Index Catalog // Deep Blue Data

Dataset for Understanding the benefit, risk and cost relationship for patients in the emergency department

Creator:: Meurer, William
Description:: Full analytical dataset with labels in SPSS
Keyword:: Diagnostic testing
Discipline:: Health Sciences

Literature Search Strategies for "Substance Use Education in United States Schools of Pharmacy: A Systematic Review of the Literature"

Creator:: MacEachern, Mark P
Description:: The dataset represents the complete search strategies for all literature databases searched during the systematic review. The Endnote and Excel files of all citations considered for inclusion in the review are also included.
Keyword:: systematic review, pharmacy, education, addiction, and substance abuse
Citation to related publication:: Andrew J. Muzyk, Emily Peedin, Juliana Lipetzky, Haley Parker, Mark P. McEachern & Kelan Thomas (2017) Substance use education in US schools of pharmacy: A systematic review of the literature, Substance Abuse, 38:4, 455-463, https://doi.org/10.1080/08897077.2017.1341448 and https://www.ncbi.nlm.nih.gov/pubmed/28605276
Discipline:: Health Sciences

Literature Search Strategies for "Effectiveness of anti-osteoporotic drugs to prevent secondary fragility fractures: systematic review and meta-analysis"

Creator:: MacEachern, Mark P
Description:: The dataset represents the complete search strategies for all literature databases searched during the systematic review. The Endnote library that contains all citations is also included.
Keyword:: Systematic review, Anti-osteoporotic drugs, Fractures, Surgery, and Meta-analysis
Citation to related publication:: Saito, T., Sterbenz, J.M., Malay, S. et al. Osteoporos Int (2017) 28: 3289. https://doi.org/10.1007/s00198-017-4175-0 and https://www.ncbi.nlm.nih.gov/pubmed/28770272
Discipline:: Health Sciences

Supporting data and scripts for the paper "Variability in the location of High Frequency Oscillations during prolonged intracranial EEG recordings"

Creator:: Gliske, Stephen V and Stacey, William C
Description:: This data is part of a large program to translate detection and interpretation of HFOs into clinical use. A zip file is included which contains hfo detections, metadata, and Matlab scripts. The matlab scripts analyze this input data and produce figures as in the referenced paper (note: the blind source separation method is stochastic, and so the figures may not be exactly the same). A file "README.txt" provides more detail about each individual file within the zip file.
Keyword:: hfo, high frequency oscillation, ripple, fast ripple, blind source separation, non-negative matrix factorization, and temporal variability
Citation to related publication:: Stephen V. Gliske, Zachary T. Irwin, Cynthia Chestek, Garnett L. Hegeman, Benjamin Brinkmann, Oren Sagher, Hugh J. L. Garton, Greg A. Worrell, William C. Stacey. "Variability in the location of High Frequency Oscillations during prolonged intracranial EEG recordings." Nature Communications. https://doi.org/10.1038/s41467-018-04549-2
Discipline:: Health Sciences, Science, and Engineering

Downloaded IAAF Sprint Results in all Heats for 2004 - 2016 Olympics for both Men and Women

Creator:: Mirshams Shahshahani, Payam
Description:: Investigating minimum human reaction times is often confounded by the motivation, training, and state of arousal of the subjects. We used the reaction times of athletes competing in the shorter sprint events in the Athletics competitions in recent Olympics (2004-2016) to determine minimum human reaction times because there's little question as to their motivation, training, or state of arousal. The reaction times of sprinters however are only available on the IAAF web page for each individual heat, in each event, at each Olympic. Therefore we compiled all these data into two separate excel sheets which can be used for further analyses.
Keyword:: minimum reaction time, sprinter, Olympics, Athletics, sex difference, starting block, and false start
Citation to related publication:: Mirshams Shahshahani P, Lipps DB, Galecki AT, Ashton-Miller JA (2018) On the apparent decrease in Olympic sprinter reaction times. PLoS ONE 13(6): e0198633. https://doi.org/10.1371/journal.pone.0198633
Discipline:: Health Sciences, Engineering, Other, Science, and General Information Sources

Data from: Adjuvant Radiation Improves Recurrence-Free Survival and Overall Survival in Adrenocortical Carcinoma

