cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.25793967
title: Transcriptional Signatures of Domestication Revealed by Meta-Analysis of Pig, Chicken, Wild Boar, and Red Junglefowl Gene Expression Data

description: Domesticated animals have undergone significant changes in their behavior, morphology, and physiological functions during domestication. To identify the changes in gene expression associated with domestication, we collected RNA-seq data of pigs, chickens, wild boars, and red junglefowl from public databases and performed a meta-analysis. Gene expression was quantified and the expression ratio between domesticated animals and their wild ancestors (DW-ratio) was calculated. Genes were classified as “upregulated,” “downregulated,” or “unchanged” based on their DW-ratio, and DW-score was calculated for each gene. Gene set enrichment analysis revealed that genes upregulated in pigs were related to defense from viral infection, whereas those upregulated in chickens were associated with aminoglycan and carbohydrate derivative catabolic processes. Genes commonly upregulated in pigs and chickens are involved in the immune response, olfactory learning, epigenetic regulation, cell division, and extracellular matrix. In contrast, genes upregulated in wild boar and red junglefowl are related to stress response, cell proliferation, cardiovascular function, neural regulation, and energy metabolism. These findings provide valuable insights into the genetic basis of the domestication process and highlight potential candidate genes for breeding applications.<br><b>Supplementary Table1 - Pig and Wild Boar Sample metadata</b><b>Supplementary Table2 - Chicken and Red Junglefowl sample metadata</b><b>Supplementary Table3 - TPM Data of Pig and Wild Boar</b><b>Supplementary Table4 - TPM Data of Chicken and Red Junglefowl</b><b>Supplementary Table5 - DW-Score Data for Gene Expression of Pig and Wild Boar</b><b>Supplementary Table6 - DW-Score Data for Gene Expression of Chicken and Red Junglefowl</b><b>Supplementary Table7 - Lists of upregulated genes in Pig</b><b>Supplementary Table8 - Lists of upregulated genes in Wild Boar</b><b>Supplementary Table9 - Result and lists of enrichment analysis of Pig</b><b>Supplementary Table10 - Result and lists of enrichment analysis of Wild Boar</b><b>Supplementary Table11 - Lists of upregulated genes in Chicken</b><b>Supplementary Table12 - Lists of upregulated genes in Red Junglefowl</b><b>Supplementary Table13 - Result and lists of enrichment analysis of chicken</b><b>Supplementary Table14 - Result and lists of enrichment analysis of Red Junglefowl</b><b>Supplementary Table15 - DW-Score data for pig and wild boar converted to human gene IDs</b><b>Supplementary Table16 - Lists of upregulated genes in Pig converted to human gene IDs</b><b>Supplementary Table17 - </b><b>Lists of upregulated genes in Wild Boar converted to human gene IDs</b>
DOI: 10.6084/m9.figshare.25793967.v2
title: Transcriptional Signatures of Domestication Revealed by Meta-Analysis of Pig, Chicken, Wild Boar, and Red Junglefowl Gene Expression Data

description: Domesticated animals have undergone significant changes in their behavior, morphology, and physiological functions during domestication. To identify the changes in gene expression associated with domestication, we collected RNA-seq data of pigs, chickens, wild boars, and red junglefowl from public databases and performed a meta-analysis. Gene expression was quantified and the expression ratio between domesticated animals and their wild ancestors (DW-ratio) was calculated. Genes were classified as “upregulated,” “downregulated,” or “unchanged” based on their DW-ratio, and DW-score was calculated for each gene. Gene set enrichment analysis revealed that genes upregulated in pigs were related to defense from viral infection, whereas those upregulated in chickens were associated with aminoglycan and carbohydrate derivative catabolic processes. Genes commonly upregulated in pigs and chickens are involved in the immune response, olfactory learning, epigenetic regulation, cell division, and extracellular matrix. In contrast, genes upregulated in wild boar and red junglefowl are related to stress response, cell proliferation, cardiovascular function, neural regulation, and energy metabolism. These findings provide valuable insights into the genetic basis of the domestication process and highlight potential candidate genes for breeding applications.<br><b>Supplementary Table1 - Pig and Wild Boar Sample metadata</b><b>Supplementary Table2 - Chicken and Red Junglefowl sample metadata</b><b>Supplementary Table3 - TPM Data of Pig and Wild Boar</b><b>Supplementary Table4 - TPM Data of Chicken and Red Junglefowl</b><b>Supplementary Table5 - DW-Score Data for Gene Expression of Pig and Wild Boar</b><b>Supplementary Table6 - DW-Score Data for Gene Expression of Chicken and Red Junglefowl</b><b>Supplementary Table7 - Lists of upregulated genes in Pig</b><b>Supplementary Table8 - Lists of upregulated genes in Wild Boar</b><b>Supplementary Table9 - Result and lists of enrichment analysis of Pig</b><b>Supplementary Table10 - Result and lists of enrichment analysis of Wild Boar</b><b>Supplementary Table11 - Lists of upregulated genes in Chicken</b><b>Supplementary Table12 - Lists of upregulated genes in Red Junglefowl</b><b>Supplementary Table13 - Result and lists of enrichment analysis of chicken</b><b>Supplementary Table14 - Result and lists of enrichment analysis of Red Junglefowl</b><b>Supplementary Table15 - DW-Score data for pig and wild boar converted to human gene IDs</b><b>Supplementary Table16 - Lists of upregulated genes in Pig converted to human gene IDs</b><b>Supplementary Table17 - </b><b>Lists of upregulated genes in Wild Boar converted to human gene IDs</b>
DOI: 10.60600/yu/clawet/gwgpux
title: 1546.TextGrid

