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- Creator:
- Johnson, JE and Molnar, PH
- Description:
- This IF compilation was assembled from the existing literature to understand if preservation biases affected the record of iron formations.
- Keyword:
- Archean ocean chemistry, temporal record of iron formations, and early Earth iron cycle
- Discipline:
- Science
-
- Creator:
- Wittkopp, Patricia J and Metzger, Brian P H
- Description:
- .zip file includes data files and R code used for analysis.
- Discipline:
- Science
-
- Creator:
- Heath, Jeffrey
- Description:
- This is the flora-fauna lexical material obtained in the course of more general lexical and grammatical fieldwork on languages of central-eastern Mali (Dogon, Songhay, Bangime, Bozo). The spreadsheets in this work, duplicated in xlsx and csv formants, present our flora-fauna lexicons as of early 2019 for many languages of central-eastern Mali, and certain languages of southwestern Burkina Faso. The Malian data is in two spreadsheets (flora, fauna), while the Burkina data is in separate spreadsheets for flora, birds, fish, insects, lizards and snakes, and mammals. Please begin with the “readme” document.
- Keyword:
- flora,, fauna, lexicon, Mali, and Burkina Faso
- Discipline:
- Humanities
-
- Creator:
- Li, Yang and Steiner, Allison
- Description:
- WRF-Chem simulation with 1.33 km resolution using the MYJ PBL scheme over the Baltimore-Washington region and WRF-Chem simulation with 1.33 km resolution using the YSU PBL scheme over the Baltimore-Washington region
- Keyword:
- LES, WRF-Chem, vertical mixing, oxidants, boundary layer dynamics
- Discipline:
- Science
-
- Creator:
- Morales, Annareli
- Description:
- The research that produced this data involves exploring the sensitivity of orographic precipitation to changes in microphysical parameters found in the Morrison microphysics scheme within CM1 model. These microphysical sensitivities are also tested within different environments. The tests can be described as "one-at-a-time" experiments, i.e., an individual parameter is perturbed while keeping the rest constant. Annareli Morales conducted this research for her PhD research while working at the Mesoscale and Microscale Meteorology lab at NCAR in Boulder, CO.
- Keyword:
- Orographic precipitation
- Discipline:
- Science
-
- Creator:
- Jeffrey Heath, Aminata Ouattara, and Abbie Hantgan
- Description:
- Our project, mainly on Dogon languages of Mali, has branched out to Burkina Faso with emphasis on documentation of the most endangered languages. Tiefo-N was studied on an emergency basis since it was down to two aging competent speakers. For additional comments and links to a reference grammar, see the readme file.
- Keyword:
- Gur languages, Tiefo, Tiefo-N language, and Lexicon
- Discipline:
- Humanities
-
- Creator:
- Jeffrey Heath, Abbie Hantgan, and Stefan Elders
- Description:
- The work on the Bangime language, spoken by the Bangande people, was carried out as part of a larger linguistic fieldwork project focused on Dogon languages. Bangime is confirmed as a language isolate with no demonstrable linguistic relatives—possibly the only such isolate in West Africa.
- Keyword:
- Bangime, Mali, and Lexicon
- Discipline:
- Humanities
-
- Creator:
- Jeffrey Heath
- Description:
- Jalkunan is an endangered language of the Mande family, spoken in the village cluster of Blédougou in southwestern Burkina Faso. The lexical work complements a published grammar with texts. See the readme for further information.
- Keyword:
- Jalkunan, Burkina Faso, Mande languages, and Lexicon
- Discipline:
- Humanities
-
- Creator:
- Jeffrey Heath
- Description:
- Holistic linguistic fieldwork carried out on location in central-eastern Mali.
- Keyword:
- Lexicon, Mali, and Dogon
- Discipline:
- Humanities
-
- 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
-
- Creator:
- MacEachern, Mark
- Description:
- The search data supports a literature review project on lifestyle therapies for the management of atrial fibrillation. The data included in the dataset are the reproducible search strategies (in docx) and the exported results of all citations from all databases (txt and ris files). These searches and exported result files contain all citations originating from the database searches that were considered for inclusion.
- Keyword:
- literature searches, atrial fibrillation, lifestyle therapy, and lifestyle therapies
- Discipline:
- Health Sciences
-
- Creator:
- Yan, Haoyang MI and Yates, J Frank
- Description:
- The research aims to demonstrate judgment accuracy about other individuals' socio-political opinions produced by prototype matching and base/shift heuristics or people's own strategies (control).
