cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.13224474
title: Mouse culture and tissue aging - epigenetic clock pt2

description: Aging is associated with dramatic changes to DNA methylation (DNAm), although the causes and consequences of such alterations are unknown. Our ability to experimentally uncover mechanisms of epigenetic aging will be greatly enhanced by our ability to study and manipulate these changes using in vitro models. However, it remains unclear whether the changes elicited by cells in culture can serve as a model of what is observed in aging tissues in vivo. To test this, we serially passaged mouse embryonic fibroblasts (MEFs) and assessed changes in DNAm at each time point via reduced representation bisulfite sequencing. By developing a measure that tracked cellular aging in vitro, we tested whether it tracked physiological aging in various mouse tissues and whether anti‐aging interventions modulate this measure. Our measure, termed CultureAGE, was shown to strongly increase with age when examined in multiple tissues (liver, lung, kidney, blood, and adipose). As a control, we confirmed that the measure was not a marker of cellular senescence, suggesting that it reflects a distinct yet progressive cellular aging phenomena that can be induced in vitro. Furthermore, we demonstrated slower epigenetic aging in animals undergoing caloric restriction and a resetting of our measure in lung and kidney fibroblasts when re‐programmed to iPSCs. Enrichment and clustering analysis implicated EED and Polycomb group (PcG) factors as potentially important chromatin regulators in translational culture aging phenotypes. Overall, this study supports the concept that physiologically relevant aging changes can be induced in vitro and used to uncover mechanistic insights into epigenetic aging.
DOI: 10.15468/dl.w6mwq5
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((141.951008 -37.13931, 141.951008 -37.143802, 141.957746 -37.143802, 141.957746 -37.13931, 141.951008 -37.13931))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051836-240626123714530/datasets/export for details.
DOI: 10.5281/zenodo.13218892
title: Mouse culture and tissue aging - epigenetic clock pt1

description: Aging is associated with dramatic changes to DNA methylation (DNAm), although the causes and consequences of such alterations are unknown. Our ability to experimentally uncover mechanisms of epigenetic aging will be greatly enhanced by our ability to study and manipulate these changes using in vitro models. However, it remains unclear whether the changes elicited by cells in culture can serve as a model of what is observed in aging tissues in vivo. To test this, we serially passaged mouse embryonic fibroblasts (MEFs) and assessed changes in DNAm at each time point via reduced representation bisulfite sequencing. By developing a measure that tracked cellular aging in vitro, we tested whether it tracked physiological aging in various mouse tissues and whether anti‐aging interventions modulate this measure. Our measure, termed CultureAGE, was shown to strongly increase with age when examined in multiple tissues (liver, lung, kidney, blood, and adipose). As a control, we confirmed that the measure was not a marker of cellular senescence, suggesting that it reflects a distinct yet progressive cellular aging phenomena that can be induced in vitro. Furthermore, we demonstrated slower epigenetic aging in animals undergoing caloric restriction and a resetting of our measure in lung and kidney fibroblasts when re‐programmed to iPSCs. Enrichment and clustering analysis implicated EED and Polycomb group (PcG) factors as potentially important chromatin regulators in translational culture aging phenotypes. Overall, this study supports the concept that physiologically relevant aging changes can be induced in vitro and used to uncover mechanistic insights into epigenetic aging.
DOI: 10.5281/zenodo.13218893
title: Mouse culture and tissue aging - epigenetic clock pt1

description: Aging is associated with dramatic changes to DNA methylation (DNAm), although the causes and consequences of such alterations are unknown. Our ability to experimentally uncover mechanisms of epigenetic aging will be greatly enhanced by our ability to study and manipulate these changes using in vitro models. However, it remains unclear whether the changes elicited by cells in culture can serve as a model of what is observed in aging tissues in vivo. To test this, we serially passaged mouse embryonic fibroblasts (MEFs) and assessed changes in DNAm at each time point via reduced representation bisulfite sequencing. By developing a measure that tracked cellular aging in vitro, we tested whether it tracked physiological aging in various mouse tissues and whether anti‐aging interventions modulate this measure. Our measure, termed CultureAGE, was shown to strongly increase with age when examined in multiple tissues (liver, lung, kidney, blood, and adipose). As a control, we confirmed that the measure was not a marker of cellular senescence, suggesting that it reflects a distinct yet progressive cellular aging phenomena that can be induced in vitro. Furthermore, we demonstrated slower epigenetic aging in animals undergoing caloric restriction and a resetting of our measure in lung and kidney fibroblasts when re‐programmed to iPSCs. Enrichment and clustering analysis implicated EED and Polycomb group (PcG) factors as potentially important chromatin regulators in translational culture aging phenotypes. Overall, this study supports the concept that physiologically relevant aging changes can be induced in vitro and used to uncover mechanistic insights into epigenetic aging.
DOI: 10.15468/dl.ehjrrp
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.16738 -35.10237, 148.16738 -35.106862, 148.169626 -35.106862, 148.169626 -35.10237, 148.16738 -35.10237))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051837-240626123714530/datasets/export for details.
DOI: 10.14469/hpc/12407
title: endo-TS1 replicating G03 lit calc( Lit: E = -823.545644624, G = -823.400723) E = -823.545644658, G = -823.400161, Single point at lit geometry, sphere 13, ΔE = 0.0000213 kcal/mol, ΔG =0.35 kcal/mol, GN 0.001477267

