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opencc-by-4.0May 2023View details →

Dynamic calcium-mediated stress response and recovery signatures in the fungal pathogen, Candida albicans - Supplementary Movies

Supplementary Data: movie files: Movie S1: BWP17-GCaMP 1 mM – 200 mM Ca2+ Movie S2: WT-GCaMP 1M NaCl Movie S3: BWP17-GCaMP 0.6 M Ca2+ Movie S4: WT-GCaMP 0.05% SDS Movie S5: WT-GCaMP 5 mM H2O2 Movie S6: Empty-vector 5 mM H2O2 Movie S7: cap1∆-GCaMP 5 mM H2O2 Movie S8: hog1∆-GCaMP 5 mM H2O2 Movie S9: cnb1∆-GCaMP 5 mM H2O2 Movie S10: crz1∆-GCaMP 5 mM H2O2 Movie S11: cch1∆-GCaMP 5 mM H2O2 Movie S12: yvc1∆-GCaMP 5 mM H2O2

opencc-by-4.0Jul 2023View details →

Trellis Single-Cell Screening Reveals Stromal Regulation of Patient-Derived Organoid Drug Responses

Patient-derived organoids (PDOs) can model personalized therapy responses, however current screening technologies cannot reveal drug response mechanisms or how tumor microenvironment cells alter therapeutic performance. To address this, we developed a highly-multiplexed mass cytometry platform to measure post translational modification (PTM) signaling, DNA-damage, cell-cycle activity, and apoptosis in >2,500 colorectal cancer (CRC) PDOs and cancer associated fibroblasts (CAFs) in response to clinical therapies at single-cell resolution. To compare patient- and microenvironment-specific drug responses in thousands of single-cell datasets, we developed Trellis — a highly-scalable, hierarchical tree-based treatment effect analysis method. Trellis single-cell screening revealed that on-target cell-cycle blockage and DNA-damage drug effects are common, even in chemorefractory PDOs. However, drug-induced apoptosis is rare, patient-specific, and aligns with cancer cell PTM signaling. We find that CAFs can regulate cancer cell plasticity — shifting proliferative stem cells to slow-cycling revival stem cells via YAP to protect cancer cells from chemotherapy.   This repo contains the processed scRNA-seq Scanpy AnnData objects generated from the study. More information describing the data can be found at: https://github.com/TAPE-Lab/Ramos-et-al-Trellis

opencc-zeroJul 2023View details →

Data for: Responses to saltwater exposure vary across species, populations, and life-stages in anuran amphibians

To predict the impacts of environmental change on species, we must first understand the factors that limit the present-day ranges of species. Most anuran amphibians cannot survive at elevated salinities, which may drive their distribution in coastal locations. Previous research showed that coastal Hyla cinerea are locally adapted to brackish habitats in North Carolina (USA). Although Hyla squirella and Hyla chrysoscelis both inhabit coastal wetlands nearby, they have not been observed in saline habitats. We take advantage of naturally occurring microgeographic variation in coastal wetland occupancy exhibited by these congeneric treefrog species to explore how salt exposure affects oviposition site choice, hatching success, early tadpole survival, plasma osmolality, and tadpole body condition across coastal and inland locations. We observed higher survival among coastal H. cinerea tadpoles than inland H. cinerea, which corroborates previous findings. But contrary to expectations, coastal H. cinerea had lower survival than H. squirella and H. chrysoscelis, indicating that all three species may be able to persist in saline wetlands. We also observed differences in tadpole plasma osmolality across species, locations, and salinities, but these differences were not associated with survival rates in saltwater. Instead, coastal occupancy may be affected by stage-specific processes like higher probability of total clutch loss as shown by inland H. chrysoscelis or maladaptive egg deposition patterns as shown by inland H. squirella. Although we expected saltwater to be the primary filter driving species distributions along a coastal salinity gradient, it is likely that the factors dictating anuran ranges along the coast involve stage-, species-, and location specific processes that are mediated by ecological processes and life history traits.

opencc-by-4.0Jun 2023View details →

Axonal mRNA localization in response to neurotrophin treatment

This file contains the required processed data required to implement the code located at https://github.com/RLuisier/AxonLoc that related to the manuscript Axonal mRNA localization in response to neurotrophin treatment by Luisier et al. 2023.

opencc-by-4.0Jul 2023View details →

Response and resilience of karst subterranean estuary communities to precipitation impacts

Data and code used in the analyses for the article "Response and resilience of karst subterranean estuary communities to precipitation impacts" published in the journal "Ecology and Evolution" in 2023. See Metadata file for the description on each file.

opencc-zeroJul 2023View details →

Is my model fit for purpose? Validating a population model for predicting freshwater fish responses to flow management