- Keyword:
- judgment accuracy and socio-political opinions
- Discipline:
- Social Sciences
-
- 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
-
- Creator:
- Moser, Carol, Schoenebeck, Sarita Y., and Resnick, Paul
- Description:
- This work investigates what features e-commerce sites use to encourage impulse buying and what tools consumers desire to curb their online spending. We present supplementary material for two studies: (1) a systematic content analysis of 200 top e-commerce websites in the U.S. and (2) a survey of online impulse buyers (N=151). Files include: (1) Study 1 Code book for content analysis of websites (2) Study 1 CSV data file resulting from the content analysis (3) Study 1 PDFs (N=200) of e-commerce websites analyzed (4) Study 2 Online survey questionnaire (5) Study 2 Survey code book for free response questions
- Discipline:
- Social Sciences
-
- Creator:
- Zhu, Jialei, Penner, Joyce E., Yu, Fangqun, Sillman, Sanford, Andreae, Meinrat O., and Coe, Hugh
- Description:
- The dataset contains the Fortran programs applied in the latest CESM/IMPACT model as well as the data created from this model, which are used in the referenced paper.
- Keyword:
- Organic nucleation and Radiative forcing
- Discipline:
- Science
-
- Creator:
- Thomaz, Andréa T. (UMICH), Carvalho, Tiago P. (UFRGS), Malabarba, Luiz R. (UFRGS), and Knowles, L. Lacey (UMICH)
- Description:
- Estimated phylogenetic relationships based on more than 18,000 loci in 93 individuals (full data) or 21 individuals (subset data) representing 19 described species and two putative undescribed species. Nine files are part of this dataset, including all input files to infer the phylogenetic reconstructions and the outputs obtained, in addition to a pruned tree used to infer the ancestral state reconstructions.
- Keyword:
- dusky millions poeciliids, sexual selection, South America, and ddRADseq
- Discipline:
- Science
-
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 -
Central Mali documentary videos
User Collection- Creator:
- Heath, Jeffrey G.
- Description:
- Short documentary videos of practical activities and cultural events of Dogon, Fulbe, Songhay, and Bangande ethnic groups of eastern Central Mali. The videos were byproducts of linguistic research on the local language. They are presented here in three formats: wmv, avi, and either qt or mov. See the "readme" files in each work for a summary of the videos in it. and The footage was shot with various digital cameras. The oldest videos (2010 and one or two from 2011) were edited using iMovie. The later videos were edited using AVS editing software. Several of the 2010 videos, referred to as "compilations," are simple sequences of short clips that combine to illustrate a complex activity such as extracting oil from nuts. The later videos are in more flowing documentary form with overlaid titles in English. In some cases, vocabulary from the relevant native language is included in the titles.
- Keyword:
- Mali and Dogon
- Discipline:
- Humanities
7Works -
Central Mali geography photos
User Collection- Creator:
- Heath, Jeffrey G.
- Description:
- This is a collection of photos of villages located primarily in Central Mali. These photos are primarily of Dogon villages, but there are village photos of other nearby ethnicities, including Bangande, Fulbe, Tuareg, Songay, and Bozo.These photos were taken to document the villages Professor Jeffrey Heath worked in and people he worked with while documenting languages throughout the region. For interactive geographical maps involving these villages see: http://dogonlanguages.org/geography.cfm.
- Keyword:
- Jamsay, Bangime, Tamashek, Ampari, Bannkan Tey, Ben Tey, Atlantic Fulfulde, Bunoge, Dogul Dom, Donno So, Mombo, Najamba-Kindige, Nanga, Penange, Tebul Ure, Tengou-Togo, Tiranige, Tommo So, Toro So, Tomo Kan, Toro Tegu, Yanda Dom, Moore, Bozo Jenama, Manding Bambara, Fulankiriya, Humburi Senni, Dogon, Fulbe, Bozo, Songhay, Tuareg, and Bangande
- Discipline:
- Humanities
25Works -
TCC Engine Collection
User Collection- Creator:
- Schiffmann, Philipp, Reuss, David L, and Sick, Volker
- Description:
- This Collection is a compilation of data measured in the TCC engine at the University of Michigan, Department of Mechanical Engineering, Quantitative Laser Diagnostics Laboratory. The posted Work Deposits are never changed. However, this collection will be expanded with additional Work Deposits as new experimental data become available. The intent of the collection is to provide a comprehensive experimental data set from the TCC-III engine, for fundamental discovery research on in-cylinder flow and spark-ignited combustion. Also, to enable in-depth support for CFD development and validation. The collection includes data files of in-cylinder flowvelocity and flame imaging, as well as engine and system geometry needed to set up 1-D and CFD simulations. and README for TCCIII_Collection: https://umich.box.com/v/Collection-README-rev20180202
- Keyword:
- internal combustion engine, TCC III engine, optical engine, CFD validation data, motored engine, turbulence in engines, cyclic variability, laser imaging data, particle image velocimetry, PIV, in-cylinder flow, and OH chemiluminescence
