cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.17106902
title: Data and code underlying the publication: Diet optimization: modeling iron and zinc absorption by nonlinear programming and piecewise linear approximation using National Health and Nutrition Examination Survey

description: The aim of this study was to evaluate the effectiveness of nonlinear programming (NLP) and piecewise linear approximation (PLA) for solving diet models with nonlinear equations for nonheme iron and zinc absorption.

Please view https://doi.org/10.1016/j.ajcnut.2025.06.022 for added information on materials and methods.

- Meals and observed consumptionMeals and consumption data used for modeling were based on a.o. NHANES consumption data. The input data is further described in FolderContents - 1 Raw Data. The processing of the data was done in R, see FolderContents - 4 Model input data. This includes the estimation of food components such as phytate, which are necessary to estimate nonheme iron and zinc absorption.

- Estimation of absorbable iron and zincThe formulas as described in literature were used to calculate the absorbable iron and zinc content of meals (see FolderContents - 2 Absorption equations).

- Piecewise linear approximationFor iron and zinc, univariate and bivariate piecewise linear approximation was performed, respectively (see FolderContents - 3 Piecewise linear approximation)

- Diet modelsA mixed-integer and a continuous diet model were developed to optimize absorbable iron and zinc intake, using different absorption equations available from the literature (Conway and Hallberg for iron, and Miller for zinc). With the mixed-integer diet model, 3 types of 2-wk menu plans were created: omnivorous, vegetarian, and vegan. With the continuous diet model, diet plans were generated with a varying degree of allowed deviations from the observed diet. We tested the performance of NLP and PLA for both models. For NLP, 2 different nonlinear solvers were applied: LINDO and SCIP. In addition,  the efficiency of multistart and initialization functionalities and different time limits were tested (see FolderContents - 4 Diet model). 

- Processing and analysis scriptsAll processing of data (modifications, calculations, etc.) and analysis of data was performed in R. All scripts are elaborately commented, describing each different step taken and the reason for the step.

- Figures and tablesAll figures and tables were created through R. Refer to the R scripts for detailed information within the script.
DOI: 10.60952/e4vm-n192
title: Zmiany w komórkach mięśni poprzecznie prążkowanych  w okresie późnym od zarażenia larwami Trichinella spiralis. Budowa kompleksu komórki pielęgniarki i larwy Trichinella spiralis (3)

description: Materiał zdjęciowy uzyskany w ramach badań, których celem było: zbadanie ultrastruktury transformującej komórki mięśniowej na skutek oddziaływania larw Trichinella spiralis na przestrzeni prawie całego okresu życia żywiciela (myszy szczepu BALB/c); opis relacji morfologicznej między komórką pielęgniarką a larwą włośnia krętego w różnym czasie od zarażenia organizmu żywicielskiego; przedstawienie zmian na poziomie rozdzielczości mikroskopu elektronowego, jakie zachodzą w narządach miąższowych, przez które migrują larwy Trichinella spiralis. Do badań użyto 90 immunokompetentnych myszy płci męskiej szczepu BALB/c w wieku 6 - 8 tygodni. Myszy zarażano doustnie różnymi ilościami larw włośnia krętego, a następnie w różnych okresach życia żywiciela pobierano wycinki tkankowe z wątroby, płuc, serca, przepony i mięśnia czterogłowego uda. Materiał tkankowy utrwalono w
roztworze będącym mieszaniną 2 % paraformaldehydu i 2,5% glutaraldehydu w 0,1 M buforze kakodylowym o pH 7,4. Zatopiony materiał biologiczny w żywicach cięto na skrawki
o grubości 5 μm i 50 nm, oglądano w mikroskopie świetlnym i mikroskopie elektronowym JEM 1200 EX, a następnie wykonano mikrografie elektronowe na płytkach TM – 6. Na zdjęciu zmiany w komórkach mięśni poprzecznie prążkowanych  w okresie późnym od zarażenia larwami Trichinella spiralis - fragment komórki pielęgniarki przyległej do larwy Trichinella spiralis (L). We wnętrzu komórki widoczne kanały siateczki śródplazmatycznej gładkiej i szorstkiej (S), mitochondria i wolne rybosomy. Powiększenie 12 000 x
DOI: 10.17026/dans-xr5-53rp
title: Dijkweg Honselersdijk_ 20211210 RAP AB 467843 Persleiding Honselersdijk rev00 compl

