cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5970925.v6
title: USPTO patents data

description: A patent is a set of exclusive rights granted to an inventor by a sovereign state for a solution, be it a product or a process, for a solution to a particular technological problem. The United States Patent and Trademark Office (USPTO) is part of the US department of Commerce that provides patents to businesses and inventors for their inventions in addition to registration of products and intellectual property identification. Each year, the USPTO grants over 150,000 patents to individuals and companies all over the world. As of December 2011, 8,743,423 patents have been issued and 16,020,302 applications have been received. The USPTO patents are accepted in electronic form and are filed as PDF documents. However, the indexing is not perfect and it is cumbersome to search through the PDF documents. Additionally, Google has also made all the patents available for download in XML format, albeit only from the years 2002 to 2015. Thus, we converted this bulk of data (spanning 13 years) from XML to RDF to conform to the Linked Data principles.
DOI: 10.6084/m9.figshare.5970925.v7
title: USPTO patents data

description: A patent is a set of exclusive rights granted to an inventor by a sovereign state for a solution, be it a product or a process, for a solution to a particular technological problem. The United States Patent and Trademark Office (USPTO) is part of the US department of Commerce that provides patents to businesses and inventors for their inventions in addition to registration of products and intellectual property identification. Each year, the USPTO grants over 150,000 patents to individuals and companies all over the world. As of December 2011, 8,743,423 patents have been issued and 16,020,302 applications have been received. The USPTO patents are accepted in electronic form and are filed as PDF documents. However, the indexing is not perfect and it is cumbersome to search through the PDF documents. Additionally, Google has also made all the patents available for download in XML format, albeit only from the years 2002 to 2015. Thus, we converted this bulk of data (spanning 13 years) from XML to RDF to conform to the Linked Data principles.
DOI: 10.6084/m9.figshare.5970925.v8
title: USPTO patents data

description: A patent is a set of exclusive rights granted to an inventor by a sovereign state for a solution, be it a product or a process, for a solution to a particular technological problem. The United States Patent and Trademark Office (USPTO) is part of the US department of Commerce that provides patents to businesses and inventors for their inventions in addition to registration of products and intellectual property identification. Each year, the USPTO grants over 150,000 patents to individuals and companies all over the world. As of December 2011, 8,743,423 patents have been issued and 16,020,302 applications have been received. The USPTO patents are accepted in electronic form and are filed as PDF documents. However, the indexing is not perfect and it is cumbersome to search through the PDF documents. Additionally, Google has also made all the patents available for download in XML format, albeit only from the years 2002 to 2015. Thus, we converted this bulk of data (spanning 13 years) from XML to RDF to conform to the Linked Data principles.
DOI: 10.6084/m9.figshare.5970886
title: Time Perception EEG data

description: Time Perception EEG data
DOI: 10.6084/m9.figshare.5970886.v1
title: Over.zip

description: Overestimation Group
DOI: 10.6084/m9.figshare.5970823
title: Linguistic laws in chimpanzee gestural communication

description: Datasets to calculate compression in chimpanzee gesture types and sequences
DOI: 10.6084/m9.figshare.5970820
title: R-code from Genetic rescue in an inbred Arctic fox (<i>Vulpes lagopus</i>) population

description: Code for all analyses performed in R
DOI: 10.6084/m9.figshare.5970820.v1
title: R-code from Genetic rescue in an inbred Arctic fox (<i>Vulpes lagopus</i>) population

description: Code for all analyses performed in R
DOI: 10.6084/m9.figshare.5970814
title: Dataset from Genetic rescue in an inbred Arctic fox (<i>Vulpes lagopus</i>) population

description: Genetic and life history data
DOI: 10.6084/m9.figshare.5970814.v1
title: Dataset from Genetic rescue in an inbred Arctic fox (<i>Vulpes lagopus</i>) population

description: Genetic and life history data
DOI: 10.6084/m9.figshare.5970808
title: Table S1. 12 genes responsible for temperature sensitivity were determined. from Genetic defects in SAPK signalling, chromatin regulation, vesicle transport and CoA-related lipid metabolism are rescued by rapamycin in fission yeast

description: Table S1. 12 genes responsible for temperature sensitivity were determined. In the Method column: SA: plasmid suppression analysis, TA: tetrad analysis, WGS: whole genome sequencing, ND: not determined; In the Base Change column: mutation in DNA sequence; In the AA change column: mutation in amino acid sequence; In the Plate position column: the originally stocked position in the library corresponding to Fig. S1.
DOI: 10.6084/m9.figshare.5970808.v1
title: Table S1. 12 genes responsible for temperature sensitivity were determined. from Genetic defects in SAPK signalling, chromatin regulation, vesicle transport and CoA-related lipid metabolism are rescued by rapamycin in fission yeast

