cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7364066
title: Description of a new species of <i>Haminoea</i> (Gastropoda: Cephalaspidea) from India, with an account of the diversity of the genus in the Indo-West Pacific

description: In this paper current knowledge on the diversity of the gastropod cephalaspidean genus <i>Haminoea</i> from India is revised. A comprehensive literature review was undertaken and novel specimens were collected. Specimens from India were DNA barcoded using the gene cytochrome <i>c</i> oxidase sub-unit I and a Bayesian gene tree together with an Automatic Barcode Gap Discovery (ABGD) species delimitation analysis were inferred to compare Indian samples with species from the Indo-West Pacific. The most comprehensive DNA data set to date of the genus <i>Haminoea</i> is included and new morpho-anatomical features of Indo-West Pacific species were generated through fine anatomical work and scanning electron microscopy. A critical appraisal of previous records of the country is included and a new species, <i>Haminoea aptei</i> sp. nov., is described from the Andaman Islands and Lakshadweep Islands, India. www.zoobank.org/urn:lsid:zoobank.org:pub:90C191A9-5CA6-4BC6-84E3-B1A26674FA1B
DOI: 10.6084/m9.figshare.7364075
title: Supplementary Material for: Tumor-Secreted Exosomal miR-222 Promotes Tumor Progression via Regulating P27 Expression and Re-Localization in Pancreatic Cancer

description: <b><i>Background/Aims:</i></b> MicroRNAs (miRNAs) or exosomes have recently been shown to play vital regulatory or communication roles in cancer biology. However, the roles and mechanisms of exosomal miRNAs in pancreatic ductal adenocarcinoma (PDAC) remain unknown. We aimed to investigate the detailed roles and mechanisms of tumor-generated exosomal miRNAs in progression of PDAC. <b><i>Methods:</i></b> miR-222 was identified by miRNA microarray studies in exosomes of PDAC cells, and further analyzed in plasma exosomes of PDAC patients. The regulatory mechanisms of miR-222 were explored by qRT-PCR, WB, dual-luciferase assays and immunofluorescence or confocal analysis. Other biological assays include transwell, xenograft models and so on. <b><i>Results:</i></b> miR-222 is significantly high in tumor exosomes or highly invasive PDAC cells. miR-222 could directly regulate p27 to promote cell invasion and proliferation. miR-222 could also activate AKT by inhibiting PPP2R2A expression, thus inducing p27 phosphorylation and cytoplasmic p27 expression to promote cell survival, invasion and metastasis. Expressions of miR-222 and p27 were significantly inversely correlated, and cytoplasmic p27, instead of nuclear p27, was associated with tumor malignancy. miR-222 could be transmitted between PDAC cells via exosome communication, and the exosomal miR-222 communication is functional. Plasma exosomal miR-222 in PDAC patients was high and significantly correlated to tumor size and TNM stage, and was an independent risk factor for PDAC patient survival. <b><i>Conclusion:</i></b> Tumor-generated exosomes could promote invasion and proliferation of neighboring tumor cells via miR-222 transmission, the plasma exosomal miR-222 plays important roles and may be a useful prognostic maker in PDAC.
DOI: 10.6084/m9.figshare.7364066.v1
title: Description of a new species of <i>Haminoea</i> (Gastropoda: Cephalaspidea) from India, with an account of the diversity of the genus in the Indo-West Pacific

description: In this paper current knowledge on the diversity of the gastropod cephalaspidean genus <i>Haminoea</i> from India is revised. A comprehensive literature review was undertaken and novel specimens were collected. Specimens from India were DNA barcoded using the gene cytochrome <i>c</i> oxidase sub-unit I and a Bayesian gene tree together with an Automatic Barcode Gap Discovery (ABGD) species delimitation analysis were inferred to compare Indian samples with species from the Indo-West Pacific. The most comprehensive DNA data set to date of the genus <i>Haminoea</i> is included and new morpho-anatomical features of Indo-West Pacific species were generated through fine anatomical work and scanning electron microscopy. A critical appraisal of previous records of the country is included and a new species, <i>Haminoea aptei</i> sp. nov., is described from the Andaman Islands and Lakshadweep Islands, India. www.zoobank.org/urn:lsid:zoobank.org:pub:90C191A9-5CA6-4BC6-84E3-B1A26674FA1B
DOI: 10.7284/103202
title: Singlebeam Echosounder data collected during research cruise OC476-01 using a Knudsen 320B/R instrument system onboard the platform RV Oceanus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.17045/sthlmuni.7364063
title: Recombination_rates.R

