cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9275021
title: controlling_fossil_record_bias_phylogeography.zip

description: The fossil record provides direct empirical data for understanding macroevolutionary patterns and processes. Inherent biases in the fossil record are well known to confound analyses of this data. Sampling bias proxies have been used as covariates in regression models to test for such biases. Proxies, such as formation count, are associated with paleobiodiversity, but are insufficient for explaining species dispersal owing to a lack of geographic context. Here, we develop a sampling bias proxy that incorporates geographic information and test it with a case study on early tetrapodomorph biogeography. We use recently-developed Bayesian phylogeographic models and a new supertree of early tetrapodomorphs to estimate dispersal rates and ancestral habitat locations. We find strong evidence that geographic sampling bias explains supposed radiations in dispersal rate (potential adaptive radiations). Our study highlights the necessity of accounting for geographic sampling bias in macroevolutionary and phylogenetic analyses and provides an approach to test for its effect.
DOI: 10.6084/m9.figshare.9275045
title: controlling_fossil_record_bias_supertree.zip

description: The fossil record provides direct empirical data for understanding macroevolutionary patterns and processes. Inherent biases in the fossil record are well known to confound analyses of this data. Sampling bias proxies have been used as covariates in regression models to test for such biases. Proxies, such as formation count, are associated with paleobiodiversity, but are insufficient for explaining species dispersal owing to a lack of geographic context. Here, we develop a sampling bias proxy that incorporates geographic information and test it with a case study on early tetrapodomorph biogeography. We use recently-developed Bayesian phylogeographic models and a new supertree of early tetrapodomorphs to estimate dispersal rates and ancestral habitat locations. We find strong evidence that geographic sampling bias explains supposed radiations in dispersal rate (potential adaptive radiations). Our study highlights the necessity of accounting for geographic sampling bias in macroevolutionary and phylogenetic analyses and provides an approach to test for its effect.
DOI: 10.6084/m9.figshare.9275054.v1
title: Flat periwinkles SNPs before filtering (pseudoreference)

description: Raw VCF file (zipped) containing SNPs for flat periwinkles after mapping the reads against the pseudoreference transcriptome
DOI: 10.6084/m9.figshare.9275048.v1
title: Flat periwinkles SNPs before filtering (reference Lobt4ind)

description: Raw vcf file (zipped) containing SNPs for flat periwinkles after mapping the reads against the transcriptome reference assembled with data from four L. obtusata individuals (Lobt4ind)
DOI: 10.6084/m9.figshare.9275000
title: Age-related changes to macrophages_supplemental raw data

description: Bulk RNA-seq data set of macrophages isolated from the fracture callus (3 days post fracture) of old (24 month), young (3 month), and old treated with PLX3397 mice (C57B6/J).<br>Stereology data of fracture calluses in old (24 month), old treated with PLX3397, and young (3 month) mice. Fracture calluses isolated 10 days after fracture and processed in paraffin for histology. Slides stained with HBQ and volume of bone, cartilage, and total callus was calculated.<br><br>Full methodological descriptions are presented in the published manuscript.
DOI: 10.6084/m9.figshare.9275045.v2
title: controlling_fossil_record_bias_supertree.zip

description: The fossil record provides direct empirical data for understanding macroevolutionary patterns and processes. Inherent biases in the fossil record are well known to confound analyses of this data. Sampling bias proxies have been used as covariates in regression models to test for such biases. Proxies, such as formation count, are associated with paleobiodiversity, but are insufficient for explaining species dispersal owing to a lack of geographic context. Here, we develop a sampling bias proxy that incorporates geographic information and test it with a case study on early tetrapodomorph biogeography. We use recently-developed Bayesian phylogeographic models and a new supertree of early tetrapodomorphs to estimate dispersal rates and ancestral habitat locations. We find strong evidence that geographic sampling bias explains supposed radiations in dispersal rate (potential adaptive radiations). Our study highlights the necessity of accounting for geographic sampling bias in macroevolutionary and phylogenetic analyses and provides an approach to test for its effect.
DOI: 10.6084/m9.figshare.9275018
title: FastQC quality reports (raw data)

