cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.1301275
title: Salinity Yield Modeling Data - Upper Colorado River Basin, Nauman et al

description: This data set was developed for salinity yield modeling in the Upper Colorado River Basin in preparation of the paper "Salinity yield modeling of the Upper Colorado River Basin using 30-meter resolution soil maps and machine learning" that is to be submitted to Water Resources Research. A github repository was also prepared to document the use of this data in the paper, and is available at https://github.com/naumi421/UCRB_Salinity. Please see the included file "README_SalinityYieldModel_documentation_initial_table_ReviewData.docx" for detailed descriptions of all included files. These data are preliminary or provisional and are subject to revision. They are being provided to meet the need for timely best science. The data have not received final approval by the U.S. Geological Survey (USGS) and are provided on the condition that neither the USGS nor the U.S. Government shall be held liable for any damages resulting from the authorized or unauthorized use of the data.
DOI: 10.5281/zenodo.5138143
title: Strategic basin and delta planning increases the resilience of the Mekong Delta under future uncertainty

description: # Geospatial data and analysis results for: Schmitt R. J. P., Giuliani, M., Bizzi, S., Kondolf, G. M., Daily, G. C., Castelletti, A. (2021). Strategic basin and delta planning increases the resilience of the Mekong Delta under future uncertainty (accepted for publication in the Proceedings of the National Academy of Sciences). <br> # Prepared by R. Schmitt (rschmitt@stanford.edu), July 2021. # Abstract: The climate resilience of river deltas is threatened by rising sea levels, accelerated land subsidence, and reduced sediment supply from contributing river basins. Yet, these uncertain and rapidly changing threats are rarely considered in conjunction. Here we provide an integrated assessment, on basin- and delta-scales, to identify key planning levers for increasing the climate resilience of the Mekong Delta. We find, first, that 23 % to 90 % of this unusually productive delta might fall below the sea level by 2100, with the large uncertainty driven mainly by future management of groundwater pumping and associated land subsidence. Second, maintaining sediment supply from the basin is crucial, under all scenarios, to maintaining delta land and enhancing the climate resilience of the system. We then use a bottom-up approach to identify basin development scenarios that are compatible with maintaining sediment supply at current levels. This analysis highlights, third, that strategic placement of hydropower dams will be more important for maintaining sediment supply than either projected increases in sediment yields or sediment management at individual dams. Our results demonstrate (1) the needs for integrated planning across basin and delta scales, (2) the role of river sediment management as a nature-based solution to increase delta resilience, and (3) global benefits from strategic basin management to maintain resilient deltas, especially under uncertain and changing conditions. # Contents:<br> Mekong_Basin_geomorphic provinces.gpkg: location of geomorphic provinces and the associated sediment load. Digtized and modified from Kondolf et al., 2014<br> Schmitt_et_al_PNAS_2020-26127P.m: Script demonstrating the robust analysis and the derivation of decision surfaces (e.g., Fig. 3, f, g and Figure 4)<br> Data PNAS_2020-26127P.mat: Resimulation data (i.e., sediment yield and dam sediment trapping multipliers and the response in terms of sediment delivery to the delta)
DOI: 10.5281/zenodo.5138142
title: Strategic basin and delta planning increases the resilience of the Mekong Delta under future uncertainty

