cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7177628.v1
title: The Marine Crocodile <i>Maledictosuchus</i> (Thalattosuchia, Metriorhynchidae) from the Kimmeridgian Deposits of Tlaxiaco, Oaxaca, Southern Mexico

description: Metriorhynchidae is a family of highly specialized, extinct marine crocodylomorphs that inhabited the Paleopacific Ocean and the Tethys Sea during the Jurassic and the Early Cretaceous. Numerous metriorhynchid fossil specimens have been recovered from European and South American localities, but North American records of this family are still scarce. Here, we describe a recently recovered Kimmeridgian metriorhynchid from the Sabinal Formation, Tlaxiaco Basin, Oaxaca, Mexico, that is attributable to the genus <i>Maledictosuchus</i>. This genus was known previously from a single species, <i>M. riclaensis</i>, from the Middle Jurassic of Spain. The characteristics of this Mexican specimen support its identification as a new species, <i>Maledictosuchus nuyivijanan</i>, sp. nov. The two species differ in dental and skull-roof morphology. The frontal of <i>M. nuyivijanan</i>, sp. nov., has a wide, rounded anterior end that extends rostrally to the same level of the anterior end of the prefrontal, whereas the frontal of <i>M. riclaensis</i> has a narrow anterior end that is located posterior to the anterior end of the prefrontal. Additionally, the teeth of <i>M. nuyivijanan</i>, sp. nov., exhibit bicarinated crowns, a smooth labial surface, and a lingual surface ornamented with longitudinal ridges, whereas those of <i>M. riclaensis</i> lack carinae and the labial and lingual surfaces are covered with considerably more conspicuous ridges. The North American occurrence of <i>M. nuyivijanan</i>, sp. nov., suggests a wider temporal and geographic distribution for the genus <i>Maledictosuchus</i> across the Tethys Sea than previously thought: from the Callovian in Europe to the Kimmeridgian in southern North America. http://zoobank.org/urn:lsid:zoobank.org:pub:6F6CC892-B6E1-4069-AF3A-D05792AC0F7A SUPPLEMENTAL DATA—Supplemental materials are available for this article for free at www.tandfonline.com/UJVP Citation for this article: Barrientos-Lara, J. I., J. Alvarado-Ortega, and M. S. Fernández. 2018. The marine crocodile Maledictosuchus (Thalattosuchia, Metriorhynchidae) from the Kimmeridgian deposits of Tlaxiaco, Oaxaca, southern Mexico. Journal of Vertebrate Paleontology. DOI:10.1080/02724634.2018.1478419.
DOI: 10.7284/107551
title: GNSS (Global Navigation Satellite System) data collected during research cruise TUIM02MV using a Ashtech ADU2 instrument system onboard the platform RV Melville

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7177628.v3
title: The marine crocodile <i>Maledictosuchus</i> (Thalattosuchia, Metriorhynchidae) from the Kimmeridgian deposits of Tlaxiaco, Oaxaca, southern Mexico