description: Collections of scripts and data used in the article "Holocentric chromosomes facilitate high rates of recombination and genetic variation in Lepidoptera "<br>* Script used to determine the recombination rates of both species: "Recombination_rates.R"<br>
DOI: 10.17045/sthlmuni.7364063.v1
title: Recombination_rates.R

description: Collections of scripts and data used in the article "Holocentric chromosomes facilitate high rates of recombination and genetic variation in Lepidoptera "<br>* Script used to determine the recombination rates of both species: "Recombination_rates.R"<br>
DOI: 10.7284/103205
title: Multiplexed data collected during research cruise OC476-02 using a WHOI Calliope instrument system onboard the platform RV Oceanus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.17045/sthlmuni.7364039
title: Pieris_napi_linkage_map_removed_markers.tsv

description: Collections of scripts and data used in the article "Holocentric chromosomes facilitate high rates of recombination and genetic variation in Lepidoptera "<br><br>* List of markers not used in the analysis: "Pieris_napi_linkage_map_removed_markers.tsv" (n=261)<br><br>
DOI: 10.17045/sthlmuni.7364042
title: Pieris_napi_linkage_map_all_markers.tsv

description: Collections of scripts and data used in the article "Holocentric chromosomes facilitate high rates of recombination and genetic variation in Lepidoptera "<br><br>* Linkage map from Pieris napi with all markers: "Pieris_napi_linkage_map_all_markers.tsv" (n=3262)<br><br>
DOI: 10.17045/sthlmuni.7364036
title: Pieris_napi_linkage_map_retained_markers.tsv

description: Collections of scripts and data used in the article "Holocentric chromosomes facilitate high rates of recombination and genetic variation in Lepidoptera "<br><br>* List of markers retained for analysis: "Pieris_napi_linkage_map_retained_markers.tsv" (n=3001)<br><br>
DOI: 10.17045/sthlmuni.7364039.v1
title: Pieris_napi_linkage_map_removed_markers.tsv

description: Collections of scripts and data used in the article "Holocentric chromosomes facilitate high rates of recombination and genetic variation in Lepidoptera "<br><br>* List of markers not used in the analysis: "Pieris_napi_linkage_map_removed_markers.tsv" (n=261)<br><br>
DOI: 10.17045/sthlmuni.7364042.v1
title: Pieris_napi_linkage_map_all_markers.tsv

description: Collections of scripts and data used in the article "Holocentric chromosomes facilitate high rates of recombination and genetic variation in Lepidoptera "<br><br>* Linkage map from Pieris napi with all markers: "Pieris_napi_linkage_map_all_markers.tsv" (n=3262)<br><br>
DOI: 10.7284/103207
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise OC476-02 using a Hawaii UHDAS instrument system onboard the platform RV Oceanus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.17045/sthlmuni.7364033
title: Bombyx_mori_linkage_map_all_markers.tsv

description: Collections of scripts and data used in the article "Holocentric chromosomes facilitate high rates of recombination and genetic variation in Lepidoptera "<br>* Linkage map from Bombyx mori with all markers: "Bombyx_mori_linkage_map_all_markers.tsv"<br><br><br>
DOI: 10.17045/sthlmuni.7364036.v1
title: Pieris_napi_linkage_map_retained_markers.tsv

description: Collections of scripts and data used in the article "Holocentric chromosomes facilitate high rates of recombination and genetic variation in Lepidoptera "<br><br>* List of markers retained for analysis: "Pieris_napi_linkage_map_retained_markers.tsv" (n=3001)<br><br>
DOI: 10.17045/sthlmuni.7364033.v1
title: Bombyx_mori_linkage_map_all_markers.tsv

