cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.3886/e201364v1
title: Data and Code for: Sufficient Statistics for Nonlinear Tax Systems With General Across-Income Heterogeneity

description: Replication files for the paper "Sufficient Statistics for Nonlinear Tax Systems With General Across-Income Heterogeneity" by Ferey, Lockwood, and Taubinsky. This paper provides empirically implementable sufficient statistics formulas for optimal nonlinear tax systems in the presence of across-income heterogeneity in preferences, inheritances, income-shifting capabilities, and other sources. We characterize optimal smooth tax systems on income and savings (or other commodities), as well as simpler tax systems. We use familiar elasticity concepts and a novel sufficient statistic for heterogeneity correlated with earnings ability: the difference between across-income variation in savings, and the causal effect of income on savings. We apply these formulas to the U.S. and find that the optimal savings tax is mostly positive and progressive.
DOI: 10.5281/zenodo.10671532
title: Supporting files for research paper "A chromosome-scale reference genome of Lathyrus sativus"

description:  

This is a supporting dataset for the research paper: "A chromosome-scale reference genome of Lathyrus sativus"

Abstract

Grass pea (Lathyrus sativus L.) is an underutilised but promising legume crop with tolerance to a wide range of abiotic and biotic stress factors, and potential for climate-resilient agriculture. Despite a long history and wide geographical distribution of cultivation, only limited breeding resources are available. This paper reports a 5.96 Gbp genome assembly of grass pea genotype LS007, of which 5.03 Gbp is scaffolded into 7 pseudo-chromosomes. The assembly has a BUSCO completeness score of 99.1% and is annotated with 31719 gene models and repeat elements. This represents the most contiguous and accurate assembly of the grass pea genome to date.

 

Other supporting data files related to this submission:

raw Pacific Biosciences HiFi long reads of LS007 genomic DNA, available at PRJEB70892, FASTQ

scaffolded assembly of LS007 along with annotations as an EMBL format file GCA_963859935 under project PRJEB70892 

CENH3 ChIP-seq sequencing, Illumina paired end, PRJEB54858 (run accessions ERR12509730-ERR12509733), FASTQ 

 

Code Availability

Source code for the gene annotation is available on github (https://github.com/gitbackspacer/grasspea_annotation)

 

Files in this datadepository:

README_F.txt

Readme file with MD5sums of submitted files.

lathyrus.emapper.decorated.gff

Orthology based functional annotation of protein coding genes

 

lathyrus_interproscan.annotations.gff3The annotation of functional domains of protein coding genes.

lathy.emapper.annotations.tab.xlsx.zip

lathy.emapper.annotations.tab.xlsx

Outputs from eggNOG-mapper for Orthology based functional annotation of LS007 Lathyrus sativus genes

lathyrus_interproscan.zip

lathyrus_interproscan.tab

Outputs from Interproscan for structure and domains of annotated LS007 Lathyrus sativus genes

repeat annotation_reversed chromosomes.zip

DANTE_LTR_full_output.gff3Full-length and partial LTR-RT elements annotated by DANTE_LTR

DANTE_filtered_output.gff3Protein coding regions of transposable elements annotated by DANTE

RM_LIB_All_concatenated.fastaCustom library of mobile elements, including LTR-RT, LINE, and Class II elements

Repeat_annotations_merged_31072023_sorted.gff3Repeat annotation based on a custom library and RepeatMasker search, as well as DANTE protein domain. The GFF3 includes annotation of mobile elements and simple repeats.

all_scaf_run_all_default_annotation.gff3Tandem repeats with a monomer size 40-3000 nt annotated by TideCluster, minimum array size 5kb

all_scaf_run_all_default_tidehunter.gff3All tandem repeats with monomer size 40-3000 identified by TideHunter.

all_scaf_run_all_short_monom_annotation.gff3Tandem repeats with monomer size 10-39 nt annotated by TideCluster with a minimum array size 5kb

all_scaf_run_all_short_monom_tidehunter.gff3All tandem repeats with monomer size 10-39 nt identified by TideHunter.
DOI: 10.5281/zenodo.12619871
title: Data and code for "Tree species abundance changes at the edges of their climatic distribution: an interplay between climate change, plant traits, and forest management"

description: ## Secondary data and code to accompany the research entitled "Tree species abundance changes at the edges of their climatic distribution: an interplay between climate change, plant traits, and forest management" by Padullés Cubino et al. (2024).