description: Metriorhynchidae is a family of highly specialized, extinct marine crocodylomorphs that inhabited the Paleopacific Ocean and the Tethys Sea during the Jurassic and the Early Cretaceous. Numerous metriorhynchid fossil specimens have been recovered from European and South American localities, but North American records of this family are still scarce. Here, we describe a recently recovered Kimmeridgian metriorhynchid from the Sabinal Formation, Tlaxiaco Basin, Oaxaca, Mexico, that is attributable to the genus <i>Maledictosuchus</i>. This genus was known previously from a single species, <i>M. riclaensis</i>, from the Middle Jurassic of Spain. The characteristics of this Mexican specimen support its identification as a new species, <i>Maledictosuchus nuyivijanan</i>, sp. nov. The two species differ in dental and skull-roof morphology. The frontal of <i>M. nuyivijanan</i>, sp. nov., has a wide, rounded anterior end that extends rostrally to the same level of the anterior end of the prefrontal, whereas the frontal of <i>M. riclaensis</i> has a narrow anterior end that is located posterior to the anterior end of the prefrontal. Additionally, the teeth of <i>M. nuyivijanan</i>, sp. nov., exhibit bicarinated crowns, a smooth labial surface, and a lingual surface ornamented with longitudinal ridges, whereas those of <i>M. riclaensis</i> lack carinae and the labial and lingual surfaces are covered with considerably more conspicuous ridges. The North American occurrence of <i>M. nuyivijanan</i>, sp. nov., suggests a wider temporal and geographic distribution for the genus <i>Maledictosuchus</i> across the Tethys Sea than previously thought: from the Callovian in Europe to the Kimmeridgian in southern North America. http://zoobank.org/urn:lsid:zoobank.org:pub:6F6CC892-B6E1-4069-AF3A-D05792AC0F7A SUPPLEMENTAL DATA—Supplemental materials are available for this article for free at www.tandfonline.com/UJVP Citation for this article: Barrientos-Lara, J. I., J. Alvarado-Ortega, and M. S. Fernández. 2018. The marine crocodile <i>Maledictosuchus</i> (Thalattosuchia, Metriorhynchidae) from the Kimmeridgian deposits of Tlaxiaco, Oaxaca, southern Mexico. Journal of Vertebrate Paleontology. DOI:10.1080/02724634.2018.1478419.
DOI: 10.6084/m9.figshare.7177595
title: A standardised database of Chinese emotional film clips

description: Film clips are widely used in emotion research due to their relatively high ecological validity. Although researchers have established various film clip sets for different cultures, the few that exist related to Chinese culture do not adequately address positive emotions. The main purposes of the present study were to establish a standardised database of Chinese emotional film clips that could elicit more categories of reported positive emotions compared to the existing databases and to expand the available film clips that can be used as neutral materials. Two experiments were conducted to construct the database. In experiment 1, 111 film clips were selected from more than one thousand Chinese movies for preliminary screening. After 315 participants viewed and evaluated these film clips, 39 excerpts were selected for further validation. In experiment 2, 147 participants watched and rated these 39 film clips, as well as another 8 excerpts chosen from the existing databases, to compare their validity. Eventually, 22 film excerpts that successfully evoked three positive emotions (joy, amusement, and tenderness), four negative emotions (moral disgust, anger, fear, and sadness), and neutrality formed the standardised database of Chinese emotional film clips.
DOI: 10.6084/m9.figshare.7177595.v1
title: A standardised database of Chinese emotional film clips

description: Film clips are widely used in emotion research due to their relatively high ecological validity. Although researchers have established various film clip sets for different cultures, the few that exist related to Chinese culture do not adequately address positive emotions. The main purposes of the present study were to establish a standardised database of Chinese emotional film clips that could elicit more categories of reported positive emotions compared to the existing databases and to expand the available film clips that can be used as neutral materials. Two experiments were conducted to construct the database. In experiment 1, 111 film clips were selected from more than one thousand Chinese movies for preliminary screening. After 315 participants viewed and evaluated these film clips, 39 excerpts were selected for further validation. In experiment 2, 147 participants watched and rated these 39 film clips, as well as another 8 excerpts chosen from the existing databases, to compare their validity. Eventually, 22 film excerpts that successfully evoked three positive emotions (joy, amusement, and tenderness), four negative emotions (moral disgust, anger, fear, and sadness), and neutrality formed the standardised database of Chinese emotional film clips.
DOI: 10.6084/m9.figshare.7177628.v2
title: The Marine Crocodile <i>Maledictosuchus</i> (Thalattosuchia, Metriorhynchidae) from the Kimmeridgian Deposits of Tlaxiaco, Oaxaca, Southern Mexico