description: Table S1. 12 genes responsible for temperature sensitivity were determined. In the Method column: SA: plasmid suppression analysis, TA: tetrad analysis, WGS: whole genome sequencing, ND: not determined; In the Base Change column: mutation in DNA sequence; In the AA change column: mutation in amino acid sequence; In the Plate position column: the originally stocked position in the library corresponding to Fig. S1.
DOI: 10.6084/m9.figshare.5970796
title: Effect of acrylamide and alpha lipoic acid treatment on oxidative stress and antioxidant defence indices in rat brain

description: This dataset consists of a single data table in .docx MS Word format presenting various oxidative stress and antioxidant defence indices in different rat groups undergoing acrylamide and alpha lipoic acid treatment.<br><b>Variables measured per group:</b><b>Lipid peroxidation</b> (nmoles of thiobarbituric reactive substances formed/minute/ mg protein)<br><b>Reduced glutathione</b> (μg of reduced glutathione formed/ mg protein<br><b>Ascorbic acid</b> (μg of ascorbic acid/ mg protein)<br><b>Superoxide dismutase </b>(units/mg protein. One unit = amount of enzyme which inhibits formazone formation by 50%.)<br><b>Protein</b> (mg/g tissue)<br><br><b>Treatment groups:</b><b>Group 1: </b>Control rats<b>Group 2:</b> Acrylamide group- Rats injected with 50 mg/kg body weight acrylamide, intraperitoneally for four weeks<b>Group 3: </b>Alpha lipoic acid group- Rats injected with 35 mg/kg body weight lipoic acid, intraperitoneally for four weeks<b>Group 4:</b> Alpha lipoic acid and acrylamide group - Rats injected with lipoic acid at dose of 35 mg/kg body weight followed by acrylamide 50 mg/kg body weight after one hour for four weeks. <br><b>Background:</b>The related study that generated this dataset investigates the possible protective effect of lipoic acid on acrylamide induced oxidative stress and antioxidant stress indices. <br>Quercetin (QE), a bioflavonoid present abundantly in fruits and vegetables, has been reported to possess antioxidant properties. Acrylamide (ACR) is formed in foods during cooking and is known to be neurotoxic.<br>21 day-old western albino rats, both male and female were obtained from the Animal Breeding Laboratory, King Saud University, Riyadh, Saudi Arabia, and kept in the Central Animal House Facility of the institute. Healthy Wistar rats weighing from 45 to 60 g were divided randomly into the four groups detailed above, consisting of six rats each.<br>See the related manuscript for further details of methodology.
DOI: 10.6084/m9.figshare.5970796.v1
title: Effect of acrylamide and alpha lipoic acid treatment on oxidative stress and antioxidant defence indices in rat brain

description: This dataset consists of a single data table in .docx MS Word format presenting various oxidative stress and antioxidant defence indices in different rat groups undergoing acrylamide and alpha lipoic acid treatment.<br><b>Variables measured per group:</b><b>Lipid peroxidation</b> (nmoles of thiobarbituric reactive substances formed/minute/ mg protein)<br><b>Reduced glutathione</b> (μg of reduced glutathione formed/ mg protein<br><b>Ascorbic acid</b> (μg of ascorbic acid/ mg protein)<br><b>Superoxide dismutase </b>(units/mg protein. One unit = amount of enzyme which inhibits formazone formation by 50%.)<br><b>Protein</b> (mg/g tissue)<br><br><b>Treatment groups:</b><b>Group 1: </b>Control rats<b>Group 2:</b> Acrylamide group- Rats injected with 50 mg/kg body weight acrylamide, intraperitoneally for four weeks<b>Group 3: </b>Alpha lipoic acid group- Rats injected with 35 mg/kg body weight lipoic acid, intraperitoneally for four weeks<b>Group 4:</b> Alpha lipoic acid and acrylamide group - Rats injected with lipoic acid at dose of 35 mg/kg body weight followed by acrylamide 50 mg/kg body weight after one hour for four weeks. <br><b>Background:</b>The related study that generated this dataset investigates the possible protective effect of lipoic acid on acrylamide induced oxidative stress and antioxidant stress indices. <br>Quercetin (QE), a bioflavonoid present abundantly in fruits and vegetables, has been reported to possess antioxidant properties. Acrylamide (ACR) is formed in foods during cooking and is known to be neurotoxic.<br>21 day-old western albino rats, both male and female were obtained from the Animal Breeding Laboratory, King Saud University, Riyadh, Saudi Arabia, and kept in the Central Animal House Facility of the institute. Healthy Wistar rats weighing from 45 to 60 g were divided randomly into the four groups detailed above, consisting of six rats each.<br>See the related manuscript for further details of methodology.
DOI: 10.6084/m9.figshare.5970760
title: Raw westernblot data for Fig.1C, S1G