description: FASTQC reports for the raw RNA-seq data from flat periwinkles
DOI: 10.6084/m9.figshare.9275045.v1
title: controlling_fossil_record_bias_supertree.zip

description: The fossil record provides direct empirical data for understanding macroevolutionary patterns and processes. Inherent biases in the fossil record are well known to confound analyses of this data. Sampling bias proxies have been used as covariates in regression models to test for such biases. Proxies, such as formation count, are associated with paleobiodiversity, but are insufficient for explaining species dispersal owing to a lack of geographic context. Here, we develop a sampling bias proxy that incorporates geographic information and test it with a case study on early tetrapodomorph biogeography. We use recently-developed Bayesian phylogeographic models and a new supertree of early tetrapodomorphs to estimate dispersal rates and ancestral habitat locations. We find strong evidence that geographic sampling bias explains supposed radiations in dispersal rate (potential adaptive radiations). Our study highlights the necessity of accounting for geographic sampling bias in macroevolutionary and phylogenetic analyses and provides an approach to test for its effect.
DOI: 10.6084/m9.figshare.9274094
title: Dataset-BIS15S and SNAP25

description: Dataset for BIS15S and SNAP25 in a Colombian sample
DOI: 10.6084/m9.figshare.9273587
title: FastQC quality reports (clean data)

description: FASTQC reports for the RNA-seq data from flat periwinkles after filtering (clean)
DOI: 10.6084/m9.figshare.9273584
title: Littorina fabalis curated transcriptome assembly

description: Curated transcriptome assembly of Littorina fabalis based on the sequencing reads (Illumina) from a single individual (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273578
title: Littorina obtusata curated transcriptome assembly (based on data from four individuals)

description: Curated transcriptome assembly of Littorina obtusata based on the sequencing reads (Illumina) from four individuals (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273578.v1
title: Littorina obtusata curated transcriptome assembly (based on data from four individuals)

description: Curated transcriptome assembly of Littorina obtusata based on the sequencing reads (Illumina) from four individuals (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273581
title: Littorina obtusata curated transcriptome assembly

description: Curated transcriptome assembly of Littorina obtusata based on the sequencing reads (Illumina) from a single individual (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273581.v1
title: Littorina obtusata curated transcriptome assembly

description: Curated transcriptome assembly of Littorina obtusata based on the sequencing reads (Illumina) from a single individual (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273560
title: ASS1 Sequencing

description: gDNA and cDNA sequencing of ASS1 rs81212146 polymorphism
DOI: 10.6084/m9.figshare.9273566
title: Littorina fabalis curated transcriptome assembly (based on data from four individuals)

description: Curated transcriptome assembly of Littorina fabalis based on the sequencing reads (Illumina) from four individuals (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273545
title: Littorina fabalis raw transcriptome assembly (based on data from four individuals)

description: Raw transcriptome assembly of Littorina fabalis based on the sequencing reads (Illumina) from four individuals (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273545.v1
title: Littorina fabalis raw transcriptome assembly (based on data from four individuals)

description: Raw transcriptome assembly of Littorina fabalis based on the sequencing reads (Illumina) from four individuals (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273560.v1
title: ASS1 Sequencing

description: gDNA and cDNA sequencing of ASS1 rs81212146 polymorphism
DOI: 10.6084/m9.figshare.9273566.v1
title: Littorina fabalis curated transcriptome assembly (based on data from four individuals)

description: Curated transcriptome assembly of Littorina fabalis based on the sequencing reads (Illumina) from four individuals (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273536
title: Cassava brown streak disease annual field survey data from 2004 to 2017 in Uganda

