cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.qj597/1
title: ForceConstantAnalysis_RawData

description: we analyzed structural stability of the regulatory regions in different functional states of the ErbB kinases and characterized  mutation-induced  changes in stability profiles that may be relevant for activation mechanisms.   For this analysis, we employed a number of complementary approaches, including the force constant profiling of   residue connectivity, the contact network analysis of residue closeness, the relative solvent accessibility (RSA) evaluation of local residue environment, and the network-based analysis of local contact density.  In the  ensemble-based force constant analysis, the equilibrium fluctuations of the mean distance between each residue and the rest of the protein were converted into force constants that measure the energy cost of   the residue displacement during equilibrium simulations.  The high force constants are typically associated with structurally stable residues that display small fluctuations in their distances to other residues   and often correspond to highly connect and effectively communicating rigid sites. Previous studies have linked structural stability of functionally   important residues  with their high connectivity, particularly  indicating that catalytic and binding site residues typically have high force constant values, which reflects functional constraints imposed on their movement.  Abrupt changes between maxima and minima in the force constant profiles   may be   associated with the  regions bridging structurally rigid and flexible regions, often pointing to the  hinge sites. The hypothesis tested in our analysis is that the R-spine  residues  could effectively mediate structural stability and allosteric interactions via regulatory regions.The analysis revealed that high force constant residues in the catalytic domain are assembled near the  αC-helix,  αE-helix and αF-helix regions  suggesting that structural stability of these structural elements may be critical for   allosteric coupling between regulatory regions
DOI: 10.5061/dryad.qj597/2
title: ProteinStructureNetworkAnalysis_RawData
DOI: 10.5061/dryad.27832/1
title: Arnold et al summary of data

description: Summary of main data used
DOI: 10.5061/dryad.51q03/1
title: Risk stratification delirium data

description: File in IBM SPSS Statistics version 22 format format including the data on the performance and agreement of nine commonly used risk stratification instruments for postoperative delirium in an independent validation cohort of 292 consecutive elective and emergency surgical patients aged ≥50 years with ≥1 risk factor for postoperative delirium.
DOI: 10.5061/dryad.51q03/2
title: Risk stratification delirium data

description: File in CSV format including the data on the performance and agreement of nine commonly used risk stratification instruments for postoperative delirium in an independent validation cohort of 292 consecutive elective and emergency surgical patients aged ≥50 years with ≥1 risk factor for postoperative delirium.
DOI: 10.5061/dryad.n244p/1
title: 1.raw sequence dataset of nulcear loci
DOI: 10.5061/dryad.n244p/2
title: 2.complete genetypic dataset of nuclear loci_for ABC analysis
DOI: 10.5061/dryad.n244p/3
title: 3.partial genetypic dataset of nuclear loci_for multilocus network analysis
DOI: 10.5061/dryad.n244p/4
title: 4. partial genetypic dataset of nuclear loci for species tree analysis
DOI: 10.5061/dryad.n244p/5
title: 5.dataset for evolutionary rate estimation
DOI: 10.5061/dryad.n244p/6
title: 6. mitochondrial raw sequences and haplotypic dataset
DOI: 10.5061/dryad.21pf0/1
title: SP_C1_f.fastq

description: quality trimmed RNAseq reads: Spain, 'crab' ecotype, sample 1, forward reads
DOI: 10.5061/dryad.21pf0/2
title: SP_C1_r.fastq

description: quality trimmed RNAseq reads: Spain, 'crab' ecotype, sample 1, reverse reads
DOI: 10.5061/dryad.21pf0/3
title: SP_C2_f.fastq

description: quality trimmed RNAseq reads: Spain, 'crab' ecotype, sample 2, forward reads
DOI: 10.5061/dryad.21pf0/10
title: SW_C1_r.fastq

description: quality trimmed RNAseq reads: Sweden, 'crab' ecotype, sample 1, reverse reads
DOI: 10.5061/dryad.21pf0/11
title: SW_C2_f.fastq

description: quality trimmed RNAseq reads: Sweden, 'crab' ecotype, sample 2, forward reads
DOI: 10.5061/dryad.21pf0/4
title: SP_C2_r.fastq

description: quality trimmed RNAseq reads: Spain, 'crab' ecotype, sample 2, reverse reads
DOI: 10.5061/dryad.21pf0/5
title: SP_W1_f.fastq

description: quality trimmed RNAseq reads: Spain, 'wave' ecotype, sample 1, forward reads
DOI: 10.5061/dryad.21pf0/6
title: SP_W1_r.fastq