# There are four folders with (1) "raw data", (2) "processed data", (3) "results", and (4) "scripts".

# The raw and processed data folders contain the CSV and XLSX files with all the data used for analysis and produced from them

# The "results" folder contains the figures and table presented in the manuscript.

# The "scripts" folder contains four scripts for the analyses described in the manuscript:

   01_preparation_ClimEdge.R -> data cleaning and processing

   02_script_Fig1.R -> code to produce Fig1

   03_script_Fig2.R -> code to produce Fig2

   04_script_Table1_Fig3.R -> code to produce Table 1 and Fig3

# If anything is unclear, please contact the corresponding author for clarification (padullesj@gmail.com).
DOI: 10.6084/m9.figshare.24454228.v2
title: Sterile pyuria in hospitalized general medical patients

description: The dataset was collected as part of a research which studied the proportion of general medical patients who have sterile pyuria. The dataset includes 196 patients.
DOI: 10.25318/3810028601-eng
title: Primary heating systems and type of energy

description: This table contains 2304 series, with data for years 2013 - 2015 (not all combinations necessarily have data for all years). This table contains data described by the following dimensions (Not all combinations are available): Geography (48 items: Canada; Newfoundland and Labrador; Prince Edward Island; Nova Scotia; ...) Primary heating system and type of energy (48 items: All primary heating systems; Electricity; Natural gas; Oil; ...).
DOI: 10.5281/zenodo.11739325
title: Dataset of 4D conserved tracers for convection simulated by large eddy model and cloud resolving model

description: There are conserved tracers and active flag for convection used for diagnosis of bulk entrainment rate for four convection cases in this dataset. Total water and moist static energy are selected as tracer for shallow convection (BOMEX and RICO) and deep convection (GATE and KWAJEX), respectively. The two variables simulated by large eddy model for shallow convection and cloud resolving model for deep convection are four-dimension variables with horizontal scales, vertical altitude, and time. 

The size of domain simulated for BOMEX and RICO is 6.4 km with horizontal grid spacing of 100 m, and that GATE and KWAJEX is 256 km with horizontal grid spacing of 1 km. Besides, vertical layers in the simulation are 75 levels with spacing of 40m for BOMEX and 100 levels with spacing of 40m for RICO. For KWAJEX and GATE, the model was set up with 64 levels vertically, which gradually increases from 75 m at the surface to a spacing of 400 m through the troposphere and a larger spacing of 1 km in the Newtonian damping region. The model is integrated for 6 hours for BOMEX, 24 hours for RICO, 52.25 days for KWAJEX, and 20 days for GATE. Here, the range of time in these variables  The four-dimension variables are saved every 3 seconds for shallow convection, and every 6 minutes for deep convection for two consecutive days.
DOI: 10.5517/ccdc.csd.cc25fwk2
title: CCDC 2009344: Experimental Crystal Structure Determination

description: Related Article: Ebube E. Oyeka, Ilknur Babahan, Bernard Eboma, Kenechukwu J. Ifeanyieze, Obinna C. Okpareke, Esin P. Coban, Ali Özmen, Burak Coban, Mehran Aksel, Namık Özdemir, Tatiana.V. Groutso, Jude I. Ayogu, Ufuk Yildiz, Mehmet Dinçer Bilgin, H. Halil Biyik, Briana R. Schrage, Christopher J. Ziegler, Jonnie N. Asegbeloyin|2021|Inorg.Chim.Acta|528|120590|doi:10.1016/j.ica.2021.120590
DOI: 10.5517/ccdc.csd.cc28j5hh
title: CCDC 2100916: Experimental Crystal Structure Determination

description: Related Article: N. Ozdemir|2021|CSD Communication|||
DOI: 10.15468/dl.stat8c
title: Occurrence Download

description: A dataset containing 892 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "Geometry POLYGON((87.34829 48.8665,86.55566 48.49865,86.25905 48.40479,85.93754 47.91467,85.56032 46.58832,82.95677 45.42561,82.45786 44.98755,81.08283 45.08489,80.52308 44.9267,80.75428 44.18443,81.22885 42.77289,80.79142 41.9033,75.43393 39.57505,74.80806 39.09938,75.55911 37.62232,77.9124 36.24539,79.4896 34.16749,79.9903 32.49014,80.0654 31.08818,81.09184 30.26203,83.0696 29.68623,84.4966 29.26063,85.04737 28.48455,85.82345 28.45951,88.51614 28.69085,90.51894 28.79099,92.24635 28.81602,93.82356 29.16651,94.57461 29.29169,95.15041 29.09141,96.0016 29.39183,96.9279 29.34176,96.9279 28.77278,97.10314 28.39725,98.02944 28.6476,98.20468 27.39585,98.37993 26.01893,97.47867 24.96746,97.4286 24.01613,98.12958 23.79082,98.88063 23.44033,98.90566 22.16354,99.88202 21.76298,101.28398 21.31235,102.60262 22.29582,103.40374 22.77148,104.12975 22.92169,104.8808 22.92169,105.28136 23.37232,87.34829 48.8665))",
 "TaxonKey is Alnus Mill."
 ]
}