description: # Geospatial data and analysis results for: Schmitt R. J. P., Giuliani, M., Bizzi, S., Kondolf, G. M., Daily, G. C., Castelletti, A. (2021). Strategic basin and delta planning increases the resilience of the Mekong Delta under future uncertainty (accepted for publication in the Proceedings of the National Academy of Sciences). <br> # Prepared by R. Schmitt (rschmitt@stanford.edu), July 2021. # Abstract: The climate resilience of river deltas is threatened by rising sea levels, accelerated land subsidence, and reduced sediment supply from contributing river basins. Yet, these uncertain and rapidly changing threats are rarely considered in conjunction. Here we provide an integrated assessment, on basin- and delta-scales, to identify key planning levers for increasing the climate resilience of the Mekong Delta. We find, first, that 23 % to 90 % of this unusually productive delta might fall below the sea level by 2100, with the large uncertainty driven mainly by future management of groundwater pumping and associated land subsidence. Second, maintaining sediment supply from the basin is crucial, under all scenarios, to maintaining delta land and enhancing the climate resilience of the system. We then use a bottom-up approach to identify basin development scenarios that are compatible with maintaining sediment supply at current levels. This analysis highlights, third, that strategic placement of hydropower dams will be more important for maintaining sediment supply than either projected increases in sediment yields or sediment management at individual dams. Our results demonstrate (1) the needs for integrated planning across basin and delta scales, (2) the role of river sediment management as a nature-based solution to increase delta resilience, and (3) global benefits from strategic basin management to maintain resilient deltas, especially under uncertain and changing conditions. # Contents:<br> Mekong_Basin_geomorphic provinces.gpkg: location of geomorphic provinces and the associated sediment load. Digtized and modified from Kondolf et al., 2014<br> Schmitt_et_al_PNAS_2020-26127P.m: Script demonstrating the robust analysis and the derivation of decision surfaces (e.g., Fig. 3, f, g and Figure 4)<br> Data PNAS_2020-26127P.mat: Resimulation data (i.e., sediment yield and dam sediment trapping multipliers and the response in terms of sediment delivery to the delta)
DOI: 10.5281/zenodo.2546864
title: Available water capacity (awc) soil maps of the Upper Colorado River Basin

description: Repository includes maps of available water capacity as defined by United States soil survey program (1/3 to 15 bar). The creation and interpretation of this data is documented in the following article. Please note this article has not been reviewed yet and this citation will be updated as the peer review process proceeds. Nauman, T. W., Duniway, M. C., In Preparation. Predictive reconstruction of soil survey property maps for field scale adaptive land management. Soil Science Society of America Journal. File Name Details: ACCURACY!! Please see manuscript and Github repository for full details on accuracy. We do provide cross validation (CV) accuracy plots in this repository for both the overall sample (NRCS field pedons plus NRCS laboratory pedons; file ending _CV_plots.tif) and for just the CV results at laboratory pedons (file ending _CV_SCD_plots.tif). These plots compare CV predictions with observed values relative to a 1:1 line. Values plotted near the 1:1 line are more accurate. Note that values are plotted in hex-bin density scatter plots because of the large number of observations (most are &gt;3000). Elements are separated by underscore (_) in the following sequence: property_r_depth_cm_geometry_model_additional_elements.extension Example: awc_r_0_cm_2D_QRF.tif Indicates available water content (awc) at 0 cm depth using a 2D model (separate model for each depth) employing a quantile regression forest. This file is the raster prediction map for this model. There may be additional GIS files associated with this file (e.g. pyramids) that have the same file name, but different extensions. The following elements may also exist on the end of filenames indicating other spatial files that characterize a given model's uncertainty (see below). _95PI_h: Indicates the layer is the upper 95% prediction interval value. _95PI_l: Indicates the layer is the lower 95% prediction interval value. _95PI_relwidth: Indicates the layer is the 95% relative prediction interval (RPI). The RPI is a standardization of the prediction interval that indicates that model is constraining uncertainty relative to the original sample. RPI values less than one represent uncertainty is being improved by the model relative to the original sample, and values less than 0.5 indicate low uncertainty in predictions. See paper listed above and also Nauman and Duniway (In revision) for more details on RPI. References Nauman, T. W., and Duniway, M. C., In Revision, Relative prediction intervals reveal larger uncertainty in 3D approaches to predictive digital soil mapping of soil properties with legacy data: Geoderma.
DOI: 10.15139/s3/yogiag
title: Replication Data for: Risk and Reform: Explaining Support for Constitutional Convention Referendums

