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- Creator:
- Chen, Kevin S, Noureldein, Mohamed H, McGinley, Lisa M, Hayes, John M, Rigan, Diana M, Kwentus, Jaquelin F, Mason, Shayna N, Mendelson, Faye E, Savelieff, Masha G, and Feldman, Eva L
- Description:
- Therapeutic mechanisms of human neural stem cells (hNSCs) were studied in an Alzheimer's disease mouse model (5XFAD). hNSCs restored spatial memory abilities in 5XFAD animals; however, amyloid beta levels were unchanged. Spatial transcriptomics was used to probe mechanisms of hNSCs. Focusing on a subset of plaque-induced genes, gene normalization was seen particularly in microglia, confirmed by PROGENy and Cell Chat analyses. and The spatial transcriptomics data from this publication have been deposited in NCBI Gene Expression Omnibus (16) and are accessible through GEO Series accession number GSE209583 ( https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE209583 and enter token gzglogqkvjqrhmt). Additional supporting data are available from the corresponding author upon reasonable request.
- Citation to related publication:
- Chen KS, Noureldein MH, McGinley LM, Hayes JM, Rigan DM, Kwentus JF, Mason SN, Mendelson FE, Savelieffd MG, Feldman EL. Human neural stem cells restore spatial memory in a transgenic Alzheimer's disease mouse model by an immunomodulating mechanism. bioRxiv [Preprint]. 2023 Nov 4:2023.11.01.565161. doi: 10.1101/2023.11.01.565161. PMID: 37961246; PMCID: PMC10635057.
- Discipline:
- Health Sciences
-
- Creator:
- Hero, Alfred O, Zhai, Yaya, Burke, Thomas, Doraiswamy, Murali, Ginsburg, Geoffrey S, Henao, Ricardo, Turner, Ronald B, and Woods, Christopher W
- Description:
- The data deposited here is as follows: The clinical shedding/symptom data, RNAseq, steroid, and wearable E4 data was partially presented in publications [1]-[3] and the cognitive lumos and VAFS data is presented in the paper [4], which is under review and embargoed. The data files are: subject.json, sample.json, and genematrix_TPM.csv. In addition, a copy of the blank consent form used to enroll volunteers in the study is included (17964_Adult Consent_2015Mar17-Mod 1_clean.pdf)., Clinical symptom and viral shedding data (in subject.json): reports each subject's accumulated and maximum self-reported symptom score (modified Jackson score) and shedding titrations from nasal-pharyngeal washes after inoculation. , RNAseq data (genematrix_TMP.csv): Whole blood was collected in PAXgene™ Blood RNA tubes (PreAnalytiX), and total RNA extracted using the PAXgene™ Blood miRNA Kit (QIAGEN) using the manufacturer’s recommended protocol. RNA quantity and quality were assessed using Nanodrop 2000 spectrophotometer (Thermo-Fisher) and Bioanalyzer 2100 with RNA 6000 Nano Chips (Agilent). RNA sequencing libraries were prepared using Illumina TruSeq mRNA Library Kit with RiboZero Globin depletion, and sequenced on an Illumina NextSeq sequencer with 50bp paired-end reads (target 40M reads per sample). After demultiplexing to FASTQ paired-end read counts files, the 396 samples were TPM transformed using HISAT2 software with the reference genome Homo_sapiens.GRCh38.84. Each sample corresponds to one of the 18 subjects at one of 22 time points. One of these samples was of insufficient quality to be mapped to read counts. In addition to the TPM normalized RNAseq data contained in this repository, the raw FASTQ data for the 395 samples are deposited in the GEO repository ( https://www.ncbi.nlm.nih.gov/geo), Accession # GSE215087. , Cognitive data (sample.json): Outcomes from a NeuroCognitive Performance Test (NCPT) that was taken approximately 3 time daily by all volunteers. The NCPT is a repeatable, web-based, computerized, cognitive assessment platform designed to measure subtle changes in performance across multiple cognitive domains. Subject scores along 18 cognitive variables data were collected at approximated 22 time points during the challenge study. The data structure sample.json contains the raw cognitive data and the extracted 18 cognitive scores over time for each subject. , The Visual Analog Fatigue Scale (sample.json): the VAFS is a measure of cognitive fatigue that was measured approximately 3 times per day at the same time as the NCPT and blood draw. , Wearable device data (sample.json): participants wore an Empatica E4 device for the duration of the challenge study. Summarized features are provided for each subject that include sleep duration (mean and std), sleep offset (mean and std), and temperature (mean and std). , Steroid data was also collected and is included in the sample.json. This steroid data was collected from the whole blood samples and consists of cortisol, melatonin, and DHEAS. , and See README.txt for more specific details on the data structures contained in the sample.json, subject.json, and genematrix_TPM.csv files.