4Works -
- Creator:
- Yan, Xiang (Jacob), Clarke, Phillipa J., Okullo, Dolorence, Goodspeed, Robert, Data Driven Detroit, Gomez-Lopez, Iris N., and Veinot, Tiffany C
- Description:
- This collection was produced as part of the project, “A ‘Big Data’ Approach to Understanding Neighborhood Effects in Chronic Illness Disparities.” The Investigators for the project are Tiffany Veinot, Veronica Berrocal, Phillipa Clarke, Robert Goodspeed, Daniel Romero, and VG Vinod Vydiswaran from the University of Michigan. The study took place from 2015-2016, with funding from the University of Michigan’s Social Sciences Annual Institute, MCubed, and the Sloan and Moore Foundations. Contact: Tiffany Veinot, MLS, PhD Office: 3443 North Quad Phone: 734/615-8281 Email: tveinot@umich.edu
- Keyword:
- Food Environment, Health Status, Employment, Health Care Resources, Neighborhood Safety, Healthcare Utilization, Transportation, Census tract level, Information and Education Environment, Spatial Measures, Detroit, Active Living Resources, Social Environment, Demographics, Community Health, and Housing
6Works -
Appendices for "Regulation of Müller Stem Cell Properties: Insights From a Zebrafish Model"
User Collection- Creator:
- Sifuentes, Christopher J
- Description:
- Appendix1: Differential expression data for zebrafish regeneration and mouse degeneration models. Appendix2: Gene ontology data for zebrafish regeneration and mouse degeneration models. Appendix3: Pathway data for zebrafish regeneration and mouse degeneration models. Appendix4: Differential expression data and genes within linked peaks for mi2004 mutants. Appendix5: Gene ontology data for mi2004 mutants. Appendix6: Pathway data for mi2004 mutants. Appendix7: Linkage plots for mi2004 mutants. Appendix8: Inverse PCR and genome-walking data.
- Keyword:
- Müller glia, zebrafish, regeneration, stem cell, and photoreceptor
8Works -
Bangime language (Mali) audio files
User Collection- Creator:
- Heath, Jeffrey
- Description:
- Audio files for Bangime language (genetic isolate, eastern Mali)
5Works -
- Creator:
- Mitchell, Michael
- Description:
- This eportfolio was created for the Gateway course of the Sweetland Minor in Writing to provide an opportunity for students to reflect on their growing identities as writers, as captured in their text-based and multimodal compositions produced over the Gateway semester. The title of the work contains the pseudonym created for the study while the creator field lists the student's given name to allow proper attribution for their work. The eportfolio is collected here as an artifact in the Sweetland Writing Development Study, which has been published as Developing Writers in Higher Education: A Longitudinal Study (University of Michigan Press, 2019). To learn more about this study, please see the epublication https://doi.org/10.3998/mpub.10079890, and to learn more about the Minor in Writing program and the eportfolio prompts, please see Appendix 2a ( https://doi.org/10.3998/mpub.10079890.cmp.1) to the publication.
- Keyword:
- eportfolio , gateway , sitesucker , website , and file directory
- Discipline:
- Humanities
-
- Creator:
- Danko, Melissa
- Description:
- This eportfolio was created for the Gateway course of the Sweetland Minor in Writing to provide an opportunity for students to reflect on their growing identities as writers, as captured in their text-based and multimodal compositions produced over the Gateway semester. The title of the work contains the pseudonym created for the study while the creator field lists the student's given name to allow proper attribution for their work. The eportfolio is collected here as an artifact in the Sweetland Writing Development Study, which has been published as Developing Writers in Higher Education: A Longitudinal Study (University of Michigan Press, 2019). To learn more about this study, please see the epublication: https://doi.org/10.3998/mpub.10079890), and to learn more about the Minor in Writing program and the eportfolio prompts, please see Appendix 2a ( https://doi.org/10.3998/mpub.10079890.cmp.1) to the publication.
- Keyword:
- eportfolio , gateway, sitesucker , website, and file directory
- Discipline:
- Humanities
-
- Creator:
- Danko, Melissa
- Description:
- This eportfolio was created for the Gateway course of the Sweetland Minor in Writing to provide an opportunity for students to reflect on their growing identities as writers, as captured in their text-based and multimodal compositions produced over the Gateway semester. The title of the work contains the pseudonym created for the study while the creator field lists the student's given name to allow proper attribution for their work. The eportfolio is collected here as an artifact in the Sweetland Writing Development Study, which has been published as Developing Writers in Higher Education: A Longitudinal Study (University of Michigan Press, 2019). To learn more about this study, please see the epublication: https://doi.org/10.3998/mpub.10079890), and to learn more about the Minor in Writing program and the eportfolio prompts, please see Appendix 2a ( https://doi.org/10.3998/mpub.10079890.cmp.1) to the publication.