 The dataset includes 892 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044559-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13895044
title: Datasets and scripts of "Mound compartments and soil properties, but not symbiotic Podaxis fungi, drive microbial landscapes in Trinervitermes trinervoides termite colonies"

description: This zip folder contains data folders and r scripts used to analyse fungal and bacterial communities associated with Trinervitermes trinervoides termite colonies in South Africa. Within the folder there is a reedme word document providing the information on each file.
DOI: 10.5281/zenodo.11001073
title: Datasets and scripts of "Mound compartments and soil properties, but not symbiotic Podaxis fungi, drive microbial landscapes in Trinervitermes trinervoides termite colonies"

description: This zip folder contains data folders and r scripts used to analyse fungal and bacterial communities associated with Trinervitermes trinervoides termite colonies in South Africa. Within the folder there is a reedme word document providing the information on each file.
DOI: 10.5281/zenodo.11001074
title: Datasets and scripts of "Mound compartments and soil properties, but not symbiotic Podaxis fungi, drive microbial landscapes in Trinervitermes trinervoides termite colonies"

description: This zip folder contains data folders and r scripts used to analyse fungal and bacterial communities associated with Trinervitermes trinervoides termite colonies in South Africa. Within the folder there is a reedme word document providing the information on each file.
DOI: 10.15468/dl.5exu2d
title: Occurrence Download

description: A dataset containing 36591 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sarcophilus harrisii (Boitard, 1841)"
 ]
}

 The dataset includes 36591 records from 64 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044561-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8kuz4h
title: Occurrence Download

description: A dataset containing 125 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Paulownia elongata S.Y.Hu"
 ]
}

 The dataset includes 125 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044563-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7gqpb8
title: Occurrence Download

description: A dataset containing 3420744 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Haematopus ostralegus Linnaeus, 1758"
 ]
}

 The dataset includes 3420744 records from 849 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044549-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.458b2n
title: Occurrence Download

description: A dataset containing 37695438 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is South Africa",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 37695438 records from 1350 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044543-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-143144
title: Fountain Trust discussion on exorcism, 1971, 1975

description: [description english/roman)] Documents regarding the discussions on exorcism [55 pages]. Includes: cover page (p. 1); Bishop of Exeter's study group on exorcism, 3rd Conference, 1971, John Richards, T. Corbishley, Robert Petitpierre (pp. 2-16); Course program, John Richards (pp. 17-18); Exorcism and the demonic, John Richards (pp. 19-20); page 2 from The ministry of deliverance from evil, John Richards (p. 21); The ministry of healing, John Richards (pp. 22-26); Exorcism in theory & practice: a letter and three articles, Gilbert Shaw (pp. 27-41); Christian exorcism study group, 5th Conference, 1975 (pp. 42-43); correspondence and notes on Christian exorcism, John Richards (pp. 44-55).
DOI: 10.15468/dl.c8wshm
title: Occurrence Download

description: A dataset containing 61 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Tropiocolotes algericus Loveridge, 1947)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 61 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022468-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sxxpdq
title: Occurrence Download

description: A dataset containing 72 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Kenya",
 "TaxonKey is Ploceus golandi (S.Clarke, 1913)"
 ]
}

 The dataset includes 72 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004961-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-142732
title: Proverbs of the Baluba, 1958

description: [description english/roman)] William F.P. Burton's collection of 1744 tribal proverbs with other supplementary sayings [264 pages].
DOI: 10.15468/dl.zpc6z6
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cyrtodactylus phuocbinhensis Nguyen, Le, Tran, Orlov, Lathrop, Macculloch, Le, Jin, Nguyen, Nguyen, Hoang, Che, Murphy & Zhang, 2013)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022496-230224095556074/datasets/export for details.
DOI: 10.15468/dl.u7cjf4
title: Occurrence Download