- Keyword:
- human challenge study and cognitive health and immunity
- Citation to related publication:
- X She, Y Zhai, R Henao, CW Woods, C Chiu, Geoffrey S. Ginsburg, Peter X.K. Song, AO. Hero, “Adaptive multi-channel event segmentation and feature extraction for monitoring health outcomes,” IEEE Transactions on Biomedical Engineering, vol. 68, no. 8, pp. 2377-2388, Aug. 2021, doi: 10.1109/TBME.2020.3038652. Available on arxiv:2008.09215 , Emilia Grzesiak, Brinnae Bent, Micah T. McClain, Christopher W. Woods, Ephraim L. Tsalik, Bradly P. Nicholson, Timothy Veldman, Thomas W. Burke, Zoe Gardener, Emma Bergstrom, Ronald B. Turner, Christopher Chiu, P. Murali Doraiswamy, Alfred Hero, Ricardo Henao, Geoffrey S. Ginsburg, Jessilyn Dunn Assessment of the Feasibility of Using Noninvasive Wearable Biometric Monitoring Sensors to Detect Influenza and the Common Cold Before Symptom Onset. JAMA Netw Open. 2021;4(9):e2128534. doi:10.1001/jamanetworkopen.2021.28534 , E Sabeti, S Oh, PX Song, A Hero. “A Pattern Dictionary Method for Anomaly Detection,” Entropy, vol 24, pp. 1095 Aug 2022. doi: 10.3390/e24081095, and Yaya Zhai, P. Murali Doraiswamy, Christopher W. Woods, Ronald B. Turner, Thomas W. Burke, Geoffrey S. Ginsburg, Alfred O. Hero, "Pre-exposure cognitive performance variability is associated with severity of respiratory infection," manuscript under review.
- Discipline:
- Health Sciences and Social Sciences
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- Creator:
- Bellile, Emily L, Taylor, Jeremy MG, and Wolf, Gregory T
- Description:
- The University of Michigan’s Head and Neck Specialized Program of Research Excellence (SPORE) included an epidemiology project that approached every previously untreated adult head and neck squamous carcinoma (HNSCC) patient evaluated in the multidisciplinary Head and Neck Oncology Program of the University of Michigan (UM; Ann Arbor, MI) Comprehensive Cancer Center for participation in our longitudinal epidemiology study. This analytic dataset includes the most commonly requested covariates and outcome variables for survival analysis of this cohort of HNSCC patients. Data cleaning and creation of this analysis dataset was performed with SAS software v 9.3 (Carey,NC) by a biostatistician supporting multiple projects in the University of Michigan’s Head and Neck Specialized Program of Research Excellence (SPORE) and is available in RedCap for UM investigators to join with discipline specific data collected on the same cohort through a de-identified ID link.