description: quality trimmed RNAseq reads: Spain, 'wave' ecotype, sample 1, reverse reads
DOI: 10.5061/dryad.21pf0/7
title: SP_W2_f.fastq

description: quality trimmed RNAseq reads: Spain, 'wave' ecotype, sample 2, forward reads
DOI: 10.5061/dryad.21pf0/8
title: SP_W2_r.fastq

description: quality trimmed RNAseq reads: Spain, 'wave' ecotype, sample 2, reverse reads
DOI: 10.5061/dryad.21pf0/9
title: SW_C1_f.fastq

description: quality trimmed RNAseq reads: Sweden, 'crab' ecotype, sample 1, forward reads
DOI: 10.5061/dryad.21pf0/12
title: SW_C2_r.fastq

description: quality trimmed RNAseq reads: Sweden, 'crab' ecotype, sample 2, reverse reads
DOI: 10.5061/dryad.21pf0/13
title: SW_W1_f.fastq

description: quality trimmed RNAseq reads: Sweden, 'wave' ecotype, sample 1, forward reads
DOI: 10.5061/dryad.21pf0/14
title: SW_W1_r.fastq

description: quality trimmed RNAseq reads: Sweden, 'wave' ecotype, sample 1, reverse reads
DOI: 10.5061/dryad.21pf0/15
title: SW_W2_f.fastq

description: quality trimmed RNAseq reads: Sweden, 'wave' ecotype, sample 2, forward reads
DOI: 10.5061/dryad.21pf0/16
title: SW_W2_r.fastq

description: quality trimmed RNAseq reads: Sweden, 'wave' ecotype, sample 2, reverse reads
DOI: 10.5061/dryad.21pf0/17
title: UK_C1_f.fastq

description: quality trimmed RNAseq reads: United Kingdom, 'crab' ecotype, sample 1, forward reads
DOI: 10.5061/dryad.21pf0/18
title: UK_C1_r.fastq

description: quality trimmed RNAseq reads: United Kingdom, 'crab' ecotype, sample 1, reverse reads
DOI: 10.5061/dryad.21pf0/19
title: UK_C2_f.fastq

description: quality trimmed RNAseq reads: United Kingdom, 'crab' ecotype, sample 2, forward reads
DOI: 10.5061/dryad.21pf0/20
title: UK_C2_r.fastq

description: quality trimmed RNAseq reads: United Kingdom, 'crab' ecotype, sample 2, reverse reads
DOI: 10.5061/dryad.21pf0/21
title: UK_W1_f.fastq

description: quality trimmed RNAseq reads: United Kingdom, 'wave' ecotype, sample 1, forward reads
DOI: 10.5061/dryad.21pf0/22
title: UK_W1_r.fastq

description: quality trimmed RNAseq reads: United Kingdom, 'wave' ecotype, sample 1, reverse reads
DOI: 10.5061/dryad.21pf0/23
title: UK_W2_f.fastq

description: quality trimmed RNAseq reads: United Kingdom, 'wave' ecotype, sample 2, forward reads
DOI: 10.5061/dryad.21pf0/24
title: UK_W2_r.fastq

description: quality trimmed RNAseq reads: United Kingdom, 'wave' ecotype, sample 2, reverse reads
DOI: 10.5061/dryad.21pf0/25
title: Littorina.mpileup

description: mpileup file of Littorina saxatilis RNAseq reads from 12 samples mapped to the reference genome. sample 1: Spain, crab ecotype, replicate 1. sample 2: Spain, crab ecotype, replicate 2. sample 3: Spain, wave ecotype, replicate 1. sample 4: Spain, wave ecotype, replicate 2. sample 5: Sweden, crab ecotype, replicate 1. sample 6: Sweden, crab ecotype, replicate 2. sample 7: Sweden, wave ecotype, replicate 1. sample 8: Sweden, wave ecotype, replicate 2. sample 9: UK, crab ecotype, replicate 1. sample 10: UK, crab ecotype, replicate 2. sample 11: UK, wave ecotype, replicate 1. sample 12: UK, wave ecotype, replicate 2.
DOI: 10.5061/dryad.21pf0/27
title: Littorina_analysed_genome_contigs.fasta