description: &lt;p&gt;Tussen april en juli 2021 is door Antea Group een archeologische begeleiding uitgevoerd voor een plangebied aan de Dijkweg in Honselersdijk. Binnen het plangebied zal het bestaande gasleidingschema (afsluiterschema S-5991) worden aangepast. Hiertoe worden een serie werkputten worden tussen de kruising Dijkweg-Hofstraat richting het zuiden, aan de oostzijde van de Dijkweg. Deze werkzaamheden leiden tot een bodemverstoring tot een diepte van maximaal 2,5 m €“mv. Voor deze werkzaamheden is het tevens noodzakelijk dat enkele bestaande bomen worden gerooid en/of verplaatst, en dat een bodemsanering wordt uitgevoerd.Omdat het onderzoeksgebied verhard is en er een proefsleuvenonderzoek bijvoorbeeld door de aanwezigheid van vele kabels, leidingen en bodemvervuiling niet haalbaar blijkt, is het archeologisch onderzoek gecombineerd met de civieltechnische werkzaamheden en uitgevoerd als een opgraving €“ variant archeologische begeleiding.Het plangebied ligt tussen de Dijkweg en de Hofstraat in Honselersdijk en beslaat een oppervlakte van ongeveer 500 m2.Het gebied is grotendeels verstoord gebleken, en dan met name de noordelijke helft. Aan de zuidkant, ter hoogte van werkputten WP05, WP07 en WP08, is onder de verstoorde lagen nog wel een natuurlijke kleilaag aangetroffen. Bovenin die laag bevond zich veel vondstmateriaal dat kon worden gedateerd in de nieuwe tijd, met name dierlijk bot. Archeologische sporen zijn niet aangetroffen, afgezien van een bakstenen afwateringsgootje dat ook uit de nieuwe tijd dateert. Het lijkt erop dat de locatie tussen de 17e en 20e eeuw is gebruikt als afvalstortplaats, en dat er daarna verschillende ophogingen/verstoringen hebben plaatsgevonden (waarschijnlijk in het kader van de huidige infrastructuur). De aangetroffen resten konden niet overtuigend worden gerelateerd aan het Huis Honselersdijk, al is het niet uit te sluiten dat de afvalstortplaats wel deel heeft uitgemaakt van het erf.Antea Group adviseert om het plangebied vrij te geven ten behoeve van de voorgenomen ontwikkelingen. Dit omdat de bodemopbouw grotendeels verstoord is gebleken en er geen behoudenswaardige vindplaats is aangetroffen.&lt;/p&gt;
DOI: 10.5281/zenodo.17105789
title: Raw FASTQ files of K562 RNA-seq libraries prepared using the uMRT 37/30 protocol and UHRR RNA-seq libraries prepared with uMRT of the publication Single-cell RNA-seq using UltraMarathonRT

description:  Raw FASTQ files of K562 RNA-seq libraries prepared using the uMRT 37/30 protocol and UHRR RNA-seq libraries prepared with uMRT of the publication Single-cell RNA-seq using UltraMarathonRT, included are :



 Raw FASTQ files of K562 RNA-seq libraries prepared using the uMRT 37/30 protocol



paired-end reads of cell1 - cell9



Raw FASTQ files of UHRR RNA-seq libraries prepared using uMRT



paired end reads of decreasing UHRR gradient ( 2 replicates each) :



1 ng

100 pg 

50 pg

20 pg 

2 pg
DOI: 10.5281/zenodo.17105790
title: Raw FASTQ files of K562 RNA-seq libraries prepared using the uMRT 37/30 protocol and UHRR RNA-seq libraries prepared with uMRT of the publication Single-cell RNA-seq using UltraMarathonRT

description:  Raw FASTQ files of K562 RNA-seq libraries prepared using the uMRT 37/30 protocol and UHRR RNA-seq libraries prepared with uMRT of the publication Single-cell RNA-seq using UltraMarathonRT, included are :



 Raw FASTQ files of K562 RNA-seq libraries prepared using the uMRT 37/30 protocol



paired-end reads of cell1 - cell9



Raw FASTQ files of UHRR RNA-seq libraries prepared using uMRT



paired end reads of decreasing UHRR gradient ( 2 replicates each) :



1 ng

100 pg 

50 pg

20 pg 

2 pg
DOI: 10.15468/dl.gk5d9h
title: Occurrence Download

description: A dataset containing 128078 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Valerianella locusta"
 ]
}

 The dataset includes 128078 records from 1837 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055800-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v4i84c
title: Occurrence Download

description: A dataset containing 845 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Solandra Sw.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 845 records from 99 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000692-180925134338326/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gd498e
title: Occurrence Download

description: A dataset containing 8515 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CoordinateUncertaintyInMeters 0.0-10100.0",
 "Country is one of (Norway, Finland, Denmark, Sweden)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Myodes glareolus (Schreber, 1780)",
 "Year 2000-2019"
 ]
}

 The dataset includes 8515 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0194096-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a7p5p7
title: Occurrence Download

description: A dataset containing 56 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pronolagus crassicaudatus (I.Geoffroy, 1832)"
 ]
}

 The dataset includes 56 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000848-150330110031120/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.evlwzd
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Valeriana johannae Weberling"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000692-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fb392u
title: Occurrence Download

description: A dataset containing 60 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CHL.6.3.8_1",
 "TaxonKey is Mammalia"
 ]
}

 The dataset includes 60 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0194110-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gap6p2
title: Occurrence Download

description: A dataset containing 38085 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Digitaria sanguinalis (L.) Scop.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 38085 records from 209 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000848-150831095807960/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mnb5im
title: Occurrence Download

description: A dataset containing 42 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Finland",
 "TaxonKey is Dytiscus latissimus Linnaeus, 1758"
 ]
}