- Keyword:
- Head and Neck Cancer, HNSCC, Squamous Cell Cancer, Epidemiology, Head and Neck Specialized Program of Research Excellence (SPORE). , Cancer, Prognosis, and Survival Analysis
- Citation to related publication:
- Cigarette use, comorbidities, and prognosis in a prospective head and neck squamous cell carcinoma population. Peterson LA, Bellile EL, Wolf GT, Virani S, Shuman AG, Taylor JM, Rozek LS; University of Michigan Head and Neck Specialized Program of Research Excellence Program. Head Neck. 2016 Dec;38(12):1810-1820. doi: 10.1002/hed.24515. Epub 2016 Jul 19. PMID: 27432208. , Development and Assessment of a Model for Predicting Individualized Outcomes in Patients With Oropharyngeal Cancer. Beesley LJ, Shuman AG, Mierzwa ML, Bellile EL, Rosen BS, Casper KA, Ibrahim M, Dermody SM, Wolf GT, Chinn SB, Spector ME, Baatenburg de Jong RJ, Dronkers EAC, Taylor JMG. JAMA Netw Open. 2021 Aug 2;4(8):e2120055. doi: 10.1001/jamanetworkopen.2021.20055. PMID: 34369988., Amlani, L; Bellile, E; Spector, M; Smith, J; Brenner, C; Rozek, L; Nguyen, A; Zarins, K; Thomas, D; McHugh, J; Taylor, J; Wolf, GT. Expression of p53 and prognosis in patients with head and neck squamous cell carcinoma (HNSCC); Int J Cancer Clin Res 2019, 6:122. DOI: 10.23937/2378-3419/1410122., and Spector ME, Bellile E, Amlani L, Zarins K, Smith J, Brenner JC, Rozek L, Nguyen A, Thomas D, McHugh JB, Taylor JMG, Wolf GT; University of Michigan Head and Neck SPORE Program. Prognostic Value of Tumor-Infiltrating Lymphocytes in Head and Neck Squamous Cell Carcinoma. JAMA Otolaryngol Head Neck Surg. 2019 Nov 1;145(11):1012-1019. doi: 10.1001/jamaoto.2019.2427. PMID: 31486841; PMCID: PMC6735419.
- Discipline:
- Science and Health Sciences
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- 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
- Discipline:
- Health Sciences
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- Creator:
- Lockhart, Nancy
- Description:
- GRAND is a five-year, cluster randomized controlled trial. The study is registered on ClinicalTrials.gov, [ID#: NCT04033003] and is a collaboration between University of Michigan in the United States and the Dodowa Health Research Center in Ghana. and The study setting for GRAND is four districts (Akwapim North, Yilo Krobo, Nsawam-Adoagyiri, and Lower Manya Krobo) within the Eastern Region of Ghana. Health facilities were selected based the number ANC registrants per month and average gestational age of women at registration in each facility. Facilities were then matched based on facility type, district, and number of monthly ANC registrants.
- Keyword:
- Antenatal care, Ghana, and Maternal health
- Discipline:
- Health Sciences and International Studies
2Works -
- Creator:
- Lori, Jody R., Moyer, Cheryl, Lockhart, Nancy, Zielinski, Ruth E., Kukula, Vida, Apetorgbor, Veronica, Awini, Elizabeth, Badu-Gyan, Georgina, and Williams, John
- Description:
- GRAND is a five-year, cluster randomized controlled trial. The study is registered on ClinicalTrials.gov, [ID#: NCT04033003] and is a collaboration between University of Michigan in the United States and the Dodowa Health Research Center in Ghana. , The study setting for GRAND is four districts (Akwapim North, Yilo Krobo, Nsawam-Adoagyiri, and Lower Manya Krobo) within the Eastern Region of Ghana. Health facilities were selected based the number ANC registrants per month and average gestational age of women at registration in each facility., and Facilities were then matched based on facility type, district, and number of monthly ANC registrants. A cluster randomized controlled trial was conducted in 14 facilities in four districts of the Eastern Region of Ghana. Health facilities were randomized using a matched pairs design; each pair was similar in the number of deliveries and average gestational age of the women at enrollment in antenatal care. The locations of the facilities were far enough apart to avoid cross-group contamination. In each pair of facilities, one was randomly assigned to the intervention (G-ANC) and the other to the control (I-ANC). Recruitment began July 2019 and ended when enrollment targets were met. Data collection ended July 2023 when data collection was complete.