description: Scholars of comparative constitutionalism and direct democracy agree that economic conditions affect public support for constitutional reform but disagree as to how. Prospect theory suggests both approaches may be correct, depending on the political and economic context in which voters operate. Fourteen states periodically ask their citizens whether to call a state constitutional convention, making this the oldest form of direct democracy in the United States. We test our theory in preelection polls in two of these states and a survey experiment. The results indicate negative perceptions of economic and government performance increase support for conventions when voters view them as opportunities to correct problems. On the other hand, if a convention represents a chance to improve on an acceptable status quo, voters with positive performance evaluations become more supportive. Our findings contribute to the heuristics literature and inform normative debates over direct democracy and popular constitutionalism.
DOI: 10.5281/zenodo.5138164
title: Fluctuating hydrodynamics of chiral active fluids

description: Data for all the figures in the paper "Fluctuating hydrodynamics of chiral active fluids".
DOI: 10.5281/zenodo.5138008
title: Large SAT Benchmark Suite for Certified SAT Solving with GPU Accelerated Inprocessing

description: This submission includes the SAT benchmark dataset for "Certified SAT Solving with GPU Accelerated Inprocessing" article. The dataset is intended to evaluate the performance of ParaFROST GPU solver and to compare with the state of the art.
DOI: 10.5281/zenodo.5138007
title: Large SAT Benchmark Suite for Certified SAT Solving with GPU Accelerated Inprocessing

description: This submission includes the SAT benchmark dataset for "Certified SAT Solving with GPU Accelerated Inprocessing" article. The dataset is intended to evaluate the performance of ParaFROST GPU solver and to compare with the state of the art.
DOI: 10.15139/s3/cjxtlk
title: Replication Data for: State Coalitions, Informational Signals, and Success as Amicus Curiae at the United States Supreme Court

description: States are uniquely situated as both individual governments in the federal system and entities that represent the interests of their citizens. So, what makes groups of states successful when they lobby the Supreme Court as amicus curiae filers? I argue that it is not just the number of states included in a coalition that matters, but rather which states are included. In this paper I offer a theory that implies certain types of coalitions will be more influential than others, as these coalitions can vary in how representative they are of public preferences. I use a dataset on state amicus curiae filings from 1960 to 2013 to test the implications of my theory. I find that the regional diversity of coalitions increases the odds of state amicus curiae filers obtaining their preferred outcome, but the ideological heterogeneity of the group of states does not. This latter result is interesting given that it is contrary to the theoretical expectations of the existing scholarship on state amicus filings.
DOI: 10.15139/s3/wk5ek6
title: Replication Data for: Relative Unemployment, Political Information and the Job Approval Ratings of State Governors and Legislatures

description: Research finds that voters benchmark the state's unemployment level to the nation's when holding state policy makers accountable. Yet benchmarking requires some voter knowledge if the standard is to be applied correctly as an accountability rule. This paper leverages the fact that voters have more knowledge about their state governors than legislatures assess how much knowledge is necessary for holding these policy makers accountable. Using pooled Cooperative Congressional Election Study data from 2006-2016, results find that knowledge has stronger mediating effects for the state legislature than governor. Further, despite the low knowledge levels among voters about the state legislature, collectively there appears to be enough knowledge to hold that policy making body accountable. The conclusion offers directions for future research.
DOI: 10.5281/zenodo.5138139
title: Duplicate Bug Report Detection using an Attention-basedPre-trained Neural Language Model

description: A BERT based Approach for Automatic Duplicate Bug Report Detection
DOI: 10.5281/zenodo.5119739
title: Duplicate Bug Report Detection using an Attention-basedPre-trained Neural Language Model

description: A BERT based Approach for Automatic Duplicate Bug Report Detection
DOI: 10.15139/s3/iomjdg
title: Replication Data for: Voting Lines, Equal Treatment, and Early Voting Check-In Times in Florida

description: Lines at the polls raise the cost of voting and can precipitate unequal treatment of voters. Research on voting lines is nonetheless hampered by a fundamental measurement problem: little is known about the distribution of time voters spend in line prior to casting ballots. We argue that early, in-person voter check-in times allow us identify individuals who waited in line to vote. Drawing on election administrative records from two General Elections in Florida---1,031,179 check-ins from 2012 and 1,846,845 from 2016---we find that minority voters incurred disproportionately long wait times in 2012 and that in-person voters who waited excessively in 2012 had a slightly lower probability---approximately one percent---of turning out to vote in 2016, ceteris paribus. These individuals also had slightly lower turnout probabilities in the 2014 Midterm Election, ceteris paribus. Our results draw attention to the ongoing importance of the administrative features of elections that influence the cost of voting and ultimately the extent to which voters are treated equally.
DOI: 10.15139/s3/vxw3kr
title: Replication Data for: Selecting Chief Justices by Peer Vote