description: <b>Contents:</b>These raw data files accompany Fig.1C and S1G of Sampattavanich et al., Cell Systems (2018). Refer to our Git repository for accompanying scripts. <br><b>To use this data with our Git Repository:</b>Placed these in the /rawdata/western folder.<br><b>Experimental Setup:</b>184A1 cells carrying the F3aN400-Venus reporter were serum deprived overnight before being stimulated with different growth factors, each at 100 ng/mL. Cell lysates were collected at 0, 15, 60, 180 and 480 minutes. Westernblot analysis was performed using antibodies against AKTS473, ERKT202/Y204, F3aN400S294, F3aN400S253 and beta-actin.
DOI: 10.6084/m9.figshare.5970760.v1
title: Raw westernblot data for Fig.1C, S1G

description: <b>Contents:</b>These raw data files accompany Fig.1C and S1G of Sampattavanich et al., Cell Systems (2018). Refer to our Git repository for accompanying scripts. <br><b>To use this data with our Git Repository:</b>Placed these in the /rawdata/western folder.<br><b>Experimental Setup:</b>184A1 cells carrying the F3aN400-Venus reporter were serum deprived overnight before being stimulated with different growth factors, each at 100 ng/mL. Cell lysates were collected at 0, 15, 60, 180 and 480 minutes. Westernblot analysis was performed using antibodies against AKTS473, ERKT202/Y204, F3aN400S294, F3aN400S253 and beta-actin.
DOI: 10.6084/m9.figshare.5970757
title: Raw data for Fig.6B

description: <b>Contents:</b><br>These raw data files accompany Fig.6B of Sampattavanich et al., Cell Systems (2018). Refer to accompanying Git repository for scripts used for Fig.6B. <br><b>To use this data with our Git Repository:</b>Placed these in the /rawdata/dualsensors folder.<br><b>Experimental Setup:</b><br>MCF10A cells were serum-starved for 6 hours and later were stimulated with growth factors. After 4 hours, cells were exposed to various inhibitors.<br>
DOI: 10.6084/m9.figshare.5970757.v2
title: Raw data for Fig.6B

description: <b>Contents:</b><br>These raw data files accompany Fig.6B of Sampattavanich et al., Cell Systems (2018). Refer to accompanying Git repository for scripts used for Fig.6B. <br><b>To use this data with our Git Repository:</b>Placed these in the /rawdata/dualsensors folder.<br><b>Experimental Setup:</b><br>MCF10A cells were serum-starved for 6 hours and later were stimulated with growth factors. After 4 hours, cells were exposed to various inhibitors.<br>
DOI: 10.6084/m9.figshare.5970757.v1
title: Raw data for Fig.6

description: <b>Contents:</b><br>These raw data files accompany Fig.6B of Sampattavanich et al., Cell Systems (2018). Refer to accompanying Git repository for scripts used for Fig.6B. These data should be placed in the rawdata/dualsensors folder.<br><b>Experimental Setup:</b><br>MCF10A cells were serum-starved for 6 hours and later were stimulated with growth factors. After 4 hours, cells were exposed to various inhibitors.<br>
DOI: 10.6084/m9.figshare.5970754
title: Raw data for Fig 7

description: <b>Contents:</b><br>These data relate to Fig.7 of Sampattavanich et al., Cell Systems (2018). Refer to accompanying Git repository for scripts used for Fig.7. <br><b>To use this data with our Git Repository:</b>Placed these in the /rawdata/fixedcell folder.<br>Each cell line has three .MAT files for three proteins: FoxO3, ERK and AKT. Each single_Protein variable has the dimension of TimePoint x Row x Column. <br><i>Raw Index</i> indicates growth factor types, each at 100 ng/mL: (1)EGF (2)IGF1 (3)FGF1 (4)HRG (5)HGF (6)EPR (7)BTC (8)Non-stimulated control<br><i>Column Index</i> indicates drug pre-treatment condition: (1)DMSO control (2)AKTi(10uM) (3)MEKi(10uM) (4)AKTi(10uM)+MEKi(10uM)<br><i><br></i><i>Timepoint Index</i> varies between cell lines<i>184A1</i>: 08-19-2013 (result 08-22-2013) including 13-timepoints: 0, 5, 10, 15, 20, 30, 45, 60, 90, 120, 180, 300, 480 minutes<br><i>MCF10A</i>: 11-26-2013 (result 11-29-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>SKBR3</i>: 10-22-2013 (result 10-25-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>BT-20</i>: 10-22-2013 (result 10-25-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>MCF7</i>: 11-05-2013 (result 11-09-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>T47D</i>: 11-26-2013 (result 11-29-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>Hs578T</i>: 11-05-2013 (result 11-08-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>MDA231</i>: 11-26-2013 (result 11-29-2013) including 8 time points:0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>HCC1806</i>: 12-17-2013 (result 12-20-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><b>Experimental Setup:</b><br>Cells were serum starved for 6 hours, and were then pre-treated with different inhibitor conditions for 1 hour. Cells were stimulated with different growth factor types, and fixed at various timepoints. Fixed cells were then stained with FoxO3, phospho-AKT, and phospho-ERK using standard immunofluorescent staining.
DOI: 10.6084/m9.figshare.5970754.v1
title: Raw data for Fig 7