description: Three datasets comprising information on annual field surveys for cassava brown streak disease (CBSD) in Uganda between 2004 and 2017. Data were collated from historic paper and electronic records using a protocol described in Sseruwagi et al. 2014. We distinguish between two datasets according to the level of detail and validation that was possible for each dataset. Dataset A comprises a digitized per-plant field survey information that has been fully validated against the original paper-format raw data records. Dataset B comprises historically digitised per-field summaries with variable and undocumented levels of scrutiny against the original data records. Dataset B is more extensive in some years with larger numbers of fields surveyed than Dataset A, but for which some of the original paper records are no longer available. Dataset C was derived by summarising plant-level information from Dataset A into per-field summaries, and then adding to Dataset A those points from Dataset B not already represented in Dataset A. The survey comprises variables related to sampled field properties, CBSD incidence and foliar disease symptoms severity, and abundance of the whitefly vector (Bemisia tabaci). DATASET_A.csv is organized in 126779 rows, each corresponding to a plant, where 30 plants are recorded in each field (except field id: ‘2015102’ which contains 29 plants records). DATASET_B.csv is organized into 4956 entries and represents per-field summary information recorded between 2008-2014. DATASET_C.csv contains a total of 7627 per-field summary records. The origin of each data record (A or B) is stated in the ‘data_origin’ column and identified as ‘dbA’ or ‘dbB’ respectively. Records in this file can be linked to records in Dataset A or B based on two columns: ‘dbA_id’ and ‘dbB_id’ respectively. The csv files can be read with a wide variety of programs including Excel and R. The LEGEND_CBSD_DATA.xlsx explains the column headers in all three datasets files.
DOI: 10.6084/m9.figshare.9273539
title: Littorina obtusata raw transcriptome assembly (based on data from four individuals)

description: Raw transcriptome assembly of Littorina obtusata based on the sequencing reads (Illumina) from four individuals (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273539.v1
title: Littorina obtusata raw transcriptome assembly (based on data from four individuals)

description: Raw transcriptome assembly of Littorina obtusata based on the sequencing reads (Illumina) from four individuals (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273524
title: Littorina obtusata raw transcriptome assembly

description: Raw transcriptome assembly of Littorina obtusata based on the sequencing reads (Illumina) from a single individual (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273500
title: Littorina fabalis raw transcriptome assembly

description: Raw transcriptome assembly of Littorina fabalis based on the sequencing reads (Illumina) from a single individual (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273500.v1
title: Littorina fabalis raw transcriptome assembly

description: Raw transcriptome assembly of Littorina fabalis based on the sequencing reads (Illumina) from a single individual (whole body except hepatopancreas).
DOI: 10.6084/m9.figshare.9273491
title: Dataset of human subjects walking on a treadmill while being perturbed at random intervals by cables attached at their waist.

description: Dataset of center of mass and foot positions for human subjects walking on a treadmill while being randomly perturbed either sideways or backwards at discrete points of time.
DOI: 10.6084/m9.figshare.9273485
title: files.zip

description: GEANT4 fluxes from FIREBIRD, L-MLT calculations from IRBEM 4.4.0
DOI: 10.6084/m9.figshare.9273485.v1
title: files.zip

description: GEANT4 fluxes from FIREBIRD, L-MLT calculations from IRBEM 4.4.0
DOI: 10.6084/m9.figshare.9273203
title: GP33_B30.nwb

description: The enclosed data is collected using a high-density 256-channel electrocorticography array implanted in a human patient during treatment for epilepsy. The subjects are reading aloud consonant-vowel syllables from a list. The data was collected by Dr. Edward Chang at the University of California, San Francisco, and curated by Ben Dichter.<br>Data is organized by subject ID, and each file is a continuous recording session in Neurodata Without Borders: Neurophysiology (NWB:N) 2.0 format. Voltage traces are included for each of the recorded 256 channels. Microphone signal was recorded at the time but is removed for HIPAA compliance. Detailed hand-marked annotations are provided which mark what syllable was said, and the times of the start, consonant-vowel transition, and end of each syllable. A rest-period time is also included when the subject was silent, which can be used as a baseline. Hand-marked anatomical labels are included for electrodes in the relevant brain regions. All dates have been removed for HIPAA compliance and replaced with Jan 1, 1900.
DOI: 10.6084/m9.figshare.9273209
title: SNP validation genotypes