- Keyword:
- Antenatal care, Ghana, and Maternal health
- Citation to related publication:
- Lori, J., Kukula, V., Liu, L. et al. Improving health literacy through group antenatal care: results from a cluster randomized controlled trial in Ghana. BMC Pregnancy Childbirth 24, 37 (2024). https://doi.org/10.1186/s12884-023-06224-x
- Discipline:
- International Studies and Health Sciences
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- Creator:
- Hatch, Nan E.
- Description:
- Crouzon FGFR2-C342Y/+ and wild type littermate pups on a BALB/c congenic background were injected with lentivirus expressing TNAP enzyme or phosphate buffered saline shortly after birth. Mice were euthanized 4 weeks after birth for analyses.
- Keyword:
- craniofacial, bone, craniosynostosis, FGFR2, TNAP, mouse model, and development
- Discipline:
- Health Sciences
-
- Creator:
- Hatch, Nan E.
- Description:
- Crouzon FGFR2-C342Y/+ and wild type littermate pups on a C57BL/6 congenic background were injected with lentivirus expressing recombinant TNAP enzyme or phosphate buffered saline shortly after birth. Mice were euthanized 3 weeks after birth for analyses.
- Keyword:
- craniofacial, bone, craniosynotosis, FGFR2, TNAP tissue nonspecific alkaline phosphatase, mouse model, and development
- Citation to related publication:
- Nam, H. K., Vesela, I., Schutte, S. D., & Hatch, N. E. (2020). Viral delivery of tissue nonspecific alkaline phosphatase diminishes craniosynostosis in one of two FGFR2C342Y/+ mouse models of Crouzon syndrome. PLOS ONE, 15(5), e0234073. https://doi.org/10.1371/journal.pone.0234073
- Discipline:
- Health Sciences
-
- Creator:
- Lee, Joyce Y, Knauer, Heather A, Lee, Shawna J, MacEachern, Mark P, and Garfield, Craig F
- Description:
- The dataset includes all citations considered for inclusion in the systematic review. The citations are accessible in Endnote (enlx), as well as through the primary citation export files from each database. The literature search strategies are included for reproducibility and transparency purposes. See the published methods for more information.
- Keyword:
- Systematic Review, Fathers, Education, and Perinatal
- Citation to related publication:
- Lee JY, Knauer HA, Lee SJ, MacEachern MP, Garfield CF. (2018). Father-inclusive perinatal parent education programs: A systematic review. Pediatrics, 142(1). PMID: 29903835. and https://doi.org/10.1542/peds.2018-0437
- Discipline:
- Health Sciences
-
- Creator:
- Crisp, Dakota N., Cheung, Warwick, Gliske, Stephen V., Lai, Alan, Freestone, Dean R., Grayden, David B., Cook, Mark J., and Stacey, William C.
- Description:
- The data and the scripts are to show that seizure onset dynamics and evoked responses change over the progression of epileptogenesis defined in this intrahippocampal tetanus toxin rat model. All tests explored in this study can be repeated with the data and scripts included in this repository. and Dataset citation: Crisp, D.N., Cheung, W., Gliske, S.V., Lai, A., Freestone, D.R., Grayden, D.B., Cook, MJ., Stacey, W.C. (2019). Epileptogenesis modulates spontaneous and responsive brain state dynamics [Data set]. University of Michigan Deep Blue Data Repository. https://doi.org/10.7302/r6vg-9658
- Keyword:
- evoked response, stimulation, bifurcation, epilepsy, seizure, divergence, and dynamics
- Citation to related publication:
- Crisp, D. N., Cheung, W., Gliske, S. V., Lai, A., Freestone, D. R., Grayden, D. B., Cook, M. J., & Stacey, W. C. (2020). Quantifying epileptogenesis in rats with spontaneous and responsive brain state dynamics. Brain Communications, 2(1). https://doi.org/10.1093/braincomms/fcaa048
- Discipline:
- Science, Engineering, and Health Sciences
-
- Creator:
- Lin, Jack and Stacey, William C.