description: Collections of scripts and data used in the article "Holocentric chromosomes facilitate high rates of recombination and genetic variation in Lepidoptera "<br>* Linkage map from Bombyx mori with all markers: "Bombyx_mori_linkage_map_all_markers.tsv"<br><br><br>
DOI: 10.7284/103206
title: Singlebeam Echosounder data collected during research cruise OC476-02 using a Knudsen 320B/R instrument system onboard the platform RV Oceanus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103208
title: Multiplexed data collected during research cruise OC476-03 using a WHOI Calliope instrument system onboard the platform RV Oceanus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103209
title: Multiplexed data collected during research cruise OC477 using a WHOI Calliope instrument system onboard the platform RV Oceanus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103210
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise OC477 using a Hawaii UHDAS instrument system onboard the platform RV Oceanus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103211
title: Multiplexed data collected during research cruise OC478 using a WHOI Calliope instrument system onboard the platform RV Oceanus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103213
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise OC478 using a Hawaii UHDAS instrument system onboard the platform RV Oceanus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103212
title: Singlebeam Echosounder data collected during research cruise OC478 using a Knudsen 320B/R instrument system onboard the platform RV Oceanus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106312
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE08-19 using a Northstar 941X instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106313
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE08-20 using a Northstar 941X instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106314
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE08-21 using a Northstar 941X instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/116104
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise PE08-22 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106315
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE08-22 using a Northstar 941X instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7363772
title: Banjarmasin Rivers field data.csv

description: This file containt several primary data regarding river water quality paramters, such as DO, BOD, COD, pH, Velocity, TSS, TDS, temperature and Coliform.<br>
DOI: 10.6084/m9.figshare.7363772.v1
title: Banjarmasin Rivers field data.csv

description: This file containt several primary data regarding river water quality paramters, such as DO, BOD, COD, pH, Velocity, TSS, TDS, temperature and Coliform.<br>
DOI: 10.7284/106316
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE08-24 using a Northstar 941X instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7363760
title: Supplementary Material for: Intrinsic Surface Effects of Tantalum and Titanium on Integrin α5β1/ ERK1/2 Pathway-Mediated Osteogenic Differentiation in Rat Bone Mesenchymal Stromal Cells

description: <b><i>Background/Aims:</i></b> Accumulating evidence demonstrates the superior osteoinductivity of tantalum (Ta) to that of titanium (Ti); however, the mechanisms underlying these differences are unclear. Thus, the objective of the present study was to examine the effects of Ta and Ti surfaces on osteogenesis using rat bone mesenchymal stromal cells (rBMSCs) as a model. <b><i>Methods:</i></b> Ta and Ti substrates were polished to a mirror finish to minimize the influences of structural factors, and the intrinsic surface effects of the two materials on the integrin α5β1/mitogen-activated protein kinases 3 and 1 (ERK1/2) cascade-mediated osteogenesis of rBMSCs were evaluated. Alkaline phosphatase (ALP) activity, Alizarin Red staining, real-time polymerase chain reaction, and western blot assays of critical osteogenic markers were conducted to evaluate the effects of the two substrates on cell osteogenesis. Moreover, the role of the integrin α5β1/ERK1/2 pathway on the osteoinductive performance of Ta and Ti was assessed by up- and down-regulation of integrin α5 and β1 with RNA interference, as well as through ERK1/2 inhibition with U0126. <b><i>Results:</i></b> Osteogenesis of rBMSCs seeded on the Ta surface was superior to that of cells seeded on the Ti surface in terms of ALP activity, extracellular matrix calcification, and the expression of integrin α5, integrin β1, ERK1/2, Runt-related transcription factor 2, osteocalcin, collagen type I, and ALP at both the mRNA and protein levels. Moreover, down-regulation of integrin α5 or integrin β1, or ERK1/2 inhibition severely impaired the osteoblastic differentiation on the Ta surface. By contrast, over-expression of integrin α5 or integrin β1 improved osteogenesis on the Ti substrates, while subsequent ERK1/2 inhibition abrogated this effect. <b><i>Conclusion:</i></b> The integrin α5β1/ERK1/2 pathway plays a crucial role in regulating rBMSCs osteogenic differentiation; thus, the greater ability of a Ta surface to trigger integrin α5β1/ERK1/2 signaling may explain its better osteoinductivity. The different effects of Ta and Ti surfaces on rBMSC osteogenesis are considered to be related to the conductive behaviors between integrin α5β1 and the oxides spontaneously formed on the two metals. These results should facilitate the development of engineering strategies with Ta and Ti surfaces for improved osteogenesis in endosteal implants.
DOI: 10.6084/m9.figshare.7363760.v1
title: Supplementary Material for: Intrinsic Surface Effects of Tantalum and Titanium on Integrin α5β1/ ERK1/2 Pathway-Mediated Osteogenic Differentiation in Rat Bone Mesenchymal Stromal Cells