description: Gaussian 16 (C01) calculation
DOI: 10.14469/hpc/13177
title: endo-TS1 ( Lit: E = -823.533430085, G =-823.386678 E) ==&gt; G16 keywords, re-opt, gas phase, E =-823.533410987, G = -823.386844, GN 0.000001454

description: Gaussian 16 (C01) calculation. Solvation energy ΔE 7.7 kcal/mol, ΔG = 8.7 kcal/mol.
DOI: 10.14469/hpc/13191
title: endo-reactant replicating G03 lit calc( Lit: E =-823.551090020, G = -823.404599) no sphere ==&gt; opt, E =--823.551412076 , G =-823.403465, GN 0.000012831

description: Gaussian 16 (C01) calculation
DOI: 10.14469/hpc/13223
title: Endo_TS1_G03_PCM_chlorobenzene_v_01 (Lit E = -823.544083559, G = -823.398690), Single point at lit geometry, sphere on 13,E = -823.544135702, DE =0.033 kcal/mol, G = -823.393329, GN 0.001403304

description: Gaussian 16 (C01) calculation. The reported total energy is almost replicated, DE = 0.033 kcal/mol
DOI: 10.14469/hpc/13225
title: Endo_React_G03_PCM_chlorobenzene_v_01 (Lit E =-823.549808830, G = -823.403586), Single point at lit geometry, no-sphere, E = -823.549842979, DE = 0.021 kcal/mol, G = -823.398765, GN 0.000614813

description: Gaussian 16 (C01) calculation
DOI: 10.14469/hpc/12806
title: endo-TS1 replicating G03 lit calc( Lit: E = -823.545644624, G = -823.400723), Single point at lit geometry, sphere 13, 2e integrals: -14, SCF acc -10 , E = -823.545644658, G =-823.400166. GN 0.001477270

description: Gaussian 16 (C01) calculation. Increaded SCF and integral accuracy has only a small effect.
DOI: 10.14469/hpc/13176
title: endo-TS1 ( Lit: E = -823.545644624, G = -823.400723) ==&gt; G16 keywords, sphere on 13, re-opt, E = -823.543287156 , G = -823.396527, ΔΔG = 2.63 kcal/mol from original value. GN 0.000005150

description: Gaussian 16 (C01) calculation
DOI: 10.14469/hpc/13183
title: endo-reactant replicating G03 lit calc( Lit: E =-823.551090020, G = -823.40459), re-opt to remove -ve frequency, RMS 0.000018762, E = -823.5516306 ,G =-823.403055 DG = +0.71

description: Gaussian 16 (C01) calculation
DOI: 10.14469/hpc/13188
title: endo-reactant replicating G03 lit calc( Lit: E =-823.551090020, G = -823.404599) no sphere, E =-823.551090027 , G =-823.401106 =&gt;2 -ve ν -144 and -3 cm-1. GN 0.000765607

description: Gaussian 16 (C01) calculation
DOI: 10.14469/hpc/13192
title: endo-reactant replicating G03 lit calc( Lit: E =-823.551090020, G = -823.404599) no sphere ==&gt; G16 parameters, E=-823.549676446, G = -823.403002, GN 0.000003360

description: Gaussian 16 (C01) calculation
DOI: 10.15468/dl.zcunds
title: Occurrence Download

description: A dataset containing 6739 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((142.519195 -37.13931, 142.519195 -37.143802, 142.523687 -37.143802, 142.523687 -37.150539, 142.525933 -37.150539, 142.525933 -37.13931, 142.519195 -37.13931))"
 ]
}