- Description:
- The characterization of HFO networks through functional connectivity analysis and network centrality. Details of the code repository can be found in the README.txt file.
- Keyword:
- Epilepsy, High Frequency Oscillation, HFO, Network, and EEG
- Citation to related publication:
- Pending
- Discipline:
- Health Sciences
-
- Creator:
- Raghani, Ravi M, Urie, Russell R, and Shea, Lonnie D
- Description:
- The IN were sampled during and after ICB and sequenced to identify gene expression signatures that correlated with sensitivity or resistance. We also analyzed gene expression at the IN prior to ICB treatment to identify markers predicting therapeutic response. Longitudinally interrogating an IN, to monitor changes associated with ICB response, presents a new opportunity to personalize care and investigate mechanisms underlying treatment resistance.
- Keyword:
- Immunotherapy resistance, Biomaterials, Metastasis, Checkpoint blockade, and Therapy monitoring
- Discipline:
- Engineering and Health Sciences
-
- Creator:
- Meurer, William
- Description:
- SPSS is required to access processed dataset in .sav format. Model output is provided as a word document, and Qualtrics survey instrument is included as PDF and .docx, where .docx version contains survey logic and question numbers.
- Keyword:
- Diagnostic Testing, Emergency Medicine, and Financial Incentives
- Citation to related publication:
- Iyengar, R., Winkels, J., Smith, C. M., Meka, A. P., MD, Porath, J. D., MD, & Meurer, W. J., MD, MS. (2019, January 21). The Effect of Financial Incentives on Patient Decisions to Undergo Low-Value Head CT Scans. https://doi.org/10.31219/osf.io/4mdfw
- Discipline:
- Health Sciences
-
- 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:
- Engineering, Health Sciences, Science, Other, and General Information Sources
-
- Creator:
- Irani, Sanaya , Tolia, Sangini, Finks, Jonathan, and Sandhu, Gurjit
- Description:
- Program Description DoT was founded in 2012 with a mission to increase diversity amongst medical professionals by preparing students from underrepresented communities in Detroit to successfully pursue careers in healthcare. Our program builds on a partnership between Cass Technical High School (CTHS) and the University of Michigan Medical School (UMMS). The CTHS student body is reflective of the Detroit population with more than 80% of students identifying with racial and ethnic minority backgrounds. Students with an interest in healthcare apply for the program as ninth graders. In recent years, the program has received over 60 applications for approximately 30 positions in each grade. DoT’s unique strength lies in its longitudinal structure. There are three branches of the program – Foundations (ninth and tenth grade), Rising (eleventh and twelfth grade) and Succeed (undergraduate). Ninth graders start out in DoT Foundations. Each student is paired with a first-year medical student mentor at UMMS for the entire academic year. DoT students travel to UMMS every month for a visit day, with activities designed to give students hands-on experiences in healthcare, such as suturing and ultrasound skills in the simulation center, and clinical shadowing. Students then meet with their medical student mentor over lunch. The latter part of the day is dedicated to working on their capstone projects. For the capstone projects, students work in small teams led by medical student leaders to identify a community health issue, partner with a local organization, and present their proposed solutions at a formal symposium at the end of the year. , Transition to Virtual Programming In light of the recent COVID-19 pandemic, a growing number of universities cancelled all campus events including those of pipeline programs. We felt that our programming offered an important service to our students that would be greatly missed, so our team worked to quickly create and implement a virtual program. We ensured that each of our students had access to technology at home and those who did not were offered scholarships. During our introductory student session and new parent meeting, our leadership team discussed how to set up a Gmail email address for weekly communications and taught the students how to use Zoom, Google Drive, Google Docs and Google Sheets for online learning collaboration. For the virtual Foundations program, we offered 1-hour seminars each month, where a physician was invited to give a 30-minute presentation about different organ systems, followed by a 30-minute case-based session where students worked with medical student mentors to apply their new knowledge. We also created novel sessions such as “The