description: What characteristics do state supreme court justices prioritize when choosing chiefs? At the federal level, collegial court chiefs are appointed or rotated. A plurality of states permit selection by peer vote, but the institutional consequences of this selection mechanism are not well known. We develop a theory of chief justice selection emphasizing experience, bias, and politics. Leveraging within-contest variation and more than a half century's worth of original data, we find that peer votes often default to a seniority rotation norm. Justices who dissent more relative to their peers, however, are disadvantaged. We find little evidence that political dynamics otherwise drive these decisions and no evidence of discrimination against women or people of color. The results have implications for our understanding of institutional performance and broader debates about political leader selection.
DOI: 10.5519/qd.rztudde7
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1001 records)
DOI: 10.15139/s3/ycsyun
title: Replication Data for: No Republican, No Vote: Undervoting and Consequences of the Top-Two Primary System

description: Washington and California adopted the Top-Two Primary in 2008 and 2012, respectively. Under this new system, all candidates regardless of party affiliation run against each other, narrowing the field down to the top two for the general election. In some jurisdictions, the general election features two candidates from the same party. Ten percent of California voters chose not to vote in the 2016 U.S. Senate election which featured two Democrats. Using data from the Cooperative Congressional Election Study (2012-2016), I find that among those who vote in the national November elections, orphans, or voters without a copartisan candidate on the ballot are more likely to undervote, opting out of voting in their congressional race. Levels of undervoting are nearly 20 percentage points more for orphaned voters compared to non-orphaned voters. Additionally, voters who abstain perceive more ideological distance between themselves and the candidates compared to voters who cast a vote. These findings support a multi-step framework for vote decisions in same-party matchups: voters are more likely to undervote if they are unable to vote for a candidate from their party (partisan model), but all voters are more likely to vote for a candidate when they perceive more ideological proximity (ideological model).
DOI: 10.6084/m9.figshare.11848158.v1
title: Regorafenib sensitizes human breast cancer cells to radiation by inhibiting multiple kinases and inducing DNA damage

description: Triple-negative breast cancer (TNBC) is the most challenging and aggressive subtype of breast cancer with limited treatment options because of tumor heterogeneity, lack of druggable targets and therapy resistance. TNBCs are characterized by overexpression of growth factor receptors such as epidermal growth factor receptor (EGFR), vascular endothelial growth factor receptor (VEGFR), and platelet derived growth factor receptor (PDGFR) making them promising therapeutic targets. Regorafenib is an FDA approved oral multi-kinase inhibitor that blocks the activity of multiple protein kinases including those involved in the regulation of tumor angiogenesis [VEGFR1-3, TIE2], tumor microenvironment [PDGFR-β, FGFR] and oncogenesis (KIT, RET, RAF-1, BRAF). In the current study, we examined the radiosensitizing effects of Regorafenib on TNBC cell lines and explored the mechanism by which Regorafenib enhances radiosensitivity. MDA-MB-231 and SUM159PT (human TNBC cell lines) and MCF 10a (human mammary epithelial cell line) were treated with Regorafenib, ionizing radiation or a combination of both. Following treatment with Regorafenib and radiation we conducted clonogenic assay to determine radiosensitivity, immunoblot analysis to assess the effect on key signaling targets, tube formation to evaluate effect on angiogenesis and comet assay as well as western blot for γH2AX to assess DNA damage response (DDR). Regorafenib reduced cell proliferation and enhanced radiosensitivity of MDA-MB-231 and SUM159PT cell lines but had no effect on the MCF 10a cells. Clonogenic survival assays showed that the surviving fraction at 2 Gy for both MDA-MB-231 and SUM159PT was reduced from 66.4 ± 8.9 and 88.2 ± 1.7 in controls to 38.1 ± 4.9 and 75.1 ± 1.1 following a 24 hr pretreatment with 10 μM and 5 μM Regorafenib, respectively. A marked reduction in the expression of VEGFR, PDGFR, EGFR and the downstream target, ERK, was observed with Regorafenib treatment alone or in combination with radiation. We also observed a significant inhibition of VEGF-A production in the TNBC cell lines following treatment with Regorafenib. Further, the addition of conditioned medium from Regorafenib-treated tumor cells onto human umbilical vein endothelial cells (HUVEC) suppressed tube formation, indicating an inhibition of tumor angiogenesis. Regorafenib also decreased migration of TNBC cells and suppressed radiation-induced DNA damage repair in a time-dependent manner. Our findings demonstrate that Regorafenib enhanced radiosensitivity of breast cancer cells by inhibiting the expression of multiple receptor tyrosine kinases, VEGF-mediated angiogenesis and DNA damage response in TNBC. Therefore, combining Regorafenib with radiation and antiangiogenic agents will be beneficial and effective in controlling TNBC.
DOI: 10.6084/m9.figshare.11848158
title: Regorafenib sensitizes human breast cancer cells to radiation by inhibiting multiple kinases and inducing DNA damage