- Keyword:
- eportfolio , capstone , sitesucker , website , and file directory
- Discipline:
- Humanities
-
- Creator:
- Schuler, Kaitlin
- Description:
- This eportfolio was created for the Gateway course of the Sweetland Minor in Writing to provide an opportunity for students to reflect on their growing identities as writers, as captured in their text-based and multimodal compositions produced over the Gateway semester. The title of the work contains the pseudonym created for the study while the creator field lists the student's given name to allow proper attribution for their work. The eportfolio is collected here as an artifact in the Sweetland Writing Development Study, which has been published as Developing Writers in Higher Education: A Longitudinal Study (University of Michigan Press, 2019). To learn more about this study, please see the epublication: https://doi.org/10.3998/mpub.10079890), and to learn more about the Minor in Writing program and the eportfolio prompts, please see Appendix 2a ( https://doi.org/10.3998/mpub.10079890.cmp.1) to the publication.
- Keyword:
- eportfolio , gateway , sitesucker , website , and file directory
- Discipline:
- Humanities
-
- Creator:
- Cockrum, Kayla
- Description:
- This eportfolio was created for the Gateway course of the Sweetland Minor in Writing to provide an opportunity for students to reflect on their growing identities as writers, as captured in their text-based and multimodal compositions produced over the Gateway semester. The title of the work contains the pseudonym created for the study while the creator field lists the student's given name to allow proper attribution for their work. The eportfolio is collected here as an artifact in the Sweetland Writing Development Study, which has been published as Developing Writers in Higher Education: A Longitudinal Study (University of Michigan Press, 2019). To learn more about this study, please see the epublication: https://doi.org/10.3998/mpub.10079890), and to learn more about the Minor in Writing program and the eportfolio prompts, please see Appendix 2a ( https://doi.org/10.3998/mpub.10079890.cmp.1) to the publication.
- Keyword:
- eportfolio , capstone , sitesucker , website , and file directory
- Discipline:
- Humanities
-
- Creator:
- Brown, Kathryn
- Description:
- This eportfolio was created for the Gateway course of the Sweetland Minor in Writing to provide an opportunity for students to reflect on their growing identities as writers, as captured in their text-based and multimodal compositions produced over the Gateway semester. The title of the work contains the pseudonym created for the study while the creator field lists the student's given name to allow proper attribution for their work. The eportfolio is collected here as an artifact in the Sweetland Writing Development Study, which has been published as Developing Writers in Higher Education: A Longitudinal Study (University of Michigan Press, 2019). To learn more about this study, please see the epublication: https://doi.org/10.3998/mpub.10079890), and to learn more about the Minor in Writing program and the eportfolio prompts, please see Appendix 2a ( https://doi.org/10.3998/mpub.10079890.cmp.1) to the publication.
- Keyword:
- eportfolio , gateway , sitesucker , website, and file directory
- Discipline:
- Humanities
-
- Creator:
- Brown, Kathryn
- Description:
- This eportfolio was created for the Gateway course of the Sweetland Minor in Writing to provide an opportunity for students to reflect on their growing identities as writers, as captured in their text-based and multimodal compositions produced over the Gateway semester. The title of the work contains the pseudonym created for the study while the creator field lists the student's given name to allow proper attribution for their work. The eportfolio is collected here as an artifact in the Sweetland Writing Development Study, which has been published as Developing Writers in Higher Education: A Longitudinal Study (University of Michigan Press, 2019). To learn more about this study, please see the epublication: https://doi.org/10.3998/mpub.10079890), and to learn more about the Minor in Writing program and the eportfolio prompts, please see Appendix 2a ( https://doi.org/10.3998/mpub.10079890.cmp.1) to the publication.
- Keyword:
- eportfolio , capstone , sitesucker , website , and file directory
- Discipline:
- Humanities
-
- Creator:
- Adams, Julia
- Description:
- This eportfolio was created for the Gateway course of the Sweetland Minor in Writing to provide an opportunity for students to reflect on their growing identities as writers, as captured in their text-based and multimodal compositions produced over the Gateway semester. The title of the work contains the pseudonym created for the study while the creator field lists the student's given name to allow proper attribution for their work. The eportfolio is collected here as an artifact in the Sweetland Writing Development Study, which has been published as Developing Writers in Higher Education: A Longitudinal Study (University of Michigan Press, 2019). To learn more about this study, please see the epublication: https://doi.org/10.3998/mpub.10079890), and to learn more about the Minor in Writing program and the eportfolio prompts, please see Appendix 2a ( https://doi.org/10.3998/mpub.10079890.cmp.1) to the publication.
- Keyword:
- eportfolio , gateway , sitesucker , website , and file directory
- Discipline:
- Humanities
-
- Creator:
- Garno, Gregory
- Description:
- This eportfolio was created for the Gateway course of the Sweetland Minor in Writing to provide an opportunity for students to reflect on their growing identities as writers, as captured in their text-based and multimodal compositions produced over the Gateway semester. The title of the work contains the pseudonym created for the study while the creator field lists the student's given name to allow proper attribution for their work. The eportfolio is collected here as an artifact in the Sweetland Writing Development Study, which has been published as Developing Writers in Higher Education: A Longitudinal Study (University of Michigan Press, 2019). To learn more about this study, please see the epublication: https://doi.org/10.3998/mpub.10079890), and to learn more about the Minor in Writing program and the eportfolio prompts, please see Appendix 2a ( https://doi.org/10.3998/mpub.10079890.cmp.1) to the publication.