description: :unav
DOI: 10.15468/dl.u9eg9b
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sphaerophoria longipilosa Knutson, 1972"
 ]
}

 The dataset includes 9 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0091888-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uuwvnp
title: Occurrence Download

description: A dataset containing 141 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Attalea speciosa Mart.)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 141 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0091887-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7803/203.05.1.5.10
title: BIBB-Schulabgängerbefragung 2005 (SV)
title: BIBB School Graduate Survey 2005 (SV)

description: Nebendatensatz: Sondervariablen
description: Befragung von Schulabgängern und Schulabgängerinnen aus allgemeinbildenden und beruflichen Schulen sowie beruflichen Vollzeitschulen zu den beruflichen Orientierungen der Jugendlichen und ihrem Berufswahlverhalten (Verbleib)
description: Telephone interview: CATI
description: alle in Privathaushalten lebenden deutschsprechenden Personen ab 14 Jahre in der Bundesrepublik Deutschland, die im Erhebungsjahr die allgemeinbildende Schule oder eine Schule oder Maßnahme zur beruflichen Grundbildung oder Berufsvorbereitung verlassen haben
description: ADM-Telefonstichprobendesign
DOI: 10.7803/203.04.1.5.10
title: BIBB-Schulabgängerbefragung 2004 (SV)
title: BIBB School Graduate Survey 2004 (SV)

description: Nebendatensatz: Sondervariablen
description: Befragung von Schulabgängern und Schulabgängerinnen aus allgemeinbildenden und beruflichen Schulen sowie beruflichen Vollzeitschulen zu den beruflichen Orientierungen der Jugendlichen und ihrem Berufswahlverhalten (Verbleib)
description: Telephone interview: CATI
description: alle in Privathaushalten lebenden deutschsprechenden Personen ab 14 Jahre in der Bundesrepublik Deutschland, die im Erhebungsjahr die allgemeinbildende Schule oder eine Schule oder Maßnahme zur beruflichen Grundbildung oder Berufsvorbereitung verlassen haben
description: ADM-Telefonstichprobendesign
DOI: 10.60600/yu/clawet/eakxmg
title: 1225.wav

description: :unav
DOI: 10.60600/yu/clawet/sb5uf2
title: 1084.TextGrid

description: :unav
DOI: 10.7803/672.08.1.4.10
title: BIBB/DIE-wbmonitor 2008 – Personalentwicklung bei Weiterbildungsanbietern (VT)
title: Monitoring Continuing Education [wbmonitor] 2008 (VT)

description: Nebendatensatz: Volltextvariablen
description: Befragung von Anbietern allgemeiner und beruflicher Weiterbildung zu Strukturdaten der Einrichtungen und wirtschaftlicher Lage sowie zum Thema "Personalentwicklung"
description: Self-administered questionnaire: Web-based
description: Institutionalisierte oder betrieblich verfasste Anbieter, die in Deutschland Weiterbildung als Haupt- oder Nebenaufgabe regelmäßig oder wiederkehrend offen zugänglich anbieten
description: ohne Auswahlverfahren
DOI: 10.60600/yu/clawet/wpbfbc
title: 1228.wav

description: :unav
DOI: 10.15468/dl.c44a8s
title: Occurrence Download

description: A dataset containing 880 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Temnostoma alternans Loew, 1864"
 ]
}