description: <b>Contents:</b><br>These data relate to Fig.7 of Sampattavanich et al., Cell Systems (2018). Refer to accompanying Git repository for scripts used for Fig.7. <br><b>To use this data with our Git Repository:</b>Placed these in the /rawdata/fixedcell folder.<br>Each cell line has three .MAT files for three proteins: FoxO3, ERK and AKT. Each single_Protein variable has the dimension of TimePoint x Row x Column. <br><i>Raw Index</i> indicates growth factor types, each at 100 ng/mL: (1)EGF (2)IGF1 (3)FGF1 (4)HRG (5)HGF (6)EPR (7)BTC (8)Non-stimulated control<br><i>Column Index</i> indicates drug pre-treatment condition: (1)DMSO control (2)AKTi(10uM) (3)MEKi(10uM) (4)AKTi(10uM)+MEKi(10uM)<br><i><br></i><i>Timepoint Index</i> varies between cell lines<i>184A1</i>: 08-19-2013 (result 08-22-2013) including 13-timepoints: 0, 5, 10, 15, 20, 30, 45, 60, 90, 120, 180, 300, 480 minutes<br><i>MCF10A</i>: 11-26-2013 (result 11-29-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>SKBR3</i>: 10-22-2013 (result 10-25-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>BT-20</i>: 10-22-2013 (result 10-25-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>MCF7</i>: 11-05-2013 (result 11-09-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>T47D</i>: 11-26-2013 (result 11-29-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>Hs578T</i>: 11-05-2013 (result 11-08-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>MDA231</i>: 11-26-2013 (result 11-29-2013) including 8 time points:0,0:15,0:30,1,1:30,2,3,4HRs.<br><i>HCC1806</i>: 12-17-2013 (result 12-20-2013) including 8 time points: 0,0:15,0:30,1,1:30,2,3,4HRs.<br><b>Experimental Setup:</b><br>Cells were serum starved for 6 hours, and were then pre-treated with different inhibitor conditions for 1 hour. Cells were stimulated with different growth factor types, and fixed at various timepoints. Fixed cells were then stained with FoxO3, phospho-AKT, and phospho-ERK using standard immunofluorescent staining.
DOI: 10.6084/m9.figshare.5970751
title: Magma–magma interaction in the mantle recorded by megacrysts from Cenozoic basalts in eastern China

description: Recently, besides magma–rock and rock–rock reaction, magma–magma interaction at mantle depth has been proposed as an alternative mechanism to produce diverse compositions of mantle. Clinopyroxene and garnet megacrysts can be formed at this condition since this process is suggested to trigger the high-pressure crystallization of these minerals. Studying on this type of megacrysts provides us important information on the genesis of intraplate basalts and the chemical heterogeneity of mantle, which has not been reported before. Here we present major, trace elements and Sr isotopes of clinopyroxene and garnet megacrysts hosted by Cenozoic basalts from Penglai, Shandong province of eastern China. The megacrysts are suggested to be formed by crystallization from magma because of their moderate Mg<sup>#</sup> (74.0–79.9 for clinopyroxene and 58.8–65.0 for garnet) and good correlations between Mg<sup>#</sup> and other elements (e.g. CaO, TiO<sub>2</sub>, Nd and Lu). The potential crystallized temperature and pressure are estimated to be ~1156°C at 2.6–3.2 GPa, which should occur at the top of asthenosphere or lithosphere–asthenosphere boundary based on the lithospheric thickness in this area (~60–70 km). Since the megacrysts show variable Sr isotopes, and their primary magmas show negative correlation between <sup>87</sup>Sr/<sup>86</sup>Sr and Hf/Sm ratios, as well as positive correlation between Ba/Th and Nb/U for clinopyroxenes, it indicates a mixing origin. Cenozoic basalts from Shandong show a mixing trend, and high-pressure fractionation of clinopyroxene and garnet is suggested to occur during the mixing process because some basalts show significantly higher Sm/Yb and lower Ca/Al ratios than others, which again supports our interpretations. When compared to megacrysts and host basalts from other locations of eastern China, similar geochemical variations and a deviation trend relative to the mixing trend are also observed. It indicates that magma–magma interaction can be a common process for formation of intraplate basalts and basalt-borne megacrysts.
DOI: 10.6084/m9.figshare.5970751.v1
title: Magma–magma interaction in the mantle recorded by megacrysts from Cenozoic basalts in eastern China