 The dataset includes 42 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000692-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6xc4ss
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lepidium graminifolium L.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "DatasetKey is Florabank1 - A grid-based database on vascular plant distribution in the northern part of Belgium (Flanders and the Brussels Capital region)"
 ]
}

 The dataset includes 9 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000848-150912100344238/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z2b5rj
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Epidendrum eugenii Schltr."
 ]
}

 The dataset includes 27 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0194128-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d4vkqv
title: Occurrence Download

description: A dataset containing 97 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Semecarpus cochinchinensis Engl."
 ]
}

 The dataset includes 97 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000692-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wpsyg8
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Myrcia sparsiflora (M.L.Kawas. & B.Holst) A.R.Lourenço & E.Lucas"
 ]
}

 The dataset includes 15 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0180325-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gfwsaa
title: Occurrence Download

description: A dataset containing 772 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Buceros rhinoceros Linnaeus, 1758"
 ]
}

 The dataset includes 772 records from 41 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000848-151016162008034/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hdmfjm
title: Occurrence Download

description: A dataset containing 79 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-73.84186 -37.29034,-73.7265 -39.67438,-71.44958 -39.81995,-71.51276 -37.40021,-73.84186 -37.29034))",
 "HasCoordinate is true",
 {
 "or" : [
 "TaxonKey is Batrachyla taeniata (Girard, 1855)",
 "TaxonKey is Pleurodema thaul (Schneider, 1799)"
 ]
 },
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 79 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020097-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.udywxa
title: Occurrence Download

description: A dataset containing 5052 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phaseolus lunatus L.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 5052 records from 77 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000848-160118175350007/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rbxar2
title: Occurrence Download

description: A dataset listing the 445558 species recorded in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Living Specimen, Material sample, Human Observation, Machine Observation, Observation, Specimen, Material citation, Occurrence evidence)",
 "CoordinateUncertaintyInMeters is less than or equal to 100000.0",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Animalia",
 "Year 1945-2023"
 ]
}

 The dataset's 445558 records were derived from 14833 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0194115-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y59g7p
title: Occurrence Download

description: A dataset containing 4175 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)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Quiscalus nicaraguensis Salvin & Godman, 1891"
 ]
}

 The dataset includes 4175 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060631-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dbxejt
title: Occurrence Download

description: A dataset containing 1125 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Codiaeum variegatum (L.) Rumph. ex A.Juss.",
 "HasCoordinate is TRUE"
 ]
}

 The dataset includes 1125 records from 93 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0049929-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6rgzys
title: Occurrence Download

description: A dataset containing 538 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Alouatta guariba (Humboldt, 1812)"
 ]
}

 The dataset includes 538 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015882-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f4typh
title: Occurrence Download

description: A dataset containing 29 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Bocquillonia goniorrhachis Airy Shaw"
 ]
}

 The dataset includes 29 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060691-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kf60jh
title: Occurrence Download

description: A dataset containing 243409 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Eupatorium cannabinum L."
 ]
}

 The dataset includes 243409 records from 555 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0049929-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r8v49k
title: Occurrence Download

description: A dataset containing 285 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)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Pithecia monachus (É.Geoffroy Saint-Hilaire, 1812)"
 ]
}

 The dataset includes 285 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0062791-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.snu966
title: Occurrence Download

description: A dataset containing 77 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "TaxonKey is Saussurea chetchozensis Franch."
 ]
}

 The dataset includes 77 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0277414-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kazdvh
title: Occurrence Download

description: A dataset containing 3196 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Coffea arabica L.",
 "HasCoordinate is TRUE"
 ]
}

 The dataset includes 3196 records from 204 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0049930-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.62wvcv
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mulinia pontchartrainensis J.P.E.Morrison, 1965",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 {
 "not" : {
 "BasisOfRecord" : [
 "is Fossil"
 ]
 }
 },
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is MANAGED"
 ]
 }
 },
 {
 "not" : {
 "EstablishmentMeans" : [
 "is not null"
 ]
 }
 }
 ]
 },
 {
 "or" : [
 "OccurrenceStatus is Present",
 {
 "not" : {
 "OccurrenceStatus" : [
 "is not null"
 ]
 }
 }
 ]
 }
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060719-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sztoqe
title: Occurrence Download

description: A dataset containing 2548 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Coix lacryma-jobi L.",
 "HasCoordinate is TRUE"
 ]
}

 The dataset includes 2548 records from 201 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0049933-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jkhhjg
title: Occurrence Download

description: A dataset containing 7386 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)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Sicalis auriventris Philippi & Landbeck, 1864"
 ]
}

 The dataset includes 7386 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060737-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u84nxm
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is BHCB - Herbário da Universidade Federal de Minas Gerais",
 "TaxonKey is Oryza glumaepatula Steud."
 ]
}

 The dataset includes 5 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0226977-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.