Creator:: Gharzai, Laila A, Green, Michael D, Griffith, Kent A, and Jolly, Shruti
Description:: Three sensitivity analyses were performed. First, a second matching step was performed in which two controls were selected for each case, where possible using a nearest neighbor and caliper metric. Controls needed to have propensity scores within 0.1 of the case to be selected. Thirty-eight of the 39 cases had at least one control using this method and for 36 cases two controls could be selected. The average difference between case and control propensity adjuvant RT was 0.008 (range 0.00003-0.095). A second sensitivity analysis was performed to guard against immortal time bias. In order to mitigate the possibility of this effect, cases known not to have undergone adjuvant RT have been screened for suitable follow-up without a recurrence (local or regional recurrence, metastatic failure, and/or death) to ensure that if adjuvant RT had been prescribed as part of the multi-modality treatment regimen, that it would have been initiated. Three months was selected as the mandatory follow-up time. One to one matching was carried out and all 39 cases were matched to a control. A third sensitivity analysis was performed to account for stage migration seen in control patients that presented to the University of Michigan with more advanced disease. Patients that underwent adjuvant radiation were matched one to one with control group patients who did not receive adjuvant radiation, and who had the same stage at diagnosis as compared to stage at University of Michigan presentation.
Keyword:: adenocortical carcinoma and English
Discipline:: Health Sciences

Neighborhood Effects: Social Environment

Creator:: Data-Driven Detroit, Goodspeed, Robert, Reference U.S.A., Veinot, Tiffany C., Yan, Xiang, State of Michigan Department of Elections, and Okullo, Dolorence
Description:: The Social Environment refers to characteristics of the people and institutions in a census tract, including: 1) Religious organizations (churches and places of worship); and 2) Voter turnout for the 2012 Presidential Election. Coverage for all data: 10-county Detroit-Warren-Ann Arbor Combined Statistical Area.
Keyword:: Voter Turnout, Religious Institutions, Spatial Measures, and Census Tract Level
Discipline:: Social Sciences and Health Sciences

Neighborhood Effects Active Living Resources

Creator:: Reference USA, City of Detroit, ESRI, Data Driven Detroit, and Veinot, Tiffany C.
Description:: Active living resources include spaces and organizations that facilitate physical activity, including 1) park land, 2) recreation areas (including parks, golf courses, amusement parks, beaches and other recreational landmarks); and 3) recreation centers (including gyms, dancing instruction, martial arts instruction, bowling centers, yoga instruction, sports clubs, fitness programs, golf course, pilates instruction, personal trainers, swimming pools, skating rinks, etc.) Coverage for all data: 10-county Detroit-Warren-Ann Arbor Combined Statistical Area.
Keyword:: Recreation Areas, Park Land, Census tract level, Metropolitan Detroit, Spatial Measures, Recreation Centers, and Michigan
Discipline:: Social Sciences, Other, and Health Sciences

Neighborhood effects : Health Status

Creator:: Veinot,Tiffany,C., Michigan Department of Health & Human Services, U.S. Census Bureau, American Community Survey, Data Driven Detroit, Okullo, Dolorence, and Michigan Department of Vital Statistics
Description:: Health status data includes data about the health of persons within a census tract in Metropolitan Detroit, measured at the census tract level. This includes data about 1) mortality by condition; 2) exposures to toxic substances; and 3) disability. Coverage for all data: 10-county Detroit-Warren-Ann Arbor Combined Statistical Area.
Keyword:: Community Health, Mortality Rates by Condition , Disability, Elevated Blood Lead Levels, Census Tract level, All-Cause Mortality Rates, and Spatial Measures
Discipline:: Social Sciences and Health Sciences

Neighborhood Effects: Food Environment

Creator:: Yan, Xiang (Jacob), Goodspeed, Robert, Gomez-Lopez, Iris N., Okullo, Dolorence, Veinot, Tiffany C., and Data Driven Detroit
Description:: The food environment is: 1) The physical presence of food that affects a person’s diet; 2) A person’s proximity to food store locations; 3) The distribution of food stores, food service, and any physical entity by which food may be obtained; or 4) A connected system that allows access to food. (Source: https://www.cdc.gov/healthyplaces/healthtopics/healthyfood/general.htm) Data included here concern: 1) Food access; and 2) Liquor access. Spatial Coverage for most data: 10-county Detroit-Warren-Ann Arbor Combined Statistical Area, Michigan, USA. See exception for grocery store data below.
Keyword:: Food Deserts, Census tract level, Full-Line Grocery Stores, Modified Retail Food Environment Index (MRFEI), Farmer’s Markets, Spatial Measures, and Fast Food Establishments
Discipline:: Social Sciences, Other, and Health Sciences