Models based on ecological processes ("process-explicit models") are often used to predict ecosystem responses to environmental changes or management scenarios. However, models are imperfect and need to be validated, ideally by testing their assumptions and outputs against independent empirical data sets. Examples of validation of process-explicit models are rare. Recently, stochastic population models have been developed to predict the likely responses (over 10-120 years) of a riverine fish (golden perch, Macquaria ambigua) to flow management in the Murray-Darling Basin (MDB) in eastern Australia, one of the world's most regulated river basins. Declines of golden perch (and other species) are a direct consequence of altered hydrology, and managers require information to predict how fish will respond to possible future hydrological conditions to guide the substantial investments in flow management. Here, we use two independent field data sets to validate our population model. We compared model predictions to observed trends to ask: (1) how do predicted population sizes and growth rates compare to observed data? (2) does the correlation between predicted and observed population sizes and growth rates vary among populations? (3) does the correlation between predicted and observed population sizes and growth rates vary across observed hydrological conditions? and (4) how do modelled and observed fish movement rates compare? We found reasonable correlations between fish population sizes and growth rates as predicted by the model and observed in independent data sets for several populations (Aim 1) but the strength of these correlations varied among populations (Aim 2) and hydrological conditions (Aim 3). Predicted and observed fish movement rates were strongly correlated (Aim 4). Population models are frequently used in conservation decision-making but are rarely validated. We demonstrate that: (1) validation can identify model strengths and weaknesses; (2) observed data sets often have inherent limitations that can preclude robust validations; (3) validation is likely be more common if appropriate observed data sets are available; and (4) validation should consider the purpose of modelling. Wider consideration of these messages would contribute to more critical examinations of models so they can be most appropriately used in conservation decision-making.

Molecular profiling of sponge deflation reveals an ancient relaxant-inflammatory response

A hallmark of animals is the coordination of whole-body movement. Neurons and muscles are central to this, yet coordinated movements also exist in sponges that lack these cell types. Sponges are sessile animals with a complex canal system for filter-feeding. They undergo whole-body movements resembling “contractions'' that lead to canal closure and water expulsion. Here, we combine 3D optical coherence microscopy, pharmacology, and functional proteomics to elucidate anatomy, molecular physiology, and control of these movements. We show that they are driven by the relaxation of actomyosin stress fibers in epithelial canal cells, which leads to whole-body deflation via collapse of the incurrent and expansion of the excurrent system, controlled by an Akt/NO/PKG/A pathway. A concomitant increase in reactive oxygen species and secretion of proteinases and cytokines indicate an inflammation-like state reminiscent of vascular endothelial cells experiencing oscillatory shear stress. This suggests an ancient relaxant-inflammatory response of perturbed fluid-carrying systems in animals. File descriptions: <ul> <li>pharma_*.avi: Exemplary videos for pharmacological treatments of Spongilla lacustris, related to Fig. 2</li> <li>OCM_tomographic_scan: 2D scan through an unsegmented sponge body. First a x-z scan, afterwards a x-y scan. </li> <li>ink_treatment_suppl_figS3.mov: Video of ink treated Spongilla lacustris specimen, related to Fig. S3</li> <li>S_lacustris_annotations_emapper: EggNOG mapper (v2.1.9) results used for GO term enrichment analysis</li> <li>S_lacustris_proteome: Proteome file used as database for proteomic searches</li> <li>S_lacustris_scRNAseq.h5ad: file containing scRNAseq and cell type information of Spongilla lacustris. </li> <li>Suppl_file_*.xlsx: Tables of proteomics (TPP, phophoproteomics, secretomics) results</li> </ul>

opencc-by-4.0Jul 2023View details →

Data for: Design of stimulus-responsive two-state hinge proteins

Supplementary information for Design of stimulus-responsive two-state hinge proteins: Design scripts, design models, and aw DEER data.

Localizing Commitments, Challenges, and Insights on the Road to Immunization Agenda 2030: Responses from 6,185 national and sub-national staff (Immunization Agenda 2030 Full Learning Cycle, 7 March - 20 June 2022)

