cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.6bg2mk
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Euphorbia hajhirensis Radcl.-Sm."
 ]
}

 The dataset includes 9 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0205445-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.eqr2f4
title: Occurrence Download

description: A dataset containing 13889 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Cruciata glabra (L.) Ehrend.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 13889 records from 106 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032298-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yxtus4
title: Occurrence Download

description: A dataset containing 532 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((-71.0282061000000056 42.3742400000000004, -71.0282061000000056 42.3760308299999977, -71.0282061000000056 42.3771501000000015, -71.0282061000000056 42.3793886400000019, -71.0282061000000056 42.3811794699999993, -71.0282061000000056 42.3826345299999971, -71.0282061000000056 42.3854327000000026, -71.0252902299999960 42.3854327000000026, -71.0238321700000057 42.3854327000000026, -71.0217011700000000 42.3854327000000026, -71.0188972299999932 42.3854327000000026, -71.0171026999999953 42.3854327000000026, -71.0149717000000038 42.3854327000000026, -71.0120555999999965 42.3854327000000026, -71.0102612999999963 42.3854327000000026, -71.0102612999999963 42.3834180099999998, -71.0102612999999963 42.3806198400000014, -71.0102612999999963 42.3783813000000009, -71.0102612999999963 42.3759189100000029, -71.0102612999999963 42.3742400000000004, -71.0123920700000042 42.3742400000000004, -71.0139622800000012 42.3742400000000004, -71.0158689600000059 42.3742400000000004, -71.0178878100000048 42.3742400000000004, -71.0209160699999984 42.3742400000000004, -71.0230470700000041 42.3742400000000004, -71.0250659099999950 42.3742400000000004, -71.0282061000000056 42.3742400000000004))",
 "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 532 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0100870-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gv87ud
title: Occurrence Download

description: A dataset containing 147 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Year 1000-1970",
 "Geometry POLYGON((-117.26446 32.84931,-117.25794 32.85104,-117.25073 32.85104,-117.24558 32.85017,-117.24558 32.85565,-117.24661 32.86113,-117.24215 32.86344,-117.24249 32.8695,-117.24318 32.87469,-117.24352 32.88016,-117.24318 32.88622,-117.24009 32.89112,-117.25588 32.89227,-117.26446 32.84931))",
 "HasCoordinate is true",
 "TaxonKey is Plantae",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 147 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026022-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vlnoeu
title: Occurrence Download

description: A dataset containing 4947 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((8.30566 41.29184,9.67896 41.29184,9.67896 43.01027,8.30566 43.01027,8.30566 41.29184))",
 "HasCoordinate is true",
 "TaxonKey is Reptilia",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 4947 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009527-180824113759888/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a72qtg
title: Occurrence Download

description: A dataset containing 8664 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((-71.1443613999999940 42.2320285999999996, -71.1443613999999940 42.2382365300000018, -71.1443613999999940 42.2462703300000015, -71.1443613999999940 42.2517479199999997, -71.1443613999999940 42.2557648200000031, -71.1443613999999940 42.2612424100000013, -71.1443613999999940 42.2700065499999980, -71.1443613999999940 42.2773099999999999, -71.1341060400000060 42.2773099999999999, -71.1278795599999967 42.2773099999999999, -71.1165254099999942 42.2773099999999999, -71.1077350999999993 42.2773099999999999, -71.1077350999999993 42.2732930999999965, -71.1077350999999993 42.2674503400000035, -71.1077350999999993 42.2586861999999996, -71.1077350999999993 42.2513827499999977, -71.1077350999999993 42.2437141199999999, -71.1077350999999993 42.2386017099999975, -71.1077350999999993 42.2320285999999996, -71.1172579400000018 42.2320285999999996, -71.1227518799999956 42.2320285999999996, -71.1293446199999977 42.2320285999999996, -71.1370361400000064 42.2320285999999996, -71.1443613999999940 42.2320285999999996))",
 "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 8664 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0100865-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f98hw6
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sylvilagus cognatus Nelson, 1907"
 ]
}

 The dataset includes 15 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0351136-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mdfymx
title: Occurrence Download

description: A dataset containing 2244 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cantharellus amethysteus (Quél.) Sacc."
 ]
}

 The dataset includes 2244 records from 86 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0132631-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.brwe85
title: Occurrence Download

description: A dataset containing 29 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Basidiodendron cinereum (Bres.) Luck-Allen",
 {
 "not" : {
 "DatasetKey" : [
 "is Global database of alien macrofungi"
 ]
 }
 },
 {
 "or" : [
 "Country is United States of America",
 "Country is United States",
 "Country is United States of America",
 "Country is Canada",
 "Continent is North America"
 ]
 }
 ]
}

 The dataset includes 29 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0134776-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ns7tx5
title: Occurrence Download

description: A dataset containing 63085 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Alien plant presence dataset from the point-radius plot surveys in 2010-2015 in Taiwan"
 ]
}

 The dataset includes 63085 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0417997-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.52b54e
title: Occurrence Download

description: A dataset containing 1022 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Uromys caudimaculatus (Krefft, 1867)"
 ]
}

