This data set includes the raw rare earth element data for all fluorite and calcite samples analyzed by Josh Bergbower for work on his thesis project titled "Trace and Rare Earth Element Chemistry of Fluorite from the Illinois-Kentucky Fluorspar District and its Implications for the Origins of Mineralizing Fluids".
The data stored in this collection were collected during a series of 3 experiments I conducted between 2013 and 2014 to evaluate the effects of population-level extinction within spatial population networks.
For each experiment, I used experimental protozoan population networks (microcosms) that used the common pond species Paramecium caudatum as the focal organism. Each network contained five populations aligned linearly and connected to one another through a migration corridor (see image files).
The experiments were similar in their basic methods. For example, each experiment consisted of three 10-day periods: pre-extinction, extinction, and reestablishment. In addition, each experiment used 8 networks: four treatment networks and four control networks. During the 10-day extinction period, extinction was maintained on the center population of 4 treatment networks. During the reestablishment period, the center population was allowed to reestablish. The 4 control networks had no extinction imposed.
During each experiment I estimated the density of each population within all networks daily as the mean number of paramecia captured in three 0.25 mL samples. The data included in these files shows these density estimates. All calculations used to assess changes in population abundance and dynamics due to extinction were derived from these density estimates.
Additional background for each of the 3 experiments (e.g., how the experiments differed) can be found in the ReadMe file. Detailed methods and results from each of these experiments are documented in Chapters 3, 4, and 5 of my dissertation (see Dissertation file).
This dataset shows the origins and quantities of coins found through excavations at Antioch. Data can be examined by material (bronze, silver, antoniniani, and uncertain) and chronology (223 BCE to 91 BCE, 90 BCE to 31 BCE, 30 BCE to 235 CE, 236 CE to 283 CE, 284 CE to 423 CE). All data is from Waage, D. B. 1952. Antioch-on-the-Orontes: Committee for the Excavation of Antioch and its Vicinity 4.2: Greek, Roman, Byzantine and Crusader’s Coins, Princeton.
The NATO and the EU Peacebuilding Missions Dataset is created to use fuzzy seta Qualitative Comparative Analysis (fsQCA) analysis as a method of researching how NATO and the EU missions’ outcomes are influences by organizational assets and decision-making in both organizations. Outcome pertaining to these two sets of missions are intended to measure various aspects of organizational efficacy. There are two groups of variables – condition variables and outcome variables. In the next few sections, we will explain how these two groups of variables were generated, what existing sources and datasets were used and how mission indicators were generated. See attached research note for more detailed information.
Condition Sets: Description
By and large conditions sets that have been generated measure organizational assets for these NATO and EU missions, as well as patterns in their decision-making process. Two critical organizational assets used for both sets of missions are their annual operational budget and their annual deployed personnel. The dataset contains two control variables measuring operational legitimacy – number of contributing nations and number of UN resolutions passed in relevance to the situation in the area of deployment for the duration of the EU and NATO Mission.
Operational Duration – duration of the operation (in months). For ongoing missions, we have used December 31, 2018 as the end date. All data reflect occurrences no later than December 31, 2018.
Type of Operation – based on their mandate, operations are classified as civilian (coded as 0), military (coded as 1) and hybrid (i.e. with military and civilian components, coded as 0.5).
Annual Operational Budget – total annual mission budget in USD. Sources include SIPRI yearbook and peace operations database. In cases of missing data from the SIPRI yearbook, mission factsheets and original data from the mission have been used. This latter technique applies for the following missions: AMUK, AVSEC, BAM1, BAM2, CAP1, CAP2, MAM1, NAVF1, NAVF2, TMC1, EUAMI. If data is reported in EUR, average exchange rate for the duration of the mission has been used to convert the cost. Data has been adjusted to reflect operational budget over a 12-month period.
Average Annual Mission Personnel – it reflects the average total number of personnel/ staff supporting the NATO or EU peacebuilding mission per annum. Sources have been collected from SIPRI yearbook based on reportings for actual deployments on the ground. In cases when no data has been reported I the SIPRI yearbook/ peace operations dataset, mission factsheets and original data from the mission have been used. The data has been averaged and adjusted for a 12-month period.