description: Contains the 6790 Littorina saxatilis genome contigs to which RNAseq reads could be mapped and that passed filters. These are the contigs that outlier analyses in the paper are based on.
DOI: 10.5061/dryad.82k0q/1
title: Appendix_1
DOI: 10.5061/dryad.82k0q/2
title: MrBayes_ND_Commands
DOI: 10.5061/dryad.82k0q/3
title: MrBayes_TD_Commands
DOI: 10.5061/dryad.82k0q/4
title: Supplementary_Files
DOI: 10.5061/dryad.284tf/1
title: data_123801SNP
DOI: 10.5061/dryad.82k0q/5
title: Trees_TD_ND
DOI: 10.5061/dryad.rn583/1
title: Table S1 Summary of the 100 maize inbred lines
DOI: 10.5061/dryad.rn583/2
title: Table S2 Summary statistics for the 1057 informative SNP markers identified from the 1151-SNPs
DOI: 10.5061/dryad.rn583/3
title: Table S3 Inbred lines with their proportional memberships in the model-based subgroups determined by structure
DOI: 10.5061/dryad.rn583/4
title: Table S4 Markers with missing alleles identified in INERA collection compared with CIMMYT, IITA and Temperate germplasm collections
DOI: 10.5061/dryad.cv46n/1
title: cbc.growth
DOI: 10.5061/dryad.cv46n/2
title: cbc.abund
DOI: 10.5061/dryad.cv46n/3
title: cbc.2010.abund
DOI: 10.5061/dryad.cv46n/4
title: bbs.growth
DOI: 10.5061/dryad.cv46n/5
title: bbs.abund
DOI: 10.5061/dryad.m62gj/1
title: Database S1

description: Database S1 is an Excel spreadsheet that contains data from all studies of deforestation in wetland catchments during the Holocene. These are the papers used in the meta-analysis. All sites examined by each paper are listed. This information was extracted from published, peer-reviewed journal articles
DOI: 10.5061/dryad.m62gj/2
title: Database S2

description: Database S2 contains information on specific sites where hydrological changes have occurred after deforestation.This information was extracted from published, peer-reviewed journal articles listed in Database S1
DOI: 10.5061/dryad.m62gj/3
title: Database S3

description: This information was extracted from published, peer-reviewed journal articles. Database S3 contains information relating to the meta-analysis.Database S3 contains information from each site where deforestation and wetland change data is available. Post-deforestation wetland changes are identified including; a change in sedimentation rate, eutrophication or change in hydrology.
DOI: 10.5061/dryad.7hs24/1
title: All data

description: Note: Supplementary data is included in the data on vertical tranmission
DOI: 10.5061/dryad.j4d15/1
title: Supplementary_material_MER-14-0280.R1

description: Supplementary material MER-14-0280.R1
DOI: 10.5061/dryad.rn5c0/1
title: RMark Survival Estimation for Chilko 2012

description: This file contains the R script used to estimate survival of Chilko Lake sockeye smolts with a Cormack-Jolly-Seber model using Program MARK via RMark.
DOI: 10.5061/dryad.rn5c0/2
title: CH_RMark Chilko sockeye survival

description: This file contains the capture histories (CH), or technically the detection histories, for acoustic tagged Chilko Lake sockeye. This file is called by the accompanying R script to produce survival and detection probabilities.
DOI: 10.5061/dryad.rn5c0/3
title: Delta_Method_for_Chilko2012

description: This file contains the R script used to estimate the variance on the Chilko sockeye cumulative survival estimates using the delta method.
DOI: 10.5061/dryad.rn5c0/4
title: Chilko Lake sockeye survival estimates

description: This file contains the Chilko Lake sockeye CJS survival estimates which are used to calculate cumulative survival. This file is called by the accompanying delta method R script.
DOI: 10.5061/dryad.rn5c0/5
title: VCV matrix

description: This file contains the Chilko Lake sockeye CJS variance-covariance estimates which are used to calculate the variance on cumulative survival estimates. This file is called by the accompanying delta method R script.
DOI: 10.5061/dryad.rn5c0/7
title: Jeffries et al. Chilko Lake Sockeye Salmon Smolt data summary

description: This file summarizes data collected on acoustic tagged Chilko Lake sockeye salmon smolts including tag ID, length, weight, fish IDs for qPRC analysis, survival group and detection history.
DOI: 10.5061/dryad.rn5c0/10
title: Jeffries et al. qPCR results for 2012 2 yr old smolt gene expression assays

description: This file contains the qPCR results from the 50 genes that were assayed in gill tissue collected from 2 year old Chilko Lake sockeye salmon smolts in 2012.
DOI: 10.5061/dryad.rn5c0/8
title: Jeffries et al. Data from laboratory gill sampling validation study

description: This file contains the data from a preliminary study on smolt-sized sockeye salmon to validate that gill sampling and tagging fish would have minimal effect on survival.
DOI: 10.5061/dryad.rn5c0/9
title: Jeffries et al. qPCR results for Pathogen screening