 The dataset includes 1022 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0185915-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-221640
title: The Magazine of the Romanian Pentecostal Church, 1978, vol. 26, no. 1-2 = Buletinul Cultului Penticostal din Romania, 1978, anul XXVI, nr 1-2

description: [description english/roman)] The Magazine of the Pentecostal Church is the periodical, oficial publication of the Romanian Penticostal Church during communist times. It has been published between 1953-1989.
DOI: 10.15468/dl.ubcsxg
title: Occurrence Download

description: A dataset listing the 231 species recorded in GBIF matching the query:
{
 "and" : [
 "DatasetKey is RBINS Mammal collection",
 "TaxonKey is Primates"
 ]
}

 The dataset's 231 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015770-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x858ka
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Brayopsis grandiflora (Planchon) Gilg & Muschl."
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0054754-220831081235567/datasets/export for details.
DOI: 10.15468/dl.rudeud
title: Occurrence Download

description: A dataset containing 12938 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Plantae",
 "DecimalLatitude is greater than 44.2284225015539",
 "DecimalLatitude is less than 45.2099943308826",
 "DecimalLongitude is greater than -120.827723968583",
 "DecimalLongitude is less than -119.235034611969"
 ]
}

 The dataset includes 12938 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006730-180824113759888/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-221560
title: The Magazine of the Romanian Pentecostal Church, 1977, vol. 25, no. 5-6 = Buletinul Cultului Penticostal din Romania, 1977, anul XXV, nr 5-6

description: [description english/roman)] The Magazine of the Pentecostal Church is the periodical, oficial publication of the Romanian Penticostal Church during communist times. It has been published between 1953-1989.
DOI: 10.5281/zenodo.10907604
title: Representations and associated fitness values of protein sequences

description: We studied the ability to predict protein fitness from sequence using our method MERGE and other methods (i.e., ECNet, eUniRep, EVmutation, One-Hot, and UniRep). The following files are included in this repository:



The folder ECNet contains the braw, csv, and fasta files required to run ECNet.

The folders eUniRep, MERGE, One-Hot, and UniRep contain csv files including the names and fitness values of protein variants as well as a numerical representation of their sequence. The folder MERGE also contains representations of the wild type sequences as npy files in the wts folder.

The folder Params contains params files generated with PLMC.

The script get_performances.py enables to generate models using different methods (i.e., eUniRep, EVmutation, MERGE, One-Hot, Pure_ML, and UniRep) and to determine their performance for predicting the fitness of protein variants from sequence.


References




ECNet


Luo, Y., Jiang, G., Yu, T. et al. ECNet is an evolutionary context-integrated deep learning framework for protein engineering. Nat Commun 12, 5743 (2021).



eUniRep
Biswas, S., Khimulya, G., Alley, E.C. et al. Low-N protein engineering with data-efficient deep learning. Nat Methods 18, 389–396 (2021)


EVmutation
Hopf, T., Ingraham, J., Poelwijk, F. et al. Mutation effects predicted from sequence co-variation. Nat Biotechnol 35, 128–135 (2017).


UniRep
Alley, E.C., Khimulya, G., Biswas, S. et al. Unified rational protein engineering with sequence-based deep representation learning. Nat Methods 16, 1315–1322 (2019).
DOI: 10.5281/zenodo.10907605
title: Representations and associated fitness values of protein sequences

description: We studied the ability to predict protein fitness from sequence using our method MERGE and other methods (i.e., ECNet, eUniRep, EVmutation, One-Hot, and UniRep). The following files are included in this repository:



The folder ECNet contains the braw, csv, and fasta files required to run ECNet.

The folders eUniRep, MERGE, One-Hot, and UniRep contain csv files including the names and fitness values of protein variants as well as a numerical representation of their sequence. The folder MERGE also contains representations of the wild type sequences as npy files in the wts folder.

The folder Params contains params files generated with PLMC.

The script get_performances.py enables to generate models using different methods (i.e., eUniRep, EVmutation, MERGE, One-Hot, Pure_ML, and UniRep) and to determine their performance for predicting the fitness of protein variants from sequence.


References




ECNet


Luo, Y., Jiang, G., Yu, T. et al. ECNet is an evolutionary context-integrated deep learning framework for protein engineering. Nat Commun 12, 5743 (2021).



eUniRep
Biswas, S., Khimulya, G., Alley, E.C. et al. Low-N protein engineering with data-efficient deep learning. Nat Methods 18, 389–396 (2021)


EVmutation
Hopf, T., Ingraham, J., Poelwijk, F. et al. Mutation effects predicted from sequence co-variation. Nat Biotechnol 35, 128–135 (2017).