Growth factor signaling to mTORC1 by amino acid–laden macropinosomes

Creator:: Yoshida, Sei and Swanson, Joel A
Description:: The rapid activation of the mechanistic target of rapamycin complex-1 (mTORC1) by growth factors is increased by extracellular amino acids through yet-undefined mechanisms of amino acid transfer into endolysosomes. Because the endocytic process of macropinocytosis concentrates extracellular solutes into endolysosomes and is increased in cells stimulated by growth factors or tumor-promoting phorbol esters, we analyzed its role in amino acid–dependent activation of mTORC1. Here, we show that growth factor-dependent activation of mTORC1 by amino acids, but not glucose, requires macropinocytosis. In murine bone marrow–derived macrophages and murine embryonic fibroblasts stimulated with their cognate growth factors or with phorbol myristate acetate, activation of mTORC1 required an Akt-independent vesicular pathway of amino acid delivery into endolysosomes, mediated by the actin cytoskeleton. Macropinocytosis delivered small, fluorescent fluid-phase solutes into endolysosomes sufficiently fast to explain growth factor–mediated signaling by amino acids. Therefore, the amino acid–laden macropinosome is an essential and discrete unit of growth factor receptor signaling to mTORC1
Keyword:: growth factor signaling, Macropinosomes, and mTORC1
Citation to related publication:: http://jcb.rupress.org/content/211/1/159
Discipline:: Health Sciences

Neighborhood effects : Information and Education Environment

Creator:: Reddy, Shruthi, Goodspeed, Robert, Clarke, Phillipa J., Gomez-Lopez, Iris N., Okullo, Dolorence, Veinot, Tiffany C, and Data Driven Detroit
Description:: The information and education environment refers to: 1) the presence of information infrastructures such as broadband Internet access and public libraries in a location; 2) a person’s proximity to information infrastructures and sources; 3) the distribution of information infrastructures, sources and in a specific location; and 4) exposure to specific messages (information content) within a specific location. Coverage for all data: 10-county Detroit-Warren-Ann Arbor Combined Statistical Area.
Keyword:: Residential Broadband Data Adoption Rates, Census tract level, Broadband Internet Access and Speed, Colleges and Universities, Public Libraries, Spatial Measures, and Schools
Discipline:: Social Sciences, Science, and Health Sciences

Literature search strategies for "Substance Use Education in Schools of Nursing: A Systematic Review of the Literature"

Creator:: MacEachern, Mark P
Description:: The dataset represents the complete, reproducible search strategies for all literature databases searched during the systematic review. The Endnote file and the Endnote import files contain all citations considered for inclusion in the review.
Keyword:: addiction, nursing, systematic review, education, and substance use
Citation to related publication:: https://www.ncbi.nlm.nih.gov/pubmed/28858952 and 10.1097/NNE.0000000000000449
Discipline:: Health Sciences

Maternal and Infant Survival Study (MISS) Interviews with Health Care Providers in Ghana about Neonatal Near-Misses

Creator:: Moyer, Cheryl A
Description:: Data reflect the knowledge, attitudes, and beliefs of health care providers regarding neonatal near-misses in Neonatal Intensive Care Units (NICUs) in southern Ghana.
Keyword:: qualitative methods, neonatal mortality, neonatal near-misses, and developing country
Discipline:: Health Sciences

Transmission of Oral microbiome and Sequencing

User Collection

Creator:: Lee, Kyu Han
Description:: De-identified participant data from household transmission study of influenza in Nicaragua Oligotype count table and taxonomic classifications
Keyword:: Influenza and Microbiome
Discipline:: Health Sciences

2Works

The ethical and professional use of social media in surgery - A review of the literature

Creator:: MacEachern, Mark P MLIS, Bennett, Katelyn G MD, Preminger, Aviva MD, Berlin, Nicolas MD, and Vercler, Christian J MD
Description:: The dataset includes the reproducible search strategies for all literature databases searched during the review, the key articles used to generate relevant search terms and test the effectiveness of the searches, the Endnote library that has all citations considered for inclusion, a flow chart describing the screening process, and the screening forms used for inclusion and exclusion.
Keyword:: Plastic surgery, Professionalism, Surgery, and Social media
Citation to related publication:: Bennett K, Berlin N, MacEachern MP, Buchman S, Vercler C. (2018). The ethical and professional use of social media in surgery - A systematic review of the literature. Plastic and Reconstructive Surgery, 142(3), 388e-398e. PMID: 30148789.
Discipline:: Health Sciences