description: This file contains the qPCR results from the pathogen screening conducted on gill samples from 2012 2 year old Chilko Lake sockeye salmon smolts, and archived gill samples of fish from the same cohort, a co-migrating cohort, or the parent generation.
DOI: 10.5061/dryad.rh04m/1
title: big_table

description: table file that combines all information of each contig, including annotation, taxonomy and FPKM
DOI: 10.5061/dryad.m7m4r/1
title: Supplementary information 1_LA_SA Togashi dataset

description: Huber Value dataset for 183 evergreen angiosperm trees in Australia
DOI: 10.5061/dryad.d5jc3/1
title: Dated and scaled phylogeny

description: Dated chronogram used for analyses, rescaled to unit total length, and with associated ancestral character states for habitat use obtained using maximum likelihood.
DOI: 10.5061/dryad.d5jc3/2
title: Female trait means per species

description: Species means of log-transformed trait values for females.
DOI: 10.5061/dryad.d5jc3/3
title: Male trait means per species

description: Species means of log-transformed trait values for females, based on the 10 largest individuals per species.
DOI: 10.5061/dryad.3jh4r/1
title: fitness_data

description: Fitness measures from replicate reproductive success assays. 25 mutant (MA) genotypes; 25 control (non-MA) genotypes; two sexes; three inoculation treatments (infection levels). These data are made available in two file formats, for use with Numbers or Excel.
DOI: 10.5061/dryad.3jh4r/2
title: immediately_plated_bacterial_counts

description: Bacterial counts taken from diluted homogenate of males and females immediately following inoculation.  These data are made available in two file formats, for use with Numbers or Excel.
DOI: 10.5061/dryad.t4jd0/1
title: Myers_etal_SuppText

description: Supplemental text with additional information regarding ENM/paleoENM methodology.
DOI: 10.5061/dryad.t4jd0/2
title: Myers_etal_SuppTable1

description: Supplemental table including stratigraphic correlations and associated references for fossil-bearing formations in the Late Cretaceous Western Interior Seaway of the US.
DOI: 10.5061/dryad.kr85t/1
title: PrudicEtAl_PRSB_Data

description: All data (3 experiments) reported in the paper
DOI: 10.5061/dryad.0g0t0/3
title: Table_S1_Hylastes_damage_summary_SuppInfo

description: Supplementary information - seedling damage survey - table of results
DOI: 10.5061/dryad.0g0t0/4
title: Appendix_S1_Hylastes_damage_survey_SuppInfo

description: Supplementary information - seedling damage survey
DOI: 10.5061/dryad.8dq25/1
title: data used for analyses

description: data used for analyses
DOI: 10.5061/dryad.fp3fp/1
title: ast_feces_unfiltered
DOI: 10.5061/dryad.fp3fp/2
title: gh_feces_unfiltered
DOI: 10.5061/dryad.fp3fp/3
title: poa_feces_unfiltered
DOI: 10.5061/dryad.fp3fp/4
title: mav_feces_unfiltered
DOI: 10.5061/dryad.fp3fp/5
title: reference_db_gh

description: Sequences of the reference database of the P6 loop of the chloroplast trnL (UAA) intron
DOI: 10.5061/dryad.fp3fp/6
title: reference_db_ITS_Asteraceae

description: Sequences of the reference database of the ITS1 molecular marker of Asteraceae
DOI: 10.5061/dryad.fp3fp/7
title: reference_db_ITS_Poaceae

description: Sequences of the reference database of the ITS1 molecular marker of Poaceae
DOI: 10.5061/dryad.s9652/1
title: reference_pixels_raw

description: The file contains the raw data of the reference pixel classification by an operator. Column description: id: unique id refering to a single reference pixel / pic: the picture where the pixel derived from originally / x, y: x- and y- coordinates of the pixles within the pixture / gvcl: One of 16 gray value classes used for the stratified sampling approach to select the reference pixels / r, g, b: the red, green and blue gray value of the pixel (8-bit) / class: classification of the pixel by a human operator
DOI: 10.5061/dryad.s9652/2
title: thresholds

description: The file contains thresholds of the hemispherical photographs which have been used in the publications. For details about the thresholding algorithms see the methodology section of the paper.
DOI: 10.5061/dryad.s9652/3
title: hemispherical_photographs

description: The processed hemispherical photographs. The original photographs were cropped and LZW-compressed to save memory but are not modified in any other way. The filenames indicate the site number and the used exposure protocol. 'auto_exp' stands for the automatic exposure settings of the camera. 'hist_exp' stands for the histogram exposure protocol introduced by Beckschäfer et al. (2013) (DOI:10.3832/ifor0957-006). The camera was a Nikon D70s DSLR camera equipped with a Sigma Circular Fisheye 4.5 mm 1:2.8 lens with a field of view of 180°.
DOI: 10.5061/dryad.s9652/5
title: accuracy_estimates