description: Triple-negative breast cancer (TNBC) is the most challenging and aggressive subtype of breast cancer with limited treatment options because of tumor heterogeneity, lack of druggable targets and therapy resistance. TNBCs are characterized by overexpression of growth factor receptors such as epidermal growth factor receptor (EGFR), vascular endothelial growth factor receptor (VEGFR), and platelet derived growth factor receptor (PDGFR) making them promising therapeutic targets. Regorafenib is an FDA approved oral multi-kinase inhibitor that blocks the activity of multiple protein kinases including those involved in the regulation of tumor angiogenesis [VEGFR1-3, TIE2], tumor microenvironment [PDGFR-β, FGFR] and oncogenesis (KIT, RET, RAF-1, BRAF). In the current study, we examined the radiosensitizing effects of Regorafenib on TNBC cell lines and explored the mechanism by which Regorafenib enhances radiosensitivity. MDA-MB-231 and SUM159PT (human TNBC cell lines) and MCF 10a (human mammary epithelial cell line) were treated with Regorafenib, ionizing radiation or a combination of both. Following treatment with Regorafenib and radiation we conducted clonogenic assay to determine radiosensitivity, immunoblot analysis to assess the effect on key signaling targets, tube formation to evaluate effect on angiogenesis and comet assay as well as western blot for γH2AX to assess DNA damage response (DDR). Regorafenib reduced cell proliferation and enhanced radiosensitivity of MDA-MB-231 and SUM159PT cell lines but had no effect on the MCF 10a cells. Clonogenic survival assays showed that the surviving fraction at 2 Gy for both MDA-MB-231 and SUM159PT was reduced from 66.4 ± 8.9 and 88.2 ± 1.7 in controls to 38.1 ± 4.9 and 75.1 ± 1.1 following a 24 hr pretreatment with 10 μM and 5 μM Regorafenib, respectively. A marked reduction in the expression of VEGFR, PDGFR, EGFR and the downstream target, ERK, was observed with Regorafenib treatment alone or in combination with radiation. We also observed a significant inhibition of VEGF-A production in the TNBC cell lines following treatment with Regorafenib. Further, the addition of conditioned medium from Regorafenib-treated tumor cells onto human umbilical vein endothelial cells (HUVEC) suppressed tube formation, indicating an inhibition of tumor angiogenesis. Regorafenib also decreased migration of TNBC cells and suppressed radiation-induced DNA damage repair in a time-dependent manner. Our findings demonstrate that Regorafenib enhanced radiosensitivity of breast cancer cells by inhibiting the expression of multiple receptor tyrosine kinases, VEGF-mediated angiogenesis and DNA damage response in TNBC. Therefore, combining Regorafenib with radiation and antiangiogenic agents will be beneficial and effective in controlling TNBC.