 The dataset includes 6739 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051838-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qmbzzq
title: Occurrence Download

description: A dataset containing 378562 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Olea europaea L."
 ]
}

 The dataset includes 378562 records from 545 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051828-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vd9zwz
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.176363 -35.104616, 148.176363 -35.106862, 148.1831 -35.106862, 148.1831 -35.104616, 148.176363 -35.104616))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051839-240626123714530/datasets/export for details.
DOI: 10.5281/zenodo.11066398
title: Code and data for "Personality matters – The interplay between consistent individual differences and mouse welfare in female C57BL6/J mice"

description: R code and data used for the manuscript "Personality matters – The interplay between consistent individual differences and mouse welfare in female C57BL6/J mice"
DOI: 10.5281/zenodo.11066399
title: Code and data for "Personality matters – The interplay between consistent individual differences and mouse welfare"

description: R code and data used for the manuscript "Personality matters – The interplay between consistent individual differences and mouse welfare"
DOI: 10.5281/zenodo.12704686
title: Code and data for "Personality matters – The interplay between consistent individual differences and mouse welfare in female C57BL6/J mice"

description: R code and data used for the manuscript "Personality matters – The interplay between consistent individual differences and mouse welfare in female C57BL6/J mice"
DOI: 10.15468/dl.9ynu6c
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((144.607788 -37.13931, 144.607788 -37.143802, 144.610034 -37.143802, 144.610034 -37.13931, 144.607788 -37.13931))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051840-240626123714530/datasets/export for details.
DOI: 10.15468/dl.7duq89
title: Occurrence Download

description: A dataset containing 29993 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Amblyomma americanum Linnaeus, 1758"
 ]
}

 The dataset includes 29993 records from 38 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051841-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.w334z4
title: Occurrence Download

description: A dataset containing 221 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.663701 -35.10237, 148.663701 -35.120337, 148.672685 -35.120337, 148.672685 -35.118091, 148.668193 -35.118091, 148.668193 -35.113599, 148.665947 -35.113599, 148.665947 -35.111354, 148.668193 -35.111354, 148.668193 -35.106862, 148.665947 -35.106862, 148.665947 -35.10237, 148.663701 -35.10237))"
 ]
}

 The dataset includes 221 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051842-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c2ynna
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((144.899742 -37.13931, 144.899742 -37.143802, 144.904234 -37.143802, 144.904234 -37.141556, 144.901988 -37.141556, 144.901988 -37.13931, 144.899742 -37.13931))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051843-240626123714530/datasets/export for details.
DOI: 10.15468/dl.h4w3fb
title: Occurrence Download

description: A dataset containing 103261 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Material sample, Material citation, Specimen, Fossil, Living Specimen, Occurrence evidence)",
 "Continent is Asia",
 "Country is India",
 {
 "or" : [
 "Geometry POLYGON((91.43411 28.01163,92.01837 26.48684,92.5134 26.68852,95.09646 27.74087,95.53822 27.88337,94.6832 27.17085,95.19621 26.24458,97.37652 27.28486,97.57603 28.30455,96.835 29.47308,96.03664 29.8168,94.09859 29.10428,92.87306 28.53426,91.43411 28.01163))",
 "Geometry POLYGON((87.83794 28.23237,87.55067 25.91626,88.0534 24.89286,89.13066 25.41354,88.99166 27.72057,88.88394 28.51057,87.83794 28.23237))",
 "Geometry POLYGON((81.1832 30.69025,81.07045 31.93225,79.57063 33.61061,78.4337 35.27475,77.39352 37.58625,73.81069 38.51086,71.49692 36.86157,72.59702 35.27849,73.99228 33.9369,75.68268 32.62214,77.37309 30.36827,79.97577 28.75836,81.1832 30.69025))",
 "Geometry POLYGON((89.69996 26.1588,89.54945 25.20448,92.0845 24.81979,92.45136 25.26001,92.67147 25.75526,91.86439 26.4156,89.69996 26.1588))"
 ]
 },
 "OccurrenceStatus is Present",
 "TaxonKey is Cuculiformes"
 ]
}