- Keyword:
- eportfolio , gateway , sitesucker, website , and file directory
- Discipline:
- Humanities
-
- Creator:
- Lisner, Emily
- Description:
- This eportfolio was created for the Gateway course of the Sweetland Minor in Writing to provide an opportunity for students to reflect on their growing identities as writers, as captured in their text-based and multimodal compositions produced over the Gateway semester. The title of the work contains the pseudonym created for the study while the creator field lists the student's given name to allow proper attribution for their work. The eportfolio is collected here as an artifact in the Sweetland Writing Development Study, which has been published as Developing Writers in Higher Education: A Longitudinal Study (University of Michigan Press, 2019). To learn more about this study, please see the epublication: https://doi.org/10.3998/mpub.10079890), and to learn more about the Minor in Writing program and the eportfolio prompts, please see Appendix 2a ( https://doi.org/10.3998/mpub.10079890.cmp.1) to the publication.
- Keyword:
- eportfolio , gateway , sitesucker , website , and file directory
- Discipline:
- Humanities
-
- Creator:
- Avesian, Erica
- Description:
- This eportfolio was created for the Gateway course of the Sweetland Minor in Writing to provide an opportunity for students to reflect on their growing identities as writers, as captured in their text-based and multimodal compositions produced over the Gateway semester. The title of the work contains the pseudonym created for the study while the creator field lists the student's given name to allow proper attribution for their work. The eportfolio is collected here as an artifact in the Sweetland Writing Development Study, which has been published as Developing Writers in Higher Education: A Longitudinal Study (University of Michigan Press, 2019). To learn more about this study, please see the epublication: https://doi.org/10.3998/mpub.10079890), and to learn more about the Minor in Writing program and the eportfolio prompts, please see Appendix 2a ( https://doi.org/10.3998/mpub.10079890.cmp.1) to the publication.
- Keyword:
- eportfolio , capstone, sitesucker, website , and file directory
- Discipline:
- Humanities
-
- Creator:
- Brennan, Jonathan R.
- Description:
- These files contain the raw data and processing parameters to go with the paper "Hierarchical structure guides rapid linguistic predictions during naturalistic listening" by Jonathan R. Brennan and John T. Hale. These files include the stimulus (wav files), raw data (matlab format for the Fieldtrip toolbox), data processing paramters (matlab), and variables used to align the stimuli with the EEG data and for the statistical analyses reported in the paper.
- Keyword:
- linguistics, syntax, language, and eeg
- Discipline:
- Social Sciences
-
- Creator:
- Ozturk, Dogacan S
- Description:
- The modeling research conducted to produce this dataset focuses on the solar wind dynamic pressure drop events and how they affect the Earth's intrinsically coupled Magnetosphere, Ionosphere and Thermosphere systems. This study specifically focuses on the 11 June 2017 event, where the solar wind dynamic pressure dropped significantly following a period of higher pressure. We model the response to this pressure drop using University of Michigan Space Weather Modeling Framework ( http://csem.engin.umich.edu/tools/swmf/). The simulation results were created using BATS-R-US and GITM models. The observational data required for model comparisons were taken from OMNI ( https://omniweb.gsfc.nasa.gov) and CDAWeb ( https://cdaweb.gsfc.nasa.gov/sp_phys/) Databases.
- Keyword:
- GITM, BATS-R-US, Solar wind dynamic pressure, Magnetosphere-Ionosphere-Thermosphere, and MHD
- Discipline:
- Science
-
- Creator:
- Liang, Jun and Wang, Zihan
- Description:
- The aim of the research to study the temporal evolution of the Sub-Auroral Polarizations Streams (SAPS) with multiple instruments. Aurora images are important to identify the electrodynamics in the high latitude ionosphere. Data used in this research were collected and provided by Dr. Jun Liang at University of Calgary, and analyzed by Zihan Wang for the article accompanying this deposit. The data was collected from all sky imagers (ASI) located in Saskatoon, Canada. and saskrainbow01.sav contains the rgb channels from ASI. It can be opened using IDL. saskasiskymap.gm5 contains the sky map of the ASI. It shows the geographic location of the figure pixels. aurora_diff.pro is the procedure to recover the data from saskrainbow01.sav and make plots. draw_colorbar.pro is the procedure to add a colorbar to the plot. mlon_smp_towang.pro and rebinsmpkeo_towang.pro can together make keogram plots. Run mlon_smp_towang.pro first and then rebinsmpkeo_towang.pro.