 The dataset includes 880 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0091889-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7803/374.11.1.2.10
title: BIBB Erhebung - Betriebliche Qualifikationsbedarfsdeckung im Fachkräftebereich wachsender Beschäftigungsfelder - PEREK (GWA)
title: BIBB-Survey 2011 - Meeting qualification requirements in growing employment fields for skilled workers (GWA)

description: Hauptdatensatz
description: Befragung von Betrieben in wachsenden Beschäftigungsfeldern über Formen der Qualifikationsbedarfsdeckung im Fachkräftebereich
description: Self-administered questionnaire: Paper
description: Betriebe aus elf Wirtschaftsklassen, die zwischen den Jah­ren 2007 und 2009 einen überdurchschnittlichen Beschäfti­gungszuwachs aufwiesen
description: disproportional geschichtet Zufallsauswahl (geschichtet nach Betriebsgrößenklasse und Wirtschaftszweig)
DOI: 10.7803/374.11.1.3.10
title: BIBB Erhebung - Betriebliche Qualifikationsbedarfsdeckung im Fachkräftebereich wachsender Beschäftigungsfelder - PEREK (REG)
title: BIBB-Survey 2011 - Meeting qualification requirements in growing employment fields for skilled workers (REG)

description: Nebendatensatz: regionale Indikatoren
description: Befragung von Betrieben in wachsenden Beschäftigungsfeldern über Formen der Qualifikationsbedarfsdeckung im Fachkräftebereich
description: Self-administered questionnaire: Paper
description: Betriebe aus elf Wirtschaftsklassen, die zwischen den Jah­ren 2007 und 2009 einen überdurchschnittlichen Beschäfti­gungszuwachs aufwiesen
description: disproportional geschichtet Zufallsauswahl (geschichtet nach Betriebsgrößenklasse und Wirtschaftszweig)
DOI: 10.15468/dl.2758fp
title: Occurrence Download

description: A dataset containing 1277 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Bactris gasipaes Kunth)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1277 records from 98 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0091890-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7803/375.07.2.2.10
title: BIBB-Kammerbefragung zur Aussetzung der Ausbilder-Eignungsverordnung (AEVO) 2007 (GWA)
title: BIBB Chamber Survey on the Stay of the "Ausbildungseignerverordnung" 2007 (GWA)

description: Hauptdatensatz
description: Befragung der Ausbildungsberatenden der 54 Handwerks- und 81 Industrie- und Handelskammern in Deutschland
description: Onlinebefragung
description: alle Handwerks- und Industrie- und Handelskammern in Deutschland
description: kein Auswahlverfahren
DOI: 10.7803/375.07.2.4.10
title: BIBB-Kammerbefragung zur Aussetzung der Ausbilder-Eignungsverordnung (AEVO) 2007 (VT)
title: BIBB Chamber Survey on the Stay of the "Ausbildungseignerverordnung" 2007 (VT)

description: Nebendatensatz: Volltextvariablen
description: Befragung der Ausbildungsberatenden der 54 Handwerks- und 81 Industrie- und Handelskammern in Deutschland
description: Onlinebefragung
description: alle Handwerks- und Industrie- und Handelskammern in Deutschland
description: kein Auswahlverfahren
DOI: 10.60600/yu/clawet/dafwce
title: 1098.wav

description: :unav
DOI: 10.60600/yu/clawet/ko8tbj
title: 1396.TextGrid

description: :unav
DOI: 10.25934/pr00009354
title: Tumor Mutational Burden (TMB) Dichotomization for Immunotherapy Outcome Prediction

description: Immunotherapy is a cancer treatment that harness the body’s immune system to attack cancer cells. With a response rate of about 15 to 20% across multiple cancer types, it can be a miraculous treatment for some patients, yet may not work for everyone. Moreover, it can result in negative outcomes in terms of expense, treatment related toxicity, and missed opportunities for other potentially effective treatments. 

Tumor Mutational Burden (TMB) is a measure of genetic mutations, or changes in the DNA, present in a cancerous tumor. TMB has garnered considerable attention in the ongoing development of immunotherapy as a potential marker for patient response. The concept behind using TMB as a biomarker (which is measurable indicator of a biological process, condition, or disease state) for immunotherapy lies in the idea that tumors with more mutations may produce more abnormal proteins, known as neoantigens, which can be targeted by the immune system. Several clinical studies have indicated that patients with tumors exhibiting higher TMB levels tend to respond positively to immunotherapy. However, determining the appropriate cutoff value for defining a “high TMB” (that is, TMB dichotomization) remains a challenge. Conflicting evidence in the literature on the choice of the TMB cutoff has led to confusion in clinical practice. 