description: A dataset containing 7881 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((-73.9190387999999956 40.8781912999999975, -73.9190387999999956 40.8804837300000017, -73.9190387999999956 40.8835402899999991, -73.9190387999999956 40.8854506500000028, -73.9190387999999956 40.8872336499999989, -73.9190387999999956 40.8887619300000011, -73.9190387999999956 40.8909269999999978, -73.9158634599999971 40.8909269999999978, -73.9140854799999971 40.8909269999999978, -73.9120534900000052 40.8909269999999978, -73.9092595099999983 40.8909269999999978, -73.9055765399999984 40.8909269999999978, -73.9024011999999999 40.8909269999999978, -73.9024011999999999 40.8882525000000001, -73.9024011999999999 40.8859600799999967, -73.9024011999999999 40.8841770800000006, -73.9024011999999999 40.8816299400000034, -73.9024011999999999 40.8801016500000003, -73.9024011999999999 40.8781912999999975, -73.9048145400000038 40.8781912999999975, -73.9081165199999930 40.8781912999999975, -73.9115454899999946 40.8781912999999975, -73.9138314799999989 40.8781912999999975, -73.9164984599999997 40.8781912999999975, -73.9190387999999956 40.8781912999999975))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1932",
 "BasisOfRecord is one of (Human Observation, Living Specimen, Observation, Specimen, Machine Observation)"
 ]
}

 The dataset includes 7881 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0085674-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-142572
title: Proverbs of the Baluba, 1958

description: [description english/roman)] William F.P. Burton's collection of 1744 tribal proverbs with other supplementary sayings [264 pages].
DOI: 10.15468/dl.88mt0j
title: Occurrence Download

description: A dataset containing 2953 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Byrsonima coccolobifolia Kunth"
 ]
}

 The dataset includes 2953 records from 102 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004961-190307172214381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2drscj
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anaxeton lundgrenii B.Nord."
 ]
}

 The dataset includes 4 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029221-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.64842t
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((-95.8562227999999976 41.2439177999999984, -95.8562227999999976 41.2442369299999996, -95.8562227999999976 41.2444173100000029, -95.8562227999999976 41.2444311799999994, -95.8562227999999976 41.2444450599999968, -95.8562227999999976 41.2445283099999997, -95.8562227999999976 41.2445421899999971, -95.8562227999999976 41.2445838100000017, -95.8562227999999976 41.2446393099999966, -95.8562227999999976 41.2447641899999979, -95.8562227999999976 41.2447780700000024, -95.8562227999999976 41.2447919399999989, -95.8562227999999976 41.2451804499999994, -95.8562227999999976 41.2457493300000024, -95.8562227999999976 41.2458880900000011, -95.8562227999999976 41.2465540999999973, -95.8562227999999976 41.2465679700000010, -95.8562227999999976 41.2465818499999983, -95.8562227999999976 41.2466095999999993, -95.8557643299999995 41.2466095999999993, -95.8553753300000011 41.2466095999999993, -95.8548334999999980 41.2466095999999993, -95.8548334999999980 41.2465957200000020, -95.8548334999999980 41.2465818499999983, -95.8548334999999980 41.2465263500000034, -95.8548334999999980 41.2465124699999990, -95.8548334999999980 41.2464986000000025, -95.8548334999999980 41.2459574599999996, -95.8548334999999980 41.2456660799999995, -95.8548334999999980 41.2451388200000011, -95.8548334999999980 41.2448335699999973, -95.8548334999999980 41.2446670599999976, -95.8548334999999980 41.2442508099999969, -95.8548334999999980 41.2439177999999984, -95.8553336500000057 41.2439177999999984, -95.8556253999999939 41.2439177999999984, -95.8562227999999976 41.2439177999999984))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1932",
 "BasisOfRecord is one of (Human Observation, Living Specimen, Observation, Specimen, Machine Observation)"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0085678-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-142723
title: Proverbs of the Baluba, 1958

description: [description english/roman)] William F.P. Burton's collection of 1744 tribal proverbs with other supplementary sayings [264 pages].
DOI: 10.15468/dl.xs0rux
title: Occurrence Download

description: A dataset containing 1016 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Xerocomus chrysenteron (Bull.) Quél.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1016 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004961-190320150433242/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-142761
title: Proverbs of the Baluba, 1958

description: [description english/roman)] William F.P. Burton's collection of 1744 tribal proverbs with other supplementary sayings [264 pages].
DOI: 10.15468/dl.d7g5d3
title: Occurrence Download

description: A dataset containing 2984 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "IucnRedListCategory is one of (CR, EN, VU, NT, LC)",
 "OccurrenceStatus is Present",
 "TaxonKey is Squamata",
 "Year 2012-2022"
 ]
}

 The dataset includes 2984 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029243-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.