description: Recently, besides magma–rock and rock–rock reaction, magma–magma interaction at mantle depth has been proposed as an alternative mechanism to produce diverse compositions of mantle. Clinopyroxene and garnet megacrysts can be formed at this condition since this process is suggested to trigger the high-pressure crystallization of these minerals. Studying on this type of megacrysts provides us important information on the genesis of intraplate basalts and the chemical heterogeneity of mantle, which has not been reported before. Here we present major, trace elements and Sr isotopes of clinopyroxene and garnet megacrysts hosted by Cenozoic basalts from Penglai, Shandong province of eastern China. The megacrysts are suggested to be formed by crystallization from magma because of their moderate Mg<sup>#</sup> (74.0–79.9 for clinopyroxene and 58.8–65.0 for garnet) and good correlations between Mg<sup>#</sup> and other elements (e.g. CaO, TiO<sub>2</sub>, Nd and Lu). The potential crystallized temperature and pressure are estimated to be ~1156°C at 2.6–3.2 GPa, which should occur at the top of asthenosphere or lithosphere–asthenosphere boundary based on the lithospheric thickness in this area (~60–70 km). Since the megacrysts show variable Sr isotopes, and their primary magmas show negative correlation between <sup>87</sup>Sr/<sup>86</sup>Sr and Hf/Sm ratios, as well as positive correlation between Ba/Th and Nb/U for clinopyroxenes, it indicates a mixing origin. Cenozoic basalts from Shandong show a mixing trend, and high-pressure fractionation of clinopyroxene and garnet is suggested to occur during the mixing process because some basalts show significantly higher Sm/Yb and lower Ca/Al ratios than others, which again supports our interpretations. When compared to megacrysts and host basalts from other locations of eastern China, similar geochemical variations and a deviation trend relative to the mixing trend are also observed. It indicates that magma–magma interaction can be a common process for formation of intraplate basalts and basalt-borne megacrysts.
DOI: 10.6084/m9.figshare.5970748
title: Plasma proteomic analysis of systemic lupus erythematosus patients using liquid chromatography/tandem mass spectrometry with label-free quantification

description: This is a comparative proteomic analysis study to identify the differentially expressed proteins from systemic lupus erythematosus patients. The plasma samples of SLE were compared with healthy controls using mass spectrometry analysis followed by label-free quantification. A total of 19 differentially expressed proteins were identified from SLE and these play important roles in inflammation, complement activation and acute phase responses of SLE.
DOI: 10.6084/m9.figshare.5970748.v1
title: Plasma proteomic analysis of systemic lupus erythematosus patients using liquid chromatography/tandem mass spectrometry with label-free quantification

description: This is a comparative proteomic analysis study to identify the differentially expressed proteins from systemic lupus erythematosus patients. The plasma samples of SLE were compared with healthy controls using mass spectrometry analysis followed by label-free quantification. A total of 19 differentially expressed proteins were identified from SLE and these play important roles in inflammation, complement activation and acute phase responses of SLE.
DOI: 10.6084/m9.figshare.5970223
title: Banded mongoose scent presentation data from Kin discrimination via odour in the cooperatively breeding banded mongoose

description: The excel file contains all scent presentation data used in this study, including all response and predictor variables used in statistical models. Column titles map onto variable titles used in statistical models and presented in model output tables.
DOI: 10.6084/m9.figshare.5970223.v1
title: Banded mongoose scent presentation data from Kin discrimination via odour in the cooperatively breeding banded mongoose

description: The excel file contains all scent presentation data used in this study, including all response and predictor variables used in statistical models. Column titles map onto variable titles used in statistical models and presented in model output tables.
DOI: 10.6084/m9.figshare.5970208
title: Additional file 7: of Loss of miR-204 expression is a key event in melanoma

description: Table S3. Clinical information of the TCGA cohort. (XLSX 44Â kb)