Our research aims to address the critical issue of TMB dichotomization by analyzing data from multiple immunotherapy studies to identify a cutoff value that consistently predicts patient response. Through the aggregation of data from diverse studies and the application of advanced statistical methods for evaluating study replicability, we seek to establish a cutoff value that is both accurate and robust, ultimately leading to improved treatment outcomes for the approximately 1 in 5 people worldwide who develop cancer in their lifetime.
DOI: 10.15468/dl.rxw4dy
title: Occurrence Download

description: A dataset containing 529 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Temnostoma balyras (Walker, 1849)"
 ]
}

 The dataset includes 529 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0091891-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.60600/yu/clawet/veszah
title: 1078.wav

description: :unav
DOI: 10.6084/m9.figshare.26094013
title: Supplementary materials for "<i>Progesterone Receptor Signaling Promotes Cancer Associated Fibroblast Mediated Tumorigenicity in ER+ Breast Cancer</i>"

description: Abstract: Breast cancer progression involves intricate interactions between cancer cells and the tumor microenvironment (TME). This study elucidates the critical role of progesterone receptor (PR) signaling in mediating the pro-tumorigenic effects of cancer-associated fibroblasts (CAFs) on estrogen receptor-positive (ER+) luminal breast cancer cells. We demonstrate that CAFs produce physiologically relevant levels of estrogen and progesterone, which significantly contribute to breast cancer tumorigenicity. Specifically, CAF-conditioned media promoted PR-dependent anchorage-independent growth, tumorsphere formation/stem cell expansion, and CD44 upregulation. CAF cells formed co-clusters more frequently with PR+ breast cancer cells relative to PR-null models. While both PR isoforms mediated these actions, PR-A was a dominant driver of tumorsphere formation/stemness, while PR-B induced robust CD44 expression and CAF/tumor cell co-cluster formation. CD44 knockdown impaired CAF/tumor cell co-clustering. Fibroblast growth factor 2 (FGF2), also secreted by CAFs, phosphorylated PR (Ser294) in a MAPK-dependent manner and activated PR to enhance CD44 expression and breast cancer tumorigenicity. The FGFR inhibitor, PD173074, diminished CAF- and FGF2-dependent PR activation, tumorsphere formation, and co-clustering. In summary, this study reveals a novel mechanism through which stromal CAFs orchestrate elevated PR signaling in ER+ luminal breast cancer via secretion of both progesterone and FGF2, a potent activator of ERK1/2. Understanding tumor cell/TME interactions provides insights into potential therapeutic strategies aimed at disrupting PR- and/or FGF2/FGFR-dependent signaling pathways to prevent early metastasis in ER+ breast cancer patients.
DOI: 10.6084/m9.figshare.26094013.v1
title: Supplementary materials for "<i>Progesterone Receptor Signaling Promotes Cancer Associated Fibroblast Mediated Tumorigenicity in ER+ Breast Cancer</i>"

description: Abstract: Breast cancer progression involves intricate interactions between cancer cells and the tumor microenvironment (TME). This study elucidates the critical role of progesterone receptor (PR) signaling in mediating the pro-tumorigenic effects of cancer-associated fibroblasts (CAFs) on estrogen receptor-positive (ER+) luminal breast cancer cells. We demonstrate that CAFs produce physiologically relevant levels of estrogen and progesterone, which significantly contribute to breast cancer tumorigenicity. Specifically, CAF-conditioned media promoted PR-dependent anchorage-independent growth, tumorsphere formation/stem cell expansion, and CD44 upregulation. CAF cells formed co-clusters more frequently with PR+ breast cancer cells relative to PR-null models. While both PR isoforms mediated these actions, PR-A was a dominant driver of tumorsphere formation/stemness, while PR-B induced robust CD44 expression and CAF/tumor cell co-cluster formation. CD44 knockdown impaired CAF/tumor cell co-clustering. Fibroblast growth factor 2 (FGF2), also secreted by CAFs, phosphorylated PR (Ser294) in a MAPK-dependent manner and activated PR to enhance CD44 expression and breast cancer tumorigenicity. The FGFR inhibitor, PD173074, diminished CAF- and FGF2-dependent PR activation, tumorsphere formation, and co-clustering. In summary, this study reveals a novel mechanism through which stromal CAFs orchestrate elevated PR signaling in ER+ luminal breast cancer via secretion of both progesterone and FGF2, a potent activator of ERK1/2. Understanding tumor cell/TME interactions provides insights into potential therapeutic strategies aimed at disrupting PR- and/or FGF2/FGFR-dependent signaling pathways to prevent early metastasis in ER+ breast cancer patients.
DOI: 10.7803/672.19.1.3.10
title: BIBB/DIE-wbmonitor 2019 – Digitalisierung (REG)
title: Monitoring Continuing Education [wbmonitor] 2019 (REG)