- Keyword:
- All Sky Imager
- Discipline:
- Science
-
- Creator:
- Singer, Kanakadurga
- Description:
- Supplementary Figure 1. Tissue weights in response to HFD feeding and CL treatment. (A) GWAT weight as % of body weight (B) IWAT weight as % of body weight (C) BAT weight as % of body weight (D) Liver weight as % of body weight. N=7-12 /group; *p<0.05, **p<0.01, ***p<0.005, ****p<0.0001; error bars are SEM. Comparisons of M ND PBS vs F ND PBS are shown as #p<0.05, ##p<0.01, ###p<0.005 and M HFD PBS vs F HFD PBS are shown as &p<0.05, &&p<0.01, &&&p<0.005, &&&&p<0.0001., Supplementary Figure 2. Free glycerol estimation in lean and obese male and female WAT and BAT depot explants with ADRB3 stimulated lipolysis. Free glycerol estimation in lean and obese (A) GWAT (B) IWAT (C) BAT explant tissues. Free glycerol released calculated as fold change over basal conditions in lean and obese (D) GWAT (E) IWAT (F) BAT explant tissues. N=8 /group; *p<0.05, **p<0.01, ***p<0.005, ****p<0.0001; error bars are SEM. Comparisons of M ND PBS vs F ND PBS are shown as #p<0.05, ##p<0.01, ###p<0.005 and M HFD PBS vs F HFD PBS are shown as &p<0.05, &&p<0.01, &&&p<0.005, &&&&p<0.0001., Supplementary Figure 3. Gene expression (A) Akt1 and (B) Glut4 gene expression in obese male and female GWAT with and without ADRB3 stimulation. A.U., arbitrary units, N=5-8; *p<0.05, **p<0.01, ***p<0.005, ****p<0.0001., Supplementary Figure 4. Flow cytometry assessment of ATMs in lean and obese IWAT SVF. Quantitation of (A) IWAT percent ATMs (B) IWAT CD11c+ ATMs (C) IWAT CD11c-ATMs (D) IWAT dendritic cells (DC) numbers, N=7-12/group; *p<0.05, **p<0.01, ***p<0.005, ****p<0.0001. , Supplementary Figure 5. Lipidomic assessment of lipid mediators in obese male and female GWAT. (A) Relative hydroxy fatty acids (FAHFA) (B) Phosphatidylserine (PS) (C) Phosphatidylcholine (PC) (D) Lyso-PC (E) Phosphatidylethanolamine (PE) (F) Phosphatidylglycerol (PG) (G) Phosphatidylinositol (PI) content in obese male and female GWAT with and without CL treatment. N=6/group; *p<0.05, **p<0.01, ***p<0.005, ****p<0.0001., and Curation note: Title of deposit changed from "Supplementary Materials Lipolysis Paper" Dec. 20, 2018 to more closely reflect association with the paper these materials support.
- Discipline:
- Science
-
- Creator:
- Ramasubramani, Vyas
- Description:
- The goal of the work is to elucidate the stability of a complex experimentally observed structure of proteins. We found that supercharged GFP molecules spontaneously assemble into a complex 16-mer structure that we term a protomer, and that under the right conditions an even larger assembly is observed. The protomer structure is very well defined, and we performed simulations to try and understand the mechanics underlying its behavior. In particular, we focused on understanding the role of electrostatics in this system and how varying salt concentrations would alter the stability of the structure, with the ultimate goal of predicting the effects of various mutations on the stability of the structure. There are two separate projects included in this repository, but the two are closely linked. One, the candidate_structures folder, contains the atomistic outputs used to generate coarse-grained configurations. The actual coarse-grained simulations are in the rigid_protein folder, which pulls the atomistic coordinates from the other folder. All data is managed by signac and lives in the workspace directories, which contain various folders corresponding to different parameter combinations. The parameters associated with a given folder are stored in the signac_statepoint.json files within each subdirectory. The atomistic data uses experimentally determined protein structures as a starting point; all of these are stored in the ConfigFiles folder. The primary output is the topology files generated from the PDBs by GROMACS; these topologies are then used to parametrize the Monte Carlo simulations. In some cases, atomistic simulations were actually run as well, and the outputs are stored alongside the topology files. In the rigid_protein folder, the ConfigFiles folder contains MSMS, the software used to generate polyhedral representations of proteins from the PDBs in the candidate_structures folder. All of the actual polyhedral structures are also stored in the ConfigFiles folder. The actual simulation trajectories are stored as general simulation data (GSD) files within each subdirectory of the workspace, along with a single .pos file that contains the shape definition of the (nonconvex) polyhedron used to represent a protein. The logged quantities, such as energies and MC move sizes, are stored in .log files. The logic for the simulations in the candidate_structures project is in the Python scripts project.py, operations.py, and scripts/init.py. The rigid_protein folder also includes the notebooks directory, which contains Jupyter notebooks used to perform analyses, as well as the Python scripts used to actually perform the simulations and manage the data space. In particular, the project.py, operations.py and scripts/init.py scripts contain most of the logic associated with the simulations.