description: <b><i>Background/Aims:</i></b> Accumulating evidence demonstrates the superior osteoinductivity of tantalum (Ta) to that of titanium (Ti); however, the mechanisms underlying these differences are unclear. Thus, the objective of the present study was to examine the effects of Ta and Ti surfaces on osteogenesis using rat bone mesenchymal stromal cells (rBMSCs) as a model. <b><i>Methods:</i></b> Ta and Ti substrates were polished to a mirror finish to minimize the influences of structural factors, and the intrinsic surface effects of the two materials on the integrin α5β1/mitogen-activated protein kinases 3 and 1 (ERK1/2) cascade-mediated osteogenesis of rBMSCs were evaluated. Alkaline phosphatase (ALP) activity, Alizarin Red staining, real-time polymerase chain reaction, and western blot assays of critical osteogenic markers were conducted to evaluate the effects of the two substrates on cell osteogenesis. Moreover, the role of the integrin α5β1/ERK1/2 pathway on the osteoinductive performance of Ta and Ti was assessed by up- and down-regulation of integrin α5 and β1 with RNA interference, as well as through ERK1/2 inhibition with U0126. <b><i>Results:</i></b> Osteogenesis of rBMSCs seeded on the Ta surface was superior to that of cells seeded on the Ti surface in terms of ALP activity, extracellular matrix calcification, and the expression of integrin α5, integrin β1, ERK1/2, Runt-related transcription factor 2, osteocalcin, collagen type I, and ALP at both the mRNA and protein levels. Moreover, down-regulation of integrin α5 or integrin β1, or ERK1/2 inhibition severely impaired the osteoblastic differentiation on the Ta surface. By contrast, over-expression of integrin α5 or integrin β1 improved osteogenesis on the Ti substrates, while subsequent ERK1/2 inhibition abrogated this effect. <b><i>Conclusion:</i></b> The integrin α5β1/ERK1/2 pathway plays a crucial role in regulating rBMSCs osteogenic differentiation; thus, the greater ability of a Ta surface to trigger integrin α5β1/ERK1/2 signaling may explain its better osteoinductivity. The different effects of Ta and Ti surfaces on rBMSC osteogenesis are considered to be related to the conductive behaviors between integrin α5β1 and the oxides spontaneously formed on the two metals. These results should facilitate the development of engineering strategies with Ta and Ti surfaces for improved osteogenesis in endosteal implants.
DOI: 10.7284/106317
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE08-25 using a Northstar 941X instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106318
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE08-29 using a Northstar 941X instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7363736
title: Output file for GLMM on strategies

description: GLMM for four different straegies: win-stay, win-shift, lose-stay and lose-shift.
DOI: 10.6084/m9.figshare.7363736.v1
title: Output file for GLMM on strategies

description: GLMM for four different straegies: win-stay, win-shift, lose-stay and lose-shift.
DOI: 10.6084/m9.figshare.7363751.v1
title: Age at Menarche and Epithelial Ovarian Cancer Risk: A Meta-analysis and Mendelian Randomization Study

description: Supplemental data for the paper "Age at Menarche and Epithelial Ovarian Cancer Risk: A Meta-analysis and Mendelian Randomization Study"<br>
DOI: 10.7284/116109
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise PE08-30 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7363733
title: Supplementary Material for: The Spleen Promotes the Secretion of CCL2 and Supports an M1 Dominant Phenotype in Hepatic Macrophages During Liver Fibrosis