description: Nebendatensatz: Regionaldaten
description: Befragung von Anbietern allgemeiner und beruflicher Weiterbildung zu Strukturdaten der Einrichtungen und wirtschaftlicher Lage sowie zum Thema Digitalisierung
description: Self-administered questionnaire: Web-based
description: Institutionalisierte oder betrieblich verfasste Anbieter, die in Deutschland Weiterbildung als Haupt- oder Nebenaufgabe regelmäßig oder wiederkehrend offen zugänglich anbieten
description: ohne Auswahlverfahren
DOI: 10.60600/yu/clawet/tl75pm
title: 1408.TextGrid

description: :unav
DOI: 10.7803/106.05.2.4.10
title: BIBB-Schülerbefragung zu Berufsbezeichnungen – Herbstbefragung 2005 (VT)
title: BIBB Student Survey on Occupational Titles 2005 (Autumn) (VT)

description: Nebendatensatz: Volltextvariablen
description: Untersuchung bei rund 530 Schülerinnen und Schülern der Abgangsklassen allgemeinbildender Schulen zum Thema Berufsbezeichnungen und ihrem Einfluss auf die Berufswahl der Jugendlichen
description: Klassenzimmerbefragung
description: Self-administered questionnaire: Paper
description: Schüler der Abgangsklassen allgemeinbildender Schulen in NRW
description: ohne Auswahlverfahren
DOI: 10.15468/dl.aksw3z
title: Occurrence Download

description: A dataset containing 83 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Livistona saribus (Lour.) Merr. ex A.Chev.)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 83 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0091892-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.60600/yu/clawet/wcegqy
title: 1318.TextGrid

description: :unav
DOI: 10.7803/106.05.1.1.10
title: BIBB-Schülerbefragung zu Berufsbezeichnungen – Frühjahrsbefragung 2005 (SUF)
title: BIBB Student Survey on Occupational Titles 2005 (Spring) (SUF)

description: Hauptdatensatz
description: Untersuchung bei rund 3.000 Schülerinnen und Schülern der Abgangsklassen allgemeinbildender Schulen zum Thema Berufsbezeichnungen und ihrem Einfluss auf die Berufswahl der Jugendlichen
description: Klassenzimmerbefragung
description: Self-administered questionnaire: Paper
description: Schüler der Abgangsklassen allgemeinbildender Schulen in 2 west- und 2 ostdeutschen Bundesländern
description: ohne Auswahlverfahren
DOI: 10.7803/106.05.2.1.10
title: BIBB-Schülerbefragung zu Berufsbezeichnungen – Herbstbefragung 2005 (SUF)
title: BIBB Student Survey on Occupational Titles 2005 (Autumn) (SUF)

description: Hauptdatensatz
description: Untersuchung bei rund 530 Schülerinnen und Schülern der Abgangsklassen allgemeinbildender Schulen zum Thema Berufsbezeichnungen und ihrem Einfluss auf die Berufswahl der Jugendlichen
description: Self-administered questionnaire: Paper
description: Klassenzimmerbefragung
description: Schüler der Abgangsklassen allgemeinbildender Schulen in NRW
description: ohne Auswahlverfahren
DOI: 10.15468/dl.vm3hnq
title: Occurrence Download

description: A dataset containing 365 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Temnostoma barberi Curran, 1939"
 ]
}

 The dataset includes 365 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0091893-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.60600/yu/clawet/gjagxb
title: 1180.TextGrid

description: :unav
DOI: 10.26093/cds/vizier.72731097
title: CCD photometry for E and S0 galaxies

description: VizieR online Data Catalogue associated with article published in journal Monthly Notices of the Royal Astronomical Society with title ' Multicolour CCD surface photometry for E and S0 galaxies in 10 clusters' (bibcode: 1995MNRAS.273.1097J)
DOI: 10.26093/cds/vizier.72730157
title: A faint galaxy survey to B = 24.

description: VizieR online Data Catalogue associated with article published in journal Monthly Notices of the Royal Astronomical Society with title ' A faint galaxy redshift survey to B = 24.' (bibcode: 1995MNRAS.273..157G)
DOI: 10.60600/yu/clawet/lkxma6
title: 1107.wav

description: :unav
DOI: 10.15468/dl.b77wxz
title: Occurrence Download

description: A dataset containing 5825 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Livistona humilis R.Br.)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 5825 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0091894-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.