description: Metriorhynchidae is a family of highly specialized, extinct marine crocodylomorphs that inhabited the Paleopacific Ocean and the Tethys Sea during the Jurassic and the Early Cretaceous. Numerous metriorhynchid fossil specimens have been recovered from European and South American localities, but North American records of this family are still scarce. Here, we describe a recently recovered Kimmeridgian metriorhynchid from the Sabinal Formation, Tlaxiaco Basin, Oaxaca, Mexico, that is attributable to the genus <i>Maledictosuchus</i>. This genus was known previously from a single species, <i>M. riclaensis</i>, from the Middle Jurassic of Spain. The characteristics of this Mexican specimen support its identification as a new species, <i>Maledictosuchus nuyivijanan</i>, sp. nov. The two species differ in dental and skull-roof morphology. The frontal of <i>M. nuyivijanan</i>, sp. nov., has a wide, rounded anterior end that extends rostrally to the same level of the anterior end of the prefrontal, whereas the frontal of <i>M. riclaensis</i> has a narrow anterior end that is located posterior to the anterior end of the prefrontal. Additionally, the teeth of <i>M. nuyivijanan</i>, sp. nov., exhibit bicarinated crowns, a smooth labial surface, and a lingual surface ornamented with longitudinal ridges, whereas those of <i>M. riclaensis</i> lack carinae and the labial and lingual surfaces are covered with considerably more conspicuous ridges. The North American occurrence of <i>M. nuyivijanan</i>, sp. nov., suggests a wider temporal and geographic distribution for the genus <i>Maledictosuchus</i> across the Tethys Sea than previously thought: from the Callovian in Europe to the Kimmeridgian in southern North America. http://zoobank.org/urn:lsid:zoobank.org:pub:6F6CC892-B6E1-4069-AF3A-D05792AC0F7A SUPPLEMENTAL DATA—Supplemental materials are available for this article for free at www.tandfonline.com/UJVP Citation for this article: Barrientos-Lara, J. I., J. Alvarado-Ortega, and M. S. Fernández. 2018. The marine crocodile Maledictosuchus (Thalattosuchia, Metriorhynchidae) from the Kimmeridgian deposits of Tlaxiaco, Oaxaca, southern Mexico. Journal of Vertebrate Paleontology. DOI:10.1080/02724634.2018.1478419.
DOI: 10.7284/107549
title: Gravimeter data collected during research cruise TUIM02MV using a Bell BGM-3 instrument system onboard the platform RV Melville

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7177589
title: Supplementary Material for: Cell-Free DNA and Neuromediators in Detecting Aggressive Variant Prostate Cancer

description: <b><i>Background:</i></b> Aggressive variant transformation in metastatic castration-resistant prostate cancer (mCRPC) represents an under-recognized phenomenon. There is an urgent need for non-invasive biomarkers to detect these variants and identify treatment alternatives. <b><i>Methods:</i></b> A prospective observational pilot study in mCRPC patients receiving treatment with cabazitaxel (CAB) was conducted. Neuromediators were sequentially evaluated and their impact on disease endpoints calculated. Targeted next-generation sequencing (NGS) of cell-free DNA (cfDNA) was also performed in a highly pretreated subset of patients. <b><i>Results:</i></b> 23 patients were included. Estimated effects indicate that neuron-specific enolase (NSE) levels at baseline may be correlated with overall survival (NSE unit 18.3 ng/ml: HR1.262 (95% confidence interval (CI) 0.985-1.616)) and that chromogranin A (CGA) may be correlated with progression-free survival (CGA unit 98.1 ng/ml: HR1.341 (95% CI 1.011-1.778)). cfDNA analysis revealed mutations annotated in prostate cancer (PCA) and small cell cancers (SCC). 1 patient showed elevated neuromediators along with annotated mutations in PCA and SCC, potentially indicating aggressive variant cancer. In 3 patients KIT mutations (e.g. pM541L, pV654A) known to be tissue-based biomarkers with level 1 evidence for the treatment with imatinib and sunitinib were found. <b><i>Conclusions:</i></b> Sequential analysis of neuromediators and targeted NGS of cfDNA provide insight for the estimation of tumor heterogeneity under therapy with CAB.
DOI: 10.6084/m9.figshare.7177592
title: Dataset for: An EM-type approach for classification of bivariate MALDI-MS data and identification of high fertility markers