description: <b><i>Background/Aims:</i></b> Liver fibrosis is a complex process of tissue remodeling in response to injury. Hepatic macrophages have been identified as a key player in this process. As the largest lymphoid organ in the body, the spleen exerts both local and systemic effects on immune cell response. Splenectomy can improve hepatic function during the treatment of liver cirrhosis. However, whether the spleen influences disease progression through the modulation of hepatic macrophages remains unclear. <b><i>Methods:</i></b> We examined <i>ex vivo</i> hepatic macrophage responses from splenectomized or sham operated rats and performed splenocyte adoptive transfer studies, in combination with <i>in vivo</i> CCL2 blockade, in splenectomized or sham operated rats. <b><i>Results:</i></b> We found that splenectomy reduced fibrosis severity and monocyte/ macrophage infiltration within the injured liver. Splenectomy also reduced secretion of the monocyte chemokine CCL2 by hepatic macrophages. <i>Ex vivo</i>, splenocytes, especially splenic macrophages, promoted CCL2 secretion via upregulation of SOCS3 signaling in hepatic macrophages. Migration of splenic monocytes in response to conditioned medium from hepatic macrophages was inhibited by the blockade of SOCS3–CCL2–CCR2 signaling. Splenectomy also attenuated the establishment of an M1-dominant hepatic macrophage phenotype whilst the adoptive transfer of splenocytes could partly reverse this effect and exacerbate fibrosis. However, CCL2 blockade following adoptive splenocyte transfer restored the protective effects of splenectomy. <b><i>Conclusion:</i></b> Our study demonstrates that splenic macrophages can promote hepatic macrophage secretion of CCL2, which in turn facilitates monocyte recruitment and the establishment of an M1-dominant hepatic macrophage phenotype, and thus increase the severity of liver fibrosis.
DOI: 10.7284/106319
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE08-30 using a Northstar 941X instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7363709
title: Raw data

description: Raw data
DOI: 10.6084/m9.figshare.7363709.v1
title: Raw data

description: Raw data
DOI: 10.7284/106320
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE08-35 using a Northstar 941X instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7363679
title: Supple Table 1 content

description: For specific contents we refer to the supplementary materials section for the article: <br>Yaple, Z., Martinez-Saito, M., Novikov, N., Altukhov, D., Shestakova, A., & Klucharev, V. (2018). Power of feedback-induced beta oscillations reflect omission of rewards: evidence from an EEG gambling study. Frontiers in Neuroscience, 12.<br>
DOI: 10.6084/m9.figshare.7363700
title: Supplementary Mat Table 2

description: For specific contents we refer to the supplementary materials section for the article: <br>Yaple, Z., Martinez-Saito, M., Novikov, N., Altukhov, D., Shestakova, A., & Klucharev, V. (2018). Power of feedback-induced beta oscillations reflect omission of rewards: evidence from an EEG gambling study. Frontiers in Neuroscience, 12.
DOI: 10.6084/m9.figshare.7363679.v1
title: Supple Table 1 content

description: For specific contents we refer to the supplementary materials section for the article: <br>Yaple, Z., Martinez-Saito, M., Novikov, N., Altukhov, D., Shestakova, A., & Klucharev, V. (2018). Power of feedback-induced beta oscillations reflect omission of rewards: evidence from an EEG gambling study. Frontiers in Neuroscience, 12.<br>
DOI: 10.6084/m9.figshare.7363700.v1
title: Supplementary Mat Table 2

description: For specific contents we refer to the supplementary materials section for the article: <br>Yaple, Z., Martinez-Saito, M., Novikov, N., Altukhov, D., Shestakova, A., & Klucharev, V. (2018). Power of feedback-induced beta oscillations reflect omission of rewards: evidence from an EEG gambling study. Frontiers in Neuroscience, 12.
DOI: 10.7284/106321
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE08-36 using a Northstar 941X instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7363673
title: Output file for GLMM 2

description: Content of Table 2 in manuscript
DOI: 10.6084/m9.figshare.7363673.v1
title: Output file for GLMM 2

description: Content of Table 2 in manuscript
DOI: 10.6084/m9.figshare.7363667
title: Output file for GLMM on risk

description: Outfile for the GLMM (Table 1)