description: File containing a table with genotypes of individuals analysed for a subset of putatively diagnostic SNPs between flat periwinkles. The sample ID, population and multilocus genotype of each individual is shown in each row. For each locus, the two alleles (1 or 2) are presented in two separate columns. "-9" represents missing data. The txt file version of this table was used as input for the Structure analysis shown in Marques et al (submitted)
DOI: 10.6084/m9.figshare.9273248
title: Evidence for adaptive introgression of exons across a hybrid swarm in deer

description: Microsatellite, mtDNA, and SNP data
DOI: 10.6084/m9.figshare.9273200
title: GP33_B1.nwb

description: The enclosed data is collected using a high-density 256-channel electrocorticography array implanted in a human patient during treatment for epilepsy. The subjects are reading aloud consonant-vowel syllables from a list. The data was collected by Dr. Edward Chang at the University of California, San Francisco, and curated by Ben Dichter.<br>Data is organized by subject ID, and each file is a continuous recording session in Neurodata Without Borders: Neurophysiology (NWB:N) 2.0 format. Voltage traces are included for each of the recorded 256 channels. Microphone signal was recorded at the time but is removed for HIPAA compliance. Detailed hand-marked annotations are provided which mark what syllable was said, and the times of the start, consonant-vowel transition, and end of each syllable. A rest-period time is also included when the subject was silent, which can be used as a baseline. Hand-marked anatomical labels are included for electrodes in the relevant brain regions. All dates have been removed for HIPAA compliance and replaced with Jan 1, 1900.
DOI: 10.6084/m9.figshare.9273248.v1
title: Evidence for adaptive introgression of exons across a hybrid swarm in deer

description: Microsatellite and SNP data
DOI: 10.6084/m9.figshare.9273209.v2
title: SNP validation genotypes

description: File containing a table with genotypes of individuals analysed for a subset of putatively diagnostic SNPs between flat periwinkles. The sample ID, population and multilocus genotype of each individual is shown in each row. For each locus, the two alleles (1 or 2) are presented in two separate columns. "-9" represents missing data. The txt file version of this table was used as input for the Structure analysis shown in Marques et al (submitted)
DOI: 10.6084/m9.figshare.9273200.v1
title: GP33_B1.nwb

description: The enclosed data is collected using a high-density 256-channel electrocorticography array implanted in a human patient during treatment for epilepsy. The subjects are reading aloud consonant-vowel syllables from a list. The data was collected by Dr. Edward Chang at the University of California, San Francisco, and curated by Ben Dichter.<br>Data is organized by subject ID, and each file is a continuous recording session in Neurodata Without Borders: Neurophysiology (NWB:N) 2.0 format. Voltage traces are included for each of the recorded 256 channels. Microphone signal was recorded at the time but is removed for HIPAA compliance. Detailed hand-marked annotations are provided which mark what syllable was said, and the times of the start, consonant-vowel transition, and end of each syllable. A rest-period time is also included when the subject was silent, which can be used as a baseline. Hand-marked anatomical labels are included for electrodes in the relevant brain regions. All dates have been removed for HIPAA compliance and replaced with Jan 1, 1900.
DOI: 10.6084/m9.figshare.9273197
title: GP33_B5.nwb