Days to Launch – describes the number of days needed from the time a decision has been made by the IO top decision-making body (the European Council and NAC) to launch the mission to the time that the mission is officially declared “operational.” If no declaration that the mission is “fully operational” exists, landmark indicators that the mission is fully operational include: ceremony on the ground marking the beginning of the mission, the appointment of mission commander or first recoded operational presence involving activity on the ground. Sources include official EU and NATO documents announcing the decision to create the peacebuilding operation as well as official documents, press releases and reports in reliable media outlets (including New Agencies) documenting an event that would indicate the mission is “fully operational.”
Number of Contributing Nations –highest reported number of contributing nations for the duration of the NATO and the EU peacebuilding operation.
UN Security Council Resolutions – total number of UN Security Council (UNSG) resolutions relevant for the area of conflict adopted for the duration of the NATO and the EU mission. In cases when UNSC resolutions are relevant for multiple NATO and EU peacebuilding missions those have been reported to all relevant missions.
Outcome Sets: Description
Outcome sets include various indicators created to measure operational efficacy. They include annual events contributing toward peace, conflict and the mission’s functioning, annual fatalities and annual deaths among mission personnel, as well as annual difference in fatalities. A more detailed description of these indicators is included below:
Annual Peace Events – this is an annual indicator based on chronologically recorded events by the SIPRI yearbook that have contributed for the peace process in the conflict area where NATO and EU mission have been deployed. Examples of peace events include steps taken to contribute to the peace process (e.g. creation of buffer zone, cession of hostilities, meeting intended to cease fire or set up the peace process, political events related to or contributing toward the peace process and successful conclusion of a peace agreement. It may also include a decision of an international body (e.g. UN Security Council, UN General Assembly or UN Secretary General, as well as a decision made by the NATO and the EU D-M bodies that contributes toward the peace process in the areas where the mission operates. For ongoing missions is December 31, 2017 the last date when annual peace events are recoded.
Annual Conflict Events -- this is an annual indicator based on chronologically recorded events by the SIPRI yearbook that have increased the conflict and the conflict potential in the area where NATO and EU mission have been deployed. Instances include resumption of hostilities among warring parties, occurrence of attacks, clashes, eruption of violence, the killing of civilians, military and peacemaking personnel and other violence-related events that contribute toward instability in the mission’s area. For ongoing missions is December 31, 2017 the last date when annual conflict events are recoded.
Annual Mission-related Events -- this is an annual indicator based on chronologically recorded events by the SIPRI yearbook that measures events related to functioning of the mission – the decision to launch, the actual launch, implementation, transfer of authority and/ or mandate, transformation and termination of the mission. It also includes events that reflect decisions made by the contributing nations or sponsoring IOs intended to impact mission’s performances (e.g. decisions related to funding, control and command, transformation of mission mandate and rules and other similar events). For ongoing missions is December 31, 2017 the last date when annual mission-related events are recoded.
Average Annual Fatalities – this indicator reports how many average annual civilian deaths have been recorded for the duration of the mission. The data is drawn from the Armed Conflict Dataset (ACD) managed by the London-based International Institute for Strategic Studies ( https://acd.iiss.org/member/datatools.aspx).
Average Annual Mission Casualties – average annual number of deaths among peacebuilding personnel as reported in SIPRI yearbook/ peace operations database for the duration of the mission. Authors have used discretion to determine the accuracy in cases when there is discrepancy of reported data.
Fatalities Annual Difference – an indicator of differenced annual data of civilian casualties on the ground for the duration of the mission. The indicator is calculated as follows: Differenced Fatalities = Ʃ (CasualtiesY1-Y2 … Casualties Yn-Y(n-1))/ Duration of the mission (in years). It is intended to capture improvement of situation on the ground as a result of presence of the peacebuilding effort.
Condition Sets: Calibration and Rationale
Annual Operational Budget – mission budget reflects resources USD 5 million or less indicate fully out while USD 100 million or more would indicate fully in. A budget of USD 30 should be the watershed borderline of “nether in, not out.” [5-100 million]
Average Annual Mission Personnel – this indicator draws distinction between larger well-resourced missions and smaller missions with limited assets. By and large, missions with 20 personnel or less are fully out, while those with 20,000 or more are fully in. The borderline (net hither in, not out) is 130 people.
Days to Launch – the speed with which the decision is taken indicates how decision-making operated in the case of this mission. D-M that took 5 days or less should be fully out (in, change direction) while D-M 150 days or more should be fully in (out, change direction). 30 days (1 month) should be the neither in, nor out border.