- Keyword:
- Protein assembly, Cryo TEM, Hierarchical Assembly, Monte Carlo simulation, and Coarse-grained simulation
- Discipline:
- Science and Engineering
-
- Creator:
- R Paul Drake
- Description:
- The specific focus of the project was radiative shocks, which develop when shock waves become so fast and hot that the radiation from the shocked matter dominates the energy transport. This in turn leads to changes in the shock structure. Radiative shocks are challenging to simulate, as they include phenomena on a range of spatial and temporal scales and involve two types of nonlinear physics Ð- hydrodynamics and radiation transport. Even so, the range of physics involved is narrow enough that one can hope to model all of it with sufficient fidelity to reproduce the data. CRASH was focused on developing predictions for a sequence of experiments performed in Project Year 5, in which those experiments represented an extrapolation from all previously available data. The previous data involved driving radiative shocks within cylindrical structures, and mainly straight tubes. The Year 5 experiments drove a radiative shock down an elliptical tube. Our long-stated goal for these predictions was that the distribution of predicted values would overlap significantly with the observed distribution. We achieved this goal. Achieving our goal required the conversion of an established space-weather code to model radiative shocks at high energy density. To obtain reasonable fidelity with respect to the experimental data required implementing a laser absorption package, in addition to a hydrodynamic solver, electron physics and heat conduction, and multigroup diffusive radiation transport. The dedicated experiments provided evidence of experimental variability, validation of the calculation of initial shock wave behavior, and validation data at many observation times using cylindrical shock tubes. Following this were preparatory experiments for and finally the execution of the Year 5 experiments. The predictive science research included a wide range of sensitivity studies to determine which variables were important and a sequence of predictive studies focused on specific issues and sets of data. This led ultimately to predictions of shock location for the Year 5 experiments. A conclusion from this project is that the serious quantification of uncertainty in simulations is a dauntingly difficult and expensive prospect. Pre-existing codes are unlikely to have been built with attention to what will be needed to quantify their uncertainty. Pre-existing experimental results are even more unlikely to include a sufficiently detailed analysis of the experimental uncertainties. And this will also be true of most experiments that might be used to validate components of the simulation. The analysis of uncertainty in any one of the physical processes (and related physical constants) is a major effort. And addressing model form uncertainty is an even bigger challenge, that may in principle require development of complete, alternative simulation models. We made a start at all of this, and completed almost none of it. But by the end of a project, we finally had all the pieces in place and working that would have enabled a range of important studies and advances in relatively near-term years. But the sponsor terminated the program after only five years. For most of the participants this was a relatively minor development, although for a few of them it proved to be enormously disruptive. We believe that the cost to the nation, in work that was ready be done but now will not be, was much much larger. The sketch of the target was produced using a drawing program based on the experimental dimensions. The annotated photograph of the target was obtained using a visible-light camera. The colorized radiographs were obtained via backilit-pinhole radiography of a radiative shock propagating down an elliptical tube, at 26 ns after the lasers driving the shock tube fired. The graph showing lines and circles was produced by running many computer models, analyzing their statistical distribution, and measuring actual shock positions in the experiment.
- Keyword:
- Radiative shock
- Discipline:
- Science
-
- Creator:
- Adams, Julia
- Description:
- This eportfolio was created for the Gateway course of the Sweetland Minor in Writing to provide an opportunity for students to reflect on their growing identities as writers, as captured in their text-based and multimodal compositions produced over the Gateway semester. The title of the work contains the pseudonym created for the study while the creator field lists the student's given name to allow proper attribution for their work. The eportfolio is collected here as an artifact in the Sweetland Writing Development Study, which has been published as Developing Writers in Higher Education: A Longitudinal Study (University of Michigan Press, 2019). To learn more about this study, please see the epublication https://doi.org/10.3998/mpub.10079890, and to learn more about the Minor in Writing program and the eportfolio prompts, please see Appendix 2a - https://doi.org/10.3998/mpub.10079890.cmp.1 to the publication.