Path to College and Medical School” and collaborated with members of the Black Medical Association (BMA) and Latin American and Native American Medical Association (LANAMA) to host a panel session where students could learn from medical students who identified as URiM. For the mentorship aspect, we created “pods” of Foundations, Rising, and Succeed students along with medical student and physician mentors. The Foundations students and mentors met every month for an hour on Zoom, a virtual communication platform, to work on their Capstone project. Rising and Succeed students joined the group for three full-pod meetings. The goal was to increase near-peer mentorship and connections between DoT students at all levels. , and Study Population Due to the virtual nature of the 2020-2021 program, we accepted 100% of 9th grade applicants from CTHS. We also expanded our reach to a new school, The School at Marygrove (TSM), which is also located in Detroit, Michigan. TSM is involved in the Detroit-20 Partnership with the University of Michigan College of Education and includes a novel three-year residency program for novice teachers. During the 2020-2021 school year, 108 students participated in the Foundations programming with 72 of them being 9th graders and 36 being 10th graders. The students were mostly from CTHS with 12 students out of the 108 total being from TSM. Students were predominantly from an African American/Black racial background (68.4% from N=98 respondents). The students were representative of their respective schools. The majority of students at CTHS identify as black, come from low-income homes, and have variable levels of parental education.
- Keyword:
- pipeline program, Underrepresented in medicine, Mentorship, Medical education, and COVID-19
- Discipline:
- Health Sciences
-
- Creator:
- Kerber, Kevin A and Meurer, William J
- Description:
- Data set
- Keyword:
- dizziness
- Discipline:
- Health Sciences
-
- Creator:
- Berlin, Nicholas and MacEachern, Mark
- Description:
- This systematic review and meta-analysis assesses decision aids in the context of patients considering post-mastectomy breast reconstruction. and NOTE: An updated Read Me file was added to this data set on May 24, 2018 replacing the original.
- Keyword:
- Post-mastectomy, Decision-making, Systematic review, Decision aids, Meta-analysis, and Breast reconstruction
- Citation to related publication:
- Berlin NL, Tandon VJ, Hawley ST, et al. Feasibility and Efficacy of Decision Aids to Improve Decision Making for Postmastectomy Breast Reconstruction: A Systematic Review and Meta-analysis. Med Decis Making. 2019;39(1):5–20. https://doi.org/10.1177/0272989X18803879
- Discipline:
- Health Sciences
-
- Creator:
- Gradwohl, Kelsey M.
- Description:
- The data set includes one file: Dermatology Clerkship Chalk Talks Raw Dataset which is the raw data collected from the surveys. This raw data was then coded and scored with the following analysis. Objective knowledge questions were asked for each chalk talk which was scored by authors. A knowledge assessment score was calculated by adding the total number of points accumulated by the student, dividing it by the total number of points possible, and summarizing the score as a percentage. Pre- and post-talk knowledge assessment scores were compared for each chalk talk and for the entire curriculum using 2-tailed paired sample t-tests with statistical significance if p<0.05., Before and after each talk, students were asked how confident they felt differentiating conditions within each disease group. For the erythroderma and immunobullous talks, students were also asked how confident they felt working up the conditions. Answer choices were on a Likert scale ranging from 1 (not at all confident) to 5 (extremely confident). Pre- and post-chalk talk scores were summarized as means with standard deviations and compared using 2-tailed paired sample t-tests with statistical significance if p<0.05. , After each talk, students were asked about its efficacy in terms of enhancing their understanding of the diseases, providing a framework or approach to work-up, and facilitating interaction between student and teacher. Answer choices were on a Likert scale ranging from 1 (not at all effective) to 5 (extremely effective), and summarized as means with standard deviations. Students were asked for written feedback regarding what they liked about the talk and suggestions for improvement. Qualitative data were sorted into categories and scored by two independent raters (cohen's kappa =0.8)., and In the response Likert scale, "Not at all"=1, "Not so (much)"=2, "Somewhat"=3, "Very"=4, and "Extremely"=5.