 The dataset includes 103261 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051818-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13236595
title: Dataset of the Turtle species extinction across the Cretaceous / Palaeogene boundary paper

description: This dataset contains the different types of data downloaded from the Paleobiology Database used for the analyses, as well as the processed information and the results of the diversity analysis.
DOI: 10.5281/zenodo.13236596
title: Dataset of the Turtle species extinction across the Cretaceous / Palaeogene boundary paper

description: This dataset contains the different types of data downloaded from the Paleobiology Database used for the analyses, as well as the processed information and the results of the diversity analysis.
DOI: 10.15468/dl.qqx4cy
title: Occurrence Download

description: A dataset containing 43 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (China, Chinese Taipei)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Cirsium vulgare (Savi) Ten."
 ]
}

 The dataset includes 43 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051844-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vkau3x
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((147.776611 -37.13931, 147.776611 -37.143802, 147.778857 -37.143802, 147.778857 -37.150539, 147.785594 -37.150539, 147.785594 -37.146047, 147.799069 -37.146047, 147.799069 -37.13931, 147.776611 -37.13931))"
 ]
}

 The dataset includes 11 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051845-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mwpeyp
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.212296 -35.122582, 148.212296 -35.127074, 148.214542 -35.127074, 148.214542 -35.122582, 148.212296 -35.122582))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051846-240626123714530/datasets/export for details.
DOI: 10.15468/dl.r7u5kp
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "MULTIPOLYGON (((143.40404 -37.143802, 143.406286 -37.143802, 143.406286 -37.13931, 143.40404 -37.13931, 143.40404 -37.143802)), ((143.40404 -37.143802, 143.399549 -37.143802, 143.399549 -37.146047, 143.40404 -37.146047, 143.40404 -37.143802)))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051847-240626123714530/datasets/export for details.
DOI: 10.15468/dl.swwbfq
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.888281 -35.122582, 148.888281 -35.127074, 148.890527 -35.127074, 148.890527 -35.122582, 148.888281 -35.122582))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051848-240626123714530/datasets/export for details.
DOI: 10.15468/dl.qs89us
title: Occurrence Download

description: A dataset containing 117714 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phalacrocorax carbo (Linnaeus, 1758)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 117714 records from 60 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051826-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r53qcs
title: Occurrence Download

description: A dataset containing 86 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "GadmGid is one of (ECU.15.1.1_1, COL.1_2, PER.1_1, GUF, GUY, SUR, VEN.1_1, BRA.3_1, BRA.23_1, BRA.4_1, BRA.14_1)",
 "OccurrenceStatus is Present",
 "TaxonKey is Pera bicolor (Klotzsch) Müll.Arg."
 ]
}

 The dataset includes 86 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051849-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2tchz3
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((143.435481 -37.143802, 143.435481 -37.146047, 143.444465 -37.146047, 143.444465 -37.143802, 143.435481 -37.143802))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051850-240626123714530/datasets/export for details.
DOI: 10.15468/dl.n6ffcz
title: Occurrence Download

description: A dataset containing 125 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.942181 -35.122582, 148.942181 -35.127074, 148.948918 -35.127074, 148.948918 -35.122582, 148.942181 -35.122582))"
 ]
}

 The dataset includes 125 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051851-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.thhb2t
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pelecanus carbo Linnaeus, 1758",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051852-240626123714530/datasets/export for details.
DOI: 10.15468/dl.mmqa7r
title: Occurrence Download

description: A dataset containing 33 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Material sample, Specimen, Fossil, Living Specimen)",
 "TaxonKey is Populus pseudoglauca Z.Wang & P.Y.Fu"
 ]
}

 The dataset includes 33 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051853-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ysq7np
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "MULTIPOLYGON (((145.470175 -37.143802, 145.470175 -37.146047, 145.474667 -37.146047, 145.474667 -37.143802, 145.470175 -37.143802)), ((145.474667 -37.146047, 145.474667 -37.150539, 145.479158 -37.150539, 145.479158 -37.146047, 145.474667 -37.146047)))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051855-240626123714530/datasets/export for details.
DOI: 10.15468/dl.8y8569
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((147.989962 -35.133811, 147.989962 -35.138303, 147.994453 -35.138303, 147.994453 -35.136057, 147.992208 -35.136057, 147.992208 -35.133811, 147.989962 -35.133811))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051856-240626123714530/datasets/export for details.
DOI: 10.18112/openneuro.ds005127.v1.0.1
title: AMRI 16-N-0031 sleep1
DOI: 10.15468/dl.rt244h
title: Occurrence Download

description: A dataset containing 606 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Stephanolepis cirrhifer (Temminck & Schlegel, 1850)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 606 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051857-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.