- Keyword:
- eportfolio , gateway, sitesucker, website, and file directory
- Discipline:
- Humanities
-
- Creator:
- Figueroa, C. Alberto
- Description:
- This information provides the data and commands to manually setup the computational simulations used in the PLOS ONE paper 'Patient-specific modeling of right coronary circulation vulnerability post-liver transplant in Alagille’s syndrome' using CRIMSON (CARDIOVASCULAR INTEGRATED MODELLING & SIMULATION) a prototype simulation environment developed under the support of the European Research Council (( http://www.crimson.software/)., Note that a Windows version of the CRIMSON flowsolver is provided as part of the CRIMSON Windows installer, but you will need a very powerful Windows computer to run these simulations, as the models used in the present work are extremely computationally-demanding. It is recommended that you use a Linux version of the CRIMSON flowsolver on a high-performance computer., Option 1 (ready-to-use files to immediately start the simulation): 1. Please unzip the Ready-to-use files. 2. Copy the folders of each of the three conditions to the high performance computer. 3. In addition to different codes used, each folder provides the boundary conditions applied in the simulations described in the manuscript (e.g. LPN parameters). To run the 3D simulations for each condition simply launch the it using the CRIMSON flowsolver. In addition, the solver.inp file can be modified to run a 0D "real-time simulation" (please open solver.inp with a text editor and modify line 4 "Simulate in Purely Zero Dimensions:" to "True")., Option 2 (using the MITK files): 1. Please download and install Crimson software ( http://www.crimson.software/). 2. Please unzip the MITK files and the Ready-to-use files. 3. From amongst the provided MITK files, load the MITK file of interest to CRIMSON (using the MITK files, additional changes can be made to the computational model in case the user wants to explore different settings/boundary conditions e.g. change the vascular wall properties, introducing a change in the geometry to create a virtual stenosis). 3. Navigate to the tree in the "Data Manager" panel and select the "Pulmonaries", "CRIMSON SOLVER" and then "Solver study 3D" items, in the described order. 4. In the right hand panel select the "CRIMSON Solver setup" tab and scroll down the right hand bar until to find the "Setup Solver" box; click to output the simulation files (faceInfo.dat, geombc.dat.1, multidomain.dat, netlist_surface.dat,numstart.dat, presolver folder, solver.inp, restart.0.1). 5. Copy and replace the geombc.dat.1 and restart.0.1 generated by CRIMSON for each individual condition to the respective unziped folder in the Ready-to-use file (discard the remaining files that were output by CRIMSON). Note that if you have not changed anything about the model (e.g. vascular wall properties), then doing this will produce restart.0.1 and geombc.dat.1 files which are identical to the ready-to-use versions. 6. Finally copy each Condition folder to the high performance computer and simply launch the simulation using the CRIMSON flowsolver., and For technical queries please contact crimson-users@googlegroups.com. --October 2018.
- Discipline:
- Health Sciences and Engineering
-
- Creator:
- Liemohn, Michael W, McCollough, James P, Engel, Miles A, Jordanova, Vania K, and Morley, Steven K
- Description:
- There is a directory tree inside this zipped file. The main directory has the Adobe Illustrator plots of the figures in the paper, Space Weather journal manuscript # 2018SW002067, "Model evaluation guidelines for geomagnetic index predictions" by M. W. Liemohn and coauthors. The three subdirectories have the files for the individual models, the data to which they are compared, and the IDL code used to create the figure plots and metrics calculations. and Date coverage is specific to each model. The RAMSCB model covers January 2005, the WINDMI model all of 2014, and the UPOS model 1.5 solar cycles, from 1 October 2001 through 29 July 2013.
- Keyword:
- space weather, model assessment, time series metrics, and geomagnetic indices
- Discipline:
- Science
-
- Creator:
- Kort, EA, Gvakharia, A, Smith, ML, and Conley, S
- Description:
- Data is collected from research flights based in West Memphis, Arkansas, covering the Mississippi River Valley. The data file contains all merged flight data from each flight day.
- Keyword:
- Greenhouse gas
- Discipline:
- Science
-
- 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
- Discipline:
- Health Sciences
-
- 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
- Discipline:
- Health Sciences
-
- Creator:
- Reed, Matthew P., Boyle, K.
- Description:
- This is the first physical anthropomorphic test device to be based both on statistical body shape models as well as 3D printing.
- Keyword:
- Child Belt Fit Manikin
- Discipline:
- Engineering
-
- Creator:
- Isaacoff, Benjamin P., Li, Yilai, Lee, Stephen A., and Biteen, Julie S.
- Description:
- This is the experimental data referenced in our manuscript entitled “SMALL-LABS: An algorithm for measuring single molecule intensity and position in the presence of obscuring backgrounds .” These live-cell single-molecule imaging movies were used as a test of the SMALL-LABS single-molecule image analysis algorithm. The dataset comprises two movies; each one is provided both as a .tif stack and as an .avi file. The movie called “low_bg” has a standard low background, and the movie called “high_bg” includes a high fluorescent background produced by an external 488-nm laser.
- Keyword:
- single-molecule, microscopy, image analysis, mirobiology, and bacteria
- Discipline:
- Engineering and Science
-
- Creator:
- Thomaz, Andréa T. (UMICH) and Knowles, L. Lacey (UMICH)
- Description:
- The eastern coastal basins of Brazil are a series of small and isolated rivers that drain directly into the Atlantic Ocean. During the Pleistocene, sea-level retreat caused by glaciations exposed the continental shelf, resulting in enlarged paleodrainages that connected rivers that are isolated today. Using Geographic Information System (GIS), we infer the distribution of these paleodrainages, and their properties for the east Brazilian coast. Here, we publicly make available the shapefiles that demonstrate the paleodrainage structure along the Brazilian coast during the largest sea-level retreats in the Pleistocene, the riverine vectors during the same period and the coastal line for a drop of -125m in the sea.
- Keyword:
- Paleodrainages, Glaciations, Pleistocene, Brazil, Neotropical, and Sea-level retreat
- Discipline:
- Science