- Keyword:
- Chalk talk, Dermatology clerkship, Dermatology education, Virtual learning, and Online learning
- Discipline:
- Health Sciences
-
- Creator:
- Dariya, Malyarenko, Tariq, Humera, Kushwaha, Aman, Mourad, Rami, Heist, Kevin, Chenevert, Thomas L, Ross, Brian D, Chen, Heang-Ping, and Hadjiiski, Lubomir
- Description:
- The 3D GRE MRI data for murine model of myelofbifrosis with expert segmentations of mouse tibia was used to train Attention UNET model to automate bone marrow segmentation for measurements of imaging biomarkers. This dataset consists of three archives: (1) containing the source MRI images in Meta-image-header (MHD) format with resulting segmentation labels by two experts and four UNET models with different training scenarios; (2) corresponding training models; and (3) deep-learning (DL)-based segmentation tools for application to future murine tibia MRI data. and The MHD images are an ITK compatible format that can be viewed in standard image viewer, like 3D Slicer. The image archive is structured with a directory tree that contains \"mouseID"\"scan-date"\"segmentaion-scenario"\. The "training model" archive containes DL-model labeled by the data subset, and "deployment" archive containes the DL-segmentation software.
- Keyword:
- deep-learning segmentation, preclinical MRI, murine tibia, and mouse model of myelofibrosis
- Citation to related publication:
- Kushwaha A, Mourad RF, Heist K, Tariq H, Chan HP, Ross BD, Chenevert TL, Malyarenko D, Hadjiiski LM. Improved Repeatability of Mouse Tibia Volume Segmentation in Murine Myelofibrosis Model Using Deep Learning. Tomography. 2023 Mar 7;9(2):589-602. doi: 10.3390/tomography9020048. PMID: 36961007; PMCID: PMC10037585. and https://github.com/dumichgh/MFJK1_Segmentation_MHDs
- Discipline:
- Health Sciences
-
- Creator:
- Umberfield, Elizabeth, Ford, Kathleen, Stansbury, Cooper, and Harris, Marcelline R.
- Description:
- Research Overview: This dataset is clinical consent forms, collected as part of Dr. Elizabeth Umberfield's dissertation research of at the University of Michigan. 134 consent forms are used in the analysis, 102 of which are shared here (not all are shared due to data protection agreements with participating sites). The research aimed to enable representation of clinical consent forms and their permissions within the Informed Consent Ontology. These efforts were supported by the Rackham Graduate Student Research Grant, and Dr. Umberfield's doctoral training was supported by the Robert Wood Johnson Foundation Future of Nursing Scholars Program.
- Keyword:
- Consent, Consent Form, Informed Consent, Health Care, and Healthcare
- Citation to related publication:
- Umberfield, E., Jiang, Y., Fenton, S., Stansbury, C., Ford, K., Crist, K., Kardia, S., Thomer, A., & Harris, M. R. (In Press). Lessons Learned for Identifying and Annotating Permissions in Clinical Consents. Applied Clinical Informatics. and Umberfield, E., Stansbury, C., Ford, K., Jiang, Y., Kardia, S. L. R., Thomer, A., & Harris, M. R. (Under Review). Evaluating and Extending the Informed Consent Ontology for Representing Permissions from the Clinical Domain.
- Discipline:
- Health Sciences