description: The file contains accuracy estimates of binarization algorithms of hemispherical photographs. Column description: pic: the name of the picture. From row 142 statistics over all pictures are given. / 'sub' refers to a subset of pictures without sites VIII and IX. 'all' refers to all pictures without exclusion. / bin: name of the algorithms. See the methodology section of the publication for details / pc: percentage correct estimate / var_pc: variance of pc / lower_pc: lower bound of the confidence interval of pc / upper_pc: upper bound of the confidence interval of pc / kap: kappa estimate / var_kap: variance of kappa / lower_kap: lower bound of the confidence interval of kappa / upper_kap: upper bound of the confidence interval of kappa
DOI: 10.5061/dryad.4013p/1
title: elegans.assurance

description: excel file with multiple sheets, see readme text file for description of the data
DOI: 10.15468/dl.62jmkb
title: Occurrence Download

description: A dataset containing 2196 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Xanthostigma xanthostigma (Schummel, 1832)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 2196 records from 70 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0083202-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hxt554
title: Occurrence Download

description: A dataset containing 13211 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Corymbia maculata (Hook.) K.D.Hill & L.A.S.Johnson"
 ]
}

 The dataset includes 13211 records from 140 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0083204-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.smjadk
title: Occurrence Download

description: A dataset containing 29824 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Leptinotarsa decemlineata (Say, 1824)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 29824 records from 222 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0083205-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13368289
title: Dissolved CO2 Modulates the Electrochemical Capacitance on Gold Electrodes

description: The presence of CO2 at an electrified interface between an aqueous electrolyte and metal electrode is the prerequisite for many electrochemical CO2 capture technologies. To understand the behavior of dissolved CO2 at an aqueous electrified interface, we characterized the electrochemical interface of planar gold electrodes with cyclic voltammetry, electrochemical impedance spectroscopy (EIS), electrochemical surface plasmon resonance (EC-SPR), and attenuated total reflectance surface-enhanced infrared spectroscopy (ATR-SEIRAS). Under all investigated conditions, we  observed a decrease in the electrochemical capacitance upon saturation of the electrolyte with CO2, as compared to an electrolyte saturated with Ar. EIS and EC-SPR showed that this capacitance reduction was also potential dependent: it reached a minimum near the point of zero charge, and became more significant as the applied potential moved further away from the point of zero charge. Hybrid quantum-classical simulations of the gold/aqueous electrolyte interface indicate that bicarbonate decreases the capacitance and modifies the composition of the electric double layer. In addition to the binding of bicarbonate under positive bias, we propose that molecular CO2 can be induced by applied potential to concentrate in the diffuse layer of the electric double layer, leading to a reduction in the electrochemical capacitance under both negative and positive bias. This work advances the understanding of non-Faradaic effects of dissolved CO2 at aqueous electrified interfaces of relevance for electrochemical CO2 capture.
DOI: 10.5281/zenodo.13368290
title: Dissolved CO2 Modulates the Electrochemical Capacitance on Gold Electrodes

description: The presence of CO2 at an electrified interface between an aqueous electrolyte and metal electrode is the prerequisite for many electrochemical CO2 capture technologies. To understand the behavior of dissolved CO2 at an aqueous electrified interface, we characterized the electrochemical interface of planar gold electrodes with cyclic voltammetry, electrochemical impedance spectroscopy (EIS), electrochemical surface plasmon resonance (EC-SPR), and attenuated total reflectance surface-enhanced infrared spectroscopy (ATR-SEIRAS). Under all investigated conditions, we  observed a decrease in the electrochemical capacitance upon saturation of the electrolyte with CO2, as compared to an electrolyte saturated with Ar. EIS and EC-SPR showed that this capacitance reduction was also potential dependent: it reached a minimum near the point of zero charge, and became more significant as the applied potential moved further away from the point of zero charge. Hybrid quantum-classical simulations of the gold/aqueous electrolyte interface indicate that bicarbonate decreases the capacitance and modifies the composition of the electric double layer. In addition to the binding of bicarbonate under positive bias, we propose that molecular CO2 can be induced by applied potential to concentrate in the diffuse layer of the electric double layer, leading to a reduction in the electrochemical capacitance under both negative and positive bias. This work advances the understanding of non-Faradaic effects of dissolved CO2 at aqueous electrified interfaces of relevance for electrochemical CO2 capture.