description: Dairy cows are responsible for a fair amount of gas emissions in the atmosphere (mainly methane, ammonia and carbon dioxide) as well as waste outputs. Therefore, identifying high fertility breeding cows and increasing fertility rates can diminish pollution as well as help minimize the effect of global warming and improve the environmental impact of the farming system. As a step to achieve this goal, changes in the lipid composition of the bovine uterus exposed to greater (LF-LCL group) or lower (SF-SCL group) concentrations of progesterone during post-ovulation were investigated by matrix assisted laser desorption ionization-mass spectrometry (MALDI-MS). Two measurements were made for each cow and after preprocessing the data, the measurements available to analysis consist of relative intensities at significant 76 mass-to-charge ratio ({\it m/z}) values identifying specific ions in the spectra. Due to the small sample size, 7 cows in LF-LCL group and 10 cows in SF-SCL group, the usual methods could not discriminate between groups. A model-based approach was therefore proposed and due to the discrete nature of the data, a truncated mixture of bivariate beta distributions was fitted to the data using EM algorithm. However, unlike the usual approach for mixture density estimation problems, to each 76 {\it m/z} value we assign an unobserved label shared by all cows in the same group. The role of these labels is similar to frailty effect in survival models, in which all cows in a given group would share some random effect due to group effect. These labels will be used to identify {\it m/z} values which could potentially account for different fertility rates.
DOI: 10.6084/m9.figshare.7177592.v1
title: Dataset for: An EM-type approach for classification of bivariate MALDI-MS data and identification of high fertility markers

description: Dairy cows are responsible for a fair amount of gas emissions in the atmosphere (mainly methane, ammonia and carbon dioxide) as well as waste outputs. Therefore, identifying high fertility breeding cows and increasing fertility rates can diminish pollution as well as help minimize the effect of global warming and improve the environmental impact of the farming system. As a step to achieve this goal, changes in the lipid composition of the bovine uterus exposed to greater (LF-LCL group) or lower (SF-SCL group) concentrations of progesterone during post-ovulation were investigated by matrix assisted laser desorption ionization-mass spectrometry (MALDI-MS). Two measurements were made for each cow and after preprocessing the data, the measurements available to analysis consist of relative intensities at significant 76 mass-to-charge ratio ({\it m/z}) values identifying specific ions in the spectra. Due to the small sample size, 7 cows in LF-LCL group and 10 cows in SF-SCL group, the usual methods could not discriminate between groups. A model-based approach was therefore proposed and due to the discrete nature of the data, a truncated mixture of bivariate beta distributions was fitted to the data using EM algorithm. However, unlike the usual approach for mixture density estimation problems, to each 76 {\it m/z} value we assign an unobserved label shared by all cows in the same group. The role of these labels is similar to frailty effect in survival models, in which all cows in a given group would share some random effect due to group effect. These labels will be used to identify {\it m/z} values which could potentially account for different fertility rates.
DOI: 10.7284/107550
title: Meteorological Station data collected during research cruise TUIM02MV using a SIO MET-System instrument system onboard the platform RV Melville

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7177586
title: Courtship behavior as a war of attrition in a simultaneous hermaphrodite: Supplementary material

description: In outcrossing hermaphrodites with unilateral mating, where for each mating interaction one individual assumes the female role and the other the male role, each individual must take a sexual role opposite to that of its partner. In the polychaete worm <i>Ophryotrocha diadema</i>, the decision on sexual role is likely at stake during the day-long courtship. Here we describe, for the first time, courtship and pseudocopulation in this species, quantify their pre-copulatory behavior, and search for behavioral traits predicting the prospective sexual role (i.e., behavioral sexual dimorphism), by analyzing the courtship behavior of pairs of worms during the day preceding a mating event. We did not find any behavioral cue predicting the sexual role worms were to play; partners’ pre-copulatory behaviors were qualitatively and quantitatively symmetrical. We interpret this as the outcome of a war of attrition where partners share the preference for the same sexual role, and both hide their ‘willingness’ to play the less preferred one, until one individual reaches its cost threshold and accepts the less preferred sexual role.
DOI: 10.6084/m9.figshare.7177586.v1
title: Courtship behavior as a war of attrition in a simultaneous hermaphrodite: Supplementary material