UniRep
Alley, E.C., Khimulya, G., Biswas, S. et al. Unified rational protein engineering with sequence-based deep representation learning. Nat Methods 16, 1315–1322 (2019).
DOI: 10.15468/dl.8q6878
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Oberonia mindorensis Ames"
 ]
}

 The dataset includes 13 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0049699-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8sa6tw
title: Occurrence Download

description: A dataset containing 109 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Mugilogobius stigmaticus (De Vis, 1884)"
 ]
}

 The dataset includes 109 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0054773-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-220614
title: The Magazine of the Romanian Pentecostal Church, 1969, vol. 17, no. 9-10 = Buletinul Cultului Penticostal din Romania, 1969, anul XVII, nr 9-10

description: [description english/roman)] The Magazine of the Pentecostal Church is the periodical, official publication of the Romanian Pentecostal Church during communist times. It has been published between 1953 and 1989.
DOI: 10.15468/dl.rw5v8e
title: Occurrence Download

description: A dataset containing 16006 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Ministerio de Medio Ambiente, y Medio Rural y Marino. Dirección General de Medio Natural y Política Forestal. Inventario Nacional de Biodiversidad 2007, Peces Continentales"
 ]
}

 The dataset includes 16006 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006730-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yg2u2e
title: Occurrence Download

description: A dataset containing 21 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "GadmGid is CHN.15_1",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Anser cygnoides (Linnaeus, 1758)",
 "Year 2017-2023"
 ]
}

 The dataset includes 21 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0049776-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-220580
title: The Magazine of the Romanian Pentecostal Church, 1969, vol. 17, no. 5-6 = Buletinul Cultului Penticostal din Romania, 1969, anul XVII, nr 5-6

description: [description english/roman)] The Magazine of the Pentecostal Church is the periodical, official publication of the Romanian Pentecostal Church during communist times. It has been published between 1953 and 1989.
DOI: 10.15468/dl.6juhgw
title: Occurrence Download

description: A dataset listing the 1523 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-48.59851 -19.43734,-47.34542 -19.43734,-47.34542 -18.80151,-48.59851 -18.80151,-48.59851 -19.43734))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Plantae"
 ]
}

 The dataset's 1523 records were derived from 91 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0054786-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vjxllh
title: Occurrence Download

description: A dataset containing 7395 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Cycas L.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 7395 records from 115 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006730-190320150433242/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-220563
title: The Magazine of the Romanian Pentecostal Church, 1969, vol. 17, no. 3-4 = Buletinul Cultului Penticostal din Romania, 1969, anul XVII, nr 3-4

description: [description english/roman)] The Magazine of the Pentecostal Church is the periodical, official publication of the Romanian Pentecostal Church during communist times. It has been published between 1953 and 1989.
DOI: 10.15468/dl.axjk3t
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Zornia dichotoma Bal.-Tul. & P.Herrera"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004961-240425142415019/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q7xacf
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heliophila maximilianii var. agtertuinensis Schltr."
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0054814-220831081235567/datasets/export for details.
DOI: 10.15468/dl.zu23p6
title: Occurrence Download

description: A dataset containing 8370 species occurrences available in GBIF matching the query:
{
 "and" : [
 "VerbatimScientificName is Alopochelidon fucata",
 "BasisOfRecord is one of (Machine Observation, Human Observation)",
 "Year 2010-2022",
 "DistanceFromCentroidInMeters is greater than or equal to 1500",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen, Material citation, Material sample)"
 ]
 }
 }
 ]
}

 The dataset includes 8370 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055588-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-220539
title: The Magazine of the Romanian Pentecostal Church, 1968, vol. 16, no. 11-12 = Buletinul Cultului Penticostal din Romania, 1968, anul XVI, nr 11-12

description: [description english/roman)] The Magazine of the Pentecostal Church is the periodical, official publication of the Romanian Pentecostal Church during communist times. It has been published between 1953 and 1989.
DOI: 10.15468/dl.nk5k2q
title: Occurrence Download

description: A dataset containing 6102 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "OccurrenceStatus is Present",
 "TaxonKey is Thryophilus pleurostictus (P.L.Sclater, 1860)"
 ]
}

 The dataset includes 6102 records from 52 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0058820-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8bz3e9
title: Occurrence Download

description: A dataset containing 475 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Synodus indicus (Day, 1873)"
 ]
}

 The dataset includes 475 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0054852-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-220629
title: The Magazine of the Romanian Pentecostal Church, 1969, vol. 17, no. 11-12 = Buletinul Cultului Penticostal din Romania, 1969, anul XVII, nr 11-12

description: [description english/roman)] The Magazine of the Pentecostal Church is the periodical, official publication of the Romanian Pentecostal Church during communist times. It has been published between 1953 and 1989.
DOI: 10.15468/dl.49ee7p
title: Occurrence Download

description: A dataset containing 443 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Antilophia bokermanni Coelho & Silva, 1998"
 ]
}

 The dataset includes 443 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029111-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yf4qrm
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Eudema patagonica (Speg.) Gilg & Muschl."
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0054780-220831081235567/datasets/export for details.
DOI: 10.25549/pcra-c14-222477
title: The Magazine of the Romanian Pentecostal Church, 1985, vol. 33, no. 11-12 = Buletinul Cultului Penticostal din Romania, 1985, anul XXXIII, nr 11-12

description: [description english/roman)] The Magazine of the Pentecostal Church is the periodical, oficial publication of the Romanian Penticostal Church during communist times. It has been published between 1953-1989.