Number of Contributing Nations –control indicator that demotes how high number of contributing nations contribute toward greater legitimacy (30 or more countries marks fully in), while 5 or fewer nations marks fully out. The “nether fully in, nor fully out” is at 15 nations.
UN Security Council Resolutions – total number of UNSC resolutions can vary, fully out is at 0 resolutions while fully in at 50 or more. Since moist of the missions are shorter, Nether fully in, not fully out would be at 8 UNSC resolutions. [Inductive]
Operational Duration – 1 year (12 months) denotes fully out (i.e. short-term mission) while 10 year 120 months denotes fully in; nether in not out would be for missions lasting 5 years (60 months). In other words, a decade is too long, a year is to short, five years is in the middle.
Outcome Variables: Calibration and Rationale
Annual Peace Events – this variable measures the occurrence of peace-related events – 0 events per annum is fully out; 10 events per annum is fully in. 1 event is nether in not out.
Annual Conflict Events -- this variable measures the occurrence of conflict-related events – 0 events per annum is fully out; 10 events per annum is fully in. 1 event is nether in not out.
Annual Mission-related Events -- this variable measures the occurrence of peace-related events – 0 events per annum is fully out; 10 events per annum is fully in. 0.5 event is nether in not out.
Average Annual Fatalities – this set measures average number of annual fatalities for the duration of the mission. Cases with 0 fatalities are fully out; cases with 10,000 fatalities are fully in. 1,000 fatalities represent “nether in, not out” value.
Fatalities Annual Difference – this is an indicator that measures the average year-to-year difference in number of fatalities for the duration of the conflict. -50 casualties is fully out (i.e. average growth of casualties by 50 per annum) as this indicator reflects low mission efficacy. 500 is fully in. This number indicates high efficacy; it denotes an average annual decline of casualties by 500 people. If the average number of casualties remains unchanged, then 0 denotes nether in, nor out.
Average Annual Mission Casualties – this indicator measures average number of annual casualties for the duration of the mission. 0 casualties is fully out; 500 casualties is fully in. 0.5 is nether in, nor out.
This data set is the raw data underlying the paper entitled "Giving datasets context: a comparison study of institutional repositories that apply varying degrees of curation" presented at the International Digital Curation Conference in Barcelona, Spain (Feb 2018). All figures and tables in the publication were based on the analysis of this data set.
Please use the Citation:
Koshoffer, A., Neeser, A., Johnston L.R., and Newman L.D., (2018) "Giving datasets context: a comparison study of institutional repositories that apply varying degrees of curation", International Digital Curation Conference, Barcelona, Spain. Digital Curation Centre.
Helicobacter pylori (H. pylori) is the major risk factor for the development of gastric cancer. Our laboratory has reported that the Sonic Hedgehog (Shh) signaling pathway is an early response to infection that is fundamental to the initiation of H. pylori-induced gastritis. H. pylori also induces programmed death ligand 1 (PD-L1) expression on gastric epithelial cells, yet the mechanism is unknown. We hypothesize that H. pylori-induced PD-L1 expression within the gastric epithelium is mediated by the Shh signaling pathway during infection. To identify the role of Shh signaling as a mediator of H. pylori-induced PD-L1 expression, human gastric organoids generated from either induced pluripotent stem cells (HGOs) or tissue (huFGOs) were microinjected with bacteria and treated with Hedgehog/Gli inhibitor GANT61. Gastric epithelial monolayers generated from the huFGOs were also infected with H. pylori and treated with GANT61 to study the role of Hedgehog signaling as a mediator of induced PD-1 expression. A patient-derived organoid/autologous immune cell co-culture system infected with H. pylori and treated with PD-1 inhibitor (PD-1Inh) was developed to study the protective mechanism of PD-L1 in response to bacterial infection. H. pylori significantly increased PD-L1 expression in organoid cultures 48 hours post-infection when compared to uninfected controls. The mechanism was cytotoxic associated gene A (CagA) dependent. This response was blocked by pretreatment with GANT61. Anti-PD-L1 treatment of H. pylori infected huFGOs, co-cultured with autologous patient cytotoxic T lymphocytes and dendritic cells, induced organoid death. H. pylori-induced PD-L1 expression is mediated by the Shh signaling pathway within the gastric epithelium. Cells infected with H. pylori that express PD-L1 may be protected from the immune response, creating premalignant lesions progressing to gastric cancer.