description: In outcrossing hermaphrodites with unilateral mating, where for each mating interaction one individual assumes the female role and the other the male role, each individual must take a sexual role opposite to that of its partner. In the polychaete worm <i>Ophryotrocha diadema</i>, the decision on sexual role is likely at stake during the day-long courtship. Here we describe, for the first time, courtship and pseudocopulation in this species, quantify their pre-copulatory behavior, and search for behavioral traits predicting the prospective sexual role (i.e., behavioral sexual dimorphism), by analyzing the courtship behavior of pairs of worms during the day preceding a mating event. We did not find any behavioral cue predicting the sexual role worms were to play; partners’ pre-copulatory behaviors were qualitatively and quantitatively symmetrical. We interpret this as the outcome of a war of attrition where partners share the preference for the same sexual role, and both hide their ‘willingness’ to play the less preferred one, until one individual reaches its cost threshold and accepts the less preferred sexual role.
DOI: 10.7284/107553
title: Multibeam Echosounder data collected during research cruise TUIM02MV using a SeaBeam 2000 instrument system onboard the platform RV Melville

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7177577
title: Dataset 2 ORF classifications.xlsx

description: ORF classifications
DOI: 10.7284/104994
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise TUIM03MV using a RDI OS-75 instrument system onboard the platform RV Melville

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7177574
title: Dataset 3 Genes designated essential in CGD.xlsx

description: Genes designated essential in CGD
DOI: 10.6084/m9.figshare.7177571
title: Dataset 1 Training sets and exclusions.xlsx

description: Training sets and exclusions
DOI: 10.6084/m9.figshare.7177565
title: Dataset 6 Essentiality Confidence scores.xlsx

description: Essentiality Confidence scores
DOI: 10.7284/104983
title: Expendable Probe data collected during research cruise TUIM03MV using a Sippican MK21 instrument system onboard the platform RV Melville

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7177562
title: Dataset 8 Insertions per ORF for all libraries.xlsx

description: Insertions per ORF for all libraries
DOI: 10.6084/m9.figshare.7177559
title: Dataset 5 CUG clade homologs.xlsx

description: CUG clade homologs
DOI: 10.7284/104981
title: GNSS (Global Navigation Satellite System) data collected during research cruise TUIM03MV using a Furuno GP-90D instrument system onboard the platform RV Melville

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7177556
title: Dataset 7 Ess-no human homolog.xlsx

description: Ess-no human homolog
DOI: 10.6084/m9.figshare.7177553
title: Dataset 4 GO CaEss ScSpNE.xlsx

description: Dataset 4 GO CaEss ScSpNE
DOI: 10.7284/104982
title: GNSS (Global Navigation Satellite System) data collected during research cruise TUIM03MV using a Trimble NT-200D instrument system onboard the platform RV Melville

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7177547
title: Supplementary Material for: Thermal Response of Epigenetic Genes Informs Turtle Sex Determination with and without Sex Chromosomes

description: Vertebrate sexual fate can be established by environmental cues (e.g., temperature-dependent sex determination, TSD) or by genetic content (genotypic sex determination, GSD). While methylation is implicated in TSD, the influence of broader epigenetic processes in sexual development remains obscure. Here, we investigated for the first time the embryonic gonadal expression of the genome-wide epigenetic machinery in turtles, including genes and noncoding RNAs (ncRNAs) involved in DNA/histone acetylation, methylation, ubiquitination, phosphorylation, and RNAi. This machinery was active and differentially thermosensitive in TSD versus GSD (ZZ/ZW) turtles. Methylation and histone acetylation genes responded the strongest. The results suggest these working hypotheses: (i) TSD might be mediated by epigenetically controlled hormonal pathways (via acetylation, methylation, and ncRNAs), or by (ii) hormonally controlled epigenetic processes, and (iii) key epigenetic events prior to the canonical thermosensitive period may explain differences between TSD and GSD. Novel epigenetic candidate regulators other than methylation were identified, including previously unknown ncRNAs that could potentially mediate gonadogenesis. These findings illuminate the molecular ecology of reptilian sex determination and permitted hypothesis building to help guide future functional studies on the epigenetic transduction of external cues in TSD versus GSD systems.