Transmission of Oral microbiome and Sequencing - Influenza Susceptibility

Creator:: Lee, Kyu Han, Foxman, Betsy, and Gordon, Aubree
Description:: Data include variables used to run mixed effects models examining the association between the nose/throat microbiome and influenza virus infection. Certain individual participant data have been excluded due to identifiability concerns. Data also include the oligotype count table and taxonomic classifications. and Curation Notes: Readme updated Nov. 29, 2018 with context for oligotype and taxonomy files, and citation to associated article.
Keyword:: Influenza and Microbiome
Citation to related publication:: Lee KH, Gordon A, Shedden K, Kuan G, Ng S, Balmaseda A, Foxman B. The respiratory microbiome and susceptibility to influenza virus infection. PloS One. 2019;14:e0207898. doi:10.1371/journal.pone.0207898
Discipline:: Health Sciences

Transmission of Oral microbiome and Sequencing - Symptom and Shedding Duration

Creator:: Lee, Kyu Han
Description:: Data include variables used to run accelerated failure time models examining the association between the nose/throat microbiome and 1) symptom duration, 2) shedding duration, and 3) time to infection. Certain individual participant data have been excluded due to identifiability concerns. Data also include the oligotype count table and taxonomic classifications.
Keyword:: Influenza and Microbiome
Citation to related publication:: Lee KH, Gordon A, Shedden K, Kuan G, Ng S, Balmaseda A, Foxman B. The respiratory microbiome and susceptibility to influenza virus infection. PloS One. 2019;14:e0207898. doi:10.1371/journal.pone.0207898.
Discipline:: Health Sciences

Adverse events associated with intra-hospital transport of critically-ill children: a systematic review dataset

Creator:: Haydar, Bishr and MacEachern, Mark
Description:: The research adheres to PRISMA-HARM recommendations for systematic reviews. The reproducible search strategies for all databases, the citation export files from all databases, and the eligibility screening decisions are included in the dataset.
Keyword:: Systematic review, Patient transportation, intrahospital, intra-hospital, and Critically ill patients
Discipline:: Health Sciences

Pre-Hospital Midazolam for Treatment of Status Epilepticus Before and After the Rapid Anticonvulsant Medication Prior to Arrival Trial (RAMPART): A National Observational Cohort Study

Creator:: Shtull-Leber, Eytan
Description:: We present the SAS code used to conduct the data manipulation and analysis for our research on pre-hospital midazolam use before and after RAMPART.
Keyword:: emergency medical services, knowledge translation, status epilepticus, benzodiazepines, midazolam, EMS, and Seizure
Citation to related publication:: Shtull-Leber E, Silbergleit R, Meurer WJ (2017) Pre-hospital midazolam for benzodiazepine-treated seizures before and after the Rapid Anticonvulsant Medication Prior to Arrival Trial: A national observational cohort study. PLoS ONE 12(3): e0173539. https://doi.org/10.1371/journal.pone.0173539
Discipline:: Health Sciences

Dataset for Understanding the benefit, risk and cost relationship for patients in the emergency department

Literature Search Strategies for "Substance Use Education in United States Schools of Pharmacy: A Systematic Review of the Literature"

Literature Search Strategies for "Effectiveness of anti-osteoporotic drugs to prevent secondary fragility fractures: systematic review and meta-analysis"

Supporting data and scripts for the paper "Variability in the location of High Frequency Oscillations during prolonged intracranial EEG recordings"

Downloaded IAAF Sprint Results in all Heats for 2004 - 2016 Olympics for both Men and Women

Data from: Adjuvant Radiation Improves Recurrence-Free Survival and Overall Survival in Adrenocortical Carcinoma

Neighborhood Effects: Social Environment

Neighborhood Effects Active Living Resources

Neighborhood effects : Health Status

Neighborhood Effects: Food Environment

Growth factor signaling to mTORC1 by amino acid–laden macropinosomes

Neighborhood effects : Information and Education Environment

Literature search strategies for "Substance Use Education in Schools of Nursing: A Systematic Review of the Literature"

Maternal and Infant Survival Study (MISS) Interviews with Health Care Providers in Ghana about Neonatal Near-Misses

Transmission of Oral microbiome and Sequencing

The ethical and professional use of social media in surgery - A review of the literature

Transmission of Oral microbiome and Sequencing - Influenza Susceptibility

Transmission of Oral microbiome and Sequencing - Symptom and Shedding Duration

Adverse events associated with intra-hospital transport of critically-ill children: a systematic review dataset

Pre-Hospital Midazolam for Treatment of Status Epilepticus Before and After the Rapid Anticonvulsant Medication Prior to Arrival Trial (RAMPART): A National Observational Cohort Study

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