description: The enclosed data is collected using a high-density 256-channel electrocorticography array implanted in a human patient during treatment for epilepsy. The subjects are reading aloud consonant-vowel syllables from a list. The data was collected by Dr. Edward Chang at the University of California, San Francisco, and curated by Ben Dichter.<br>Data is organized by subject ID, and each file is a continuous recording session in Neurodata Without Borders: Neurophysiology (NWB:N) 2.0 format. Voltage traces are included for each of the recorded 256 channels. Microphone signal was recorded at the time but is removed for HIPAA compliance. Detailed hand-marked annotations are provided which mark what syllable was said, and the times of the start, consonant-vowel transition, and end of each syllable. A rest-period time is also included when the subject was silent, which can be used as a baseline. Hand-marked anatomical labels are included for electrodes in the relevant brain regions. All dates have been removed for HIPAA compliance and replaced with Jan 1, 1900.
DOI: 10.6084/m9.figshare.9273209.v1
title: SNP validation genotypes

description: File containing a table with genotypes of individuals analysed for a subset of putatively diagnostic SNPs between flat periwinkles. The sample ID, population and multilocus genotype of each individual is shown in each row. For each locus, the two alleles (1 or 2) are presented in two separate columns. "-9" represents missing data. The txt file version of this table was used as input for the Structure analysis shown in Marques et al (submitted)
DOI: 10.6084/m9.figshare.9273176
title: GP31_B83.nwb

description: The enclosed data is collected using a high-density 256-channel electrocorticography array implanted in a human patient during treatment for epilepsy. The subjects are reading aloud consonant-vowel syllables from a list. The data was collected by Dr. Edward Chang at the University of California, San Francisco, and curated by Ben Dichter.<br>Data is organized by subject ID, and each file is a continuous recording session in Neurodata Without Borders: Neurophysiology (NWB:N) 2.0 format. Voltage traces are included for each of the recorded 256 channels. Microphone signal was recorded at the time but is removed for HIPAA compliance. Detailed hand-marked annotations are provided which mark what syllable was said, and the times of the start, consonant-vowel transition, and end of each syllable. A rest-period time is also included when the subject was silent, which can be used as a baseline. Hand-marked anatomical labels are included for electrodes in the relevant brain regions. All dates have been removed for HIPAA compliance and replaced with Jan 1, 1900.
DOI: 10.6084/m9.figshare.9273107
title: German bike messengers’ experiences and expressions of cycling anger

description: <b>Objective:</b> The present study has 3 objectives: First, we wanted to examine whether the Cycling Anger Scale (CAS) applies to German professional bike messengers, because this scale was previously developed with nonprofessional cyclists in Germany. Second, we wanted to look at possible differences in cycling anger experience and expression between professional German bike messengers and nonprofessional German cyclists. Third, we explored whether cycling anger is somehow related to driving anger and general anger. <b>Methods:</b> We applied German versions of the CAS, the Driving Anger Scale (DAS), and the State–Trait Anger Expression Inventory (STAXI) to a sample of 123 professional German bike messengers. Then we compared their ratings with the results of 421 nonprofessional German cyclists. <b>Results:</b> Regarding our first objective, results indicate that the CAS model fit is better for nonprofessional than for professional cyclists. However, the CAS in a slightly modified version can be used for professional cyclists as well. As for our second objective, we show that professional cyclists experience significantly less cycling anger than nonprofessional cyclists. However, bike messengers report more frequent aggressive cycling behaviors when angry, indicating a weaker link between trait anger while cycling and aggressive behavior among professionals. Thirdly, we found relations between cycling anger, driving anger, and general anger. <b>Conclusions:</b> We conclude that the CAS in its slightly modified 13-item version with the established 4 subscales produces an acceptable model fit and can be applied to professional German bike messengers for further research purposes or applied issues; for example, traffic education or self-awareness in terms of accident prevention behaviors. In addition, for professional cyclists, less anger does not result in less aggressive cycling behaviors. Subsequent research should explore the role of anger in behavioral regulation of cyclists’ unsafe cycling behaviors taking different levels of experience and professionalism into account in order to reduce adverse effects of anger on traffic safety.