description: This is supplementary file of the manuscript titled "Lower limbs are the most difficult-to-treat body region of psoriasis patients:  Pooled analysis of CLEAR and CLARITY studies of secukinumab versus ustekinumab by body region"
DOI: 10.17632/5jw8wtm4hf.1
title: Evaporative cooling pad materials

description: dataset on materials thermal performance
DOI: 10.48370/ofd/wshaqp/k9dcjr
title: HMW_Senecio_vulgaris_L._H_6476.jpg

description: :unav
DOI: 10.17632/jks3znv54r.4
title: Metamorphic CO2 emissions from the southern Yadong-Gulu rift, Tibetan Plateau: Insights into deep carbon cycle in the India-Asia continental collision zone

description: This repository includes video files that show the discharge of hydrothermal waters and gases from Mengzha and Chaduo, southern Yadong-Gulu rift, Tibetan Plateau.
DOI: 10.48370/ofd/wshaqp
title: Starzec zwyczajny (Senecio vulgaris L.), 6476

description: Herbarium
DOI: 10.17632/4t5r5jhth7.1
title: Fenómeno techo de cristal en enfermería: revisión integrativa

description: Artículos analizados para la realización de una revisión integrativa.