# Localizing Commitments, Challenges, and Insights on the Road to Immunization Agenda 2030: Responses from 6,185 national and sub-national staff (Immunization Agenda 2030 Full Learning Cycle, 7 March - 20 June 2022) ## Abstract This data set contains survey responses from over 6,000 national and subnational immunization staff who applied to participate in a 2022 Full Learning Cycle (FLC) learning programme of The Geneva Learning Foundation (TGLF), intended to contribute to the Movement for Immunization Agenda 2030. The 95-item questionnaire collected information on respondents' commitment to the movement's principles, demographics, work challenges, motivation and learning culture, and the impact of COVID-19 on routine immunization. The purpose was to understand applicants' priority challenges and readiness to engage in peer learning to advance country and global immunization goals. Questions addressed consent, identity confirmation, COVID-19 vaccination status, employer, role, system level, past participation in the sponsoring organization's programs, work and wellbeing, difficulties with COVID-19 vaccination, outbreak response, gender equity, and reaching zero-dose children. Applicants identified one priority challenge in their work that they would seek to address through the program. This data set offers insights into frontline perspectives on strengthening immunization programs. Secondary analysess were performed in 2022 and 2023 to illuminate human resource issues, gender barriers, pandemic recovery, and peer learning for change. ## Research Audience Education and global health researchers with interest in human resources for health (HRH) and the characteristics, priority challenges, and experiences of national and sub-national immunization staff participating in the Movement for Immunization Agenda (IA) 2030. ## Credits ### Author The Geneva Learning Foundation (TGLF) 18 Avenue Louis Casaï  CH1209 Geneva, Switzerland research@learning.foundation ### Principal Investigator and Corresponding Author Reda Sadki, TGLF reda@learning.foundation ### Project Partners - Biostat Global Consulting (BGC) - Bridges to Development - Centre for Change & Complexity in Learning (C3L) ### Partners' Roles and Responsibilities - Design: TGLF - Implementation (sample collection): TGLF - Processing: TGLF, C3L - Anonymization: BGC - Data cleaning: Bridges to Development - Submission: TGLF - Maintenance of learning analytics database where data are stored: C3L ### Funding Wellcome Trust, Bill & Melinda Gates Foundation (BMGF) ## Recommended Citation The Geneva Learning Foundation, 2023. Full Learning Cycle (2022) Application for national and sub-national immunization staff to identify challenges and join the Movement for Immunization Agenda (IA 2030) (Version 1.0) [Data Set]. The Geneval Learning Foundation. [DOI:https://doi.org/10.5281/zenodo.8199552](https://zenodo.org/record/8199552) ## File List IA2030_EN_FLC_2022_Application_Survey.README.md (this document) 20220211.IA2030-EN Movement application-FINAL.docx: List of questions included in the questionnaire. (Note: skip patterns are not shown.) IA2030_EN_Application_Survey_Dataset.xlsx: English version of anonymized Application Survey Dataset. Version 1: Geneva Learning Foundation, 11 August 2023. (6,669 observations; 58 variables) ## Related Data Sets This is a subset of data collected by The Geneva Learning Foundation (TGLF) during the first IA2030 Full Learning Cycle (FLC). The complete IA2030 Application Survey data set is more comprehensive, and includes information such as respondents' gender, employer, professional role, country, and health system level, as well as responses to open-text questions.  Researchers who would like to analyze the full set of unredacted responses are invited to contact the Geneva Learning Foundation to inquire about a Data Sharing Agreement that would stipulate conditions of access (insights@learning.foundation). The Geneva Learning Foundation, 2023. Value Creation Stories (VCS) weekly feedback survey, 2022 Full Learning Cycle (FLC) of the Movement for Immunization Agenda 2030 (IA2030) (Version 1.0). [Data Set]. The Geneva Learning Foundation. DOI: https://doi.org/10.5281/zenodo.7763922  Additional data sets for the first Full Learning Cycle (FLC) of the Movement for Immunization Agenda 2030 (IA2030) are available from TGLF's Insights Unit (<insights@learning.foundation>). ## Survey Purpose The Immunization Agenda 2030, the global immunization strategy for 2021-2030, set ambitious targets for global immunization coverage and other key indicators (World Health Organization [WHO], 2023a). In response to the WHO Director-General's call for a social movement to ensure immunization remains a priority for global and regional health agendas and promote broad societal support for immunization (WHO, 2023b), TGLF, working with its global community of over 35,000 alumni, developed a learning programme intended to contribute to a “Movement for Immunization Agenda 2030 (IA2030)”. In addition to participating in structured peer learning activities, applicants made a pledge to work towards IA2030 and their country's goals, adhere to the IA2030 core principles, and to provide support to their peers making similar commitments. The purpose of the IA2030 Application Survey was to collect demographic and organizational information from immunization workers who work at the national or sub-national level interested in applying for the 2022 Learning Cycle and for membership in the Movement for IA2030. ## Survey Questionnaire The survey questionnaire consisted of both quantitative (Likert) and qualitative (open-text) responses to 95 questions documenting respondents' commitment to joining the Movement for IA2030 and adhering to relevant principles, demographic characteristics, information about work history and role, work and well-being, learning culture and performance, COVID-19 recovery efforts through vaccination campaigns and routine immunization (including outreach), priority work-related challenges, and most important reason for wanting to join the Movement for IA2030. Survey content was informed by TGLF's six years of experience working with thousands of immunization workers from over 90 countries. The survey was administered in English and French. While most of questions were required, several items, including questions about work and well-being and COVID-19 vaccination status, were optional. ### Question Scaling and Response Options Most questions were asked with a 'select one response' instruction, but several encouraged the respondent to 'select all that apply'. - AP_CAR_20    Which of these job categories apply to you? - AP_ENV_55    Where you work, what strategies have been put in place to reach under immunized or zero-dose children? - AP_CHA_63    Is your challenge related to any of these? - AP_ENV_78    What actions are being taken at your level of the health system to strengthen RI or PHC that specifically takes advantage of some aspect of COVID-19 vaccine introduction? - AP_ENV_87    Select all activities used for catch-up. - AP_ENV_91    What were the disruptions related to? Each person's several responses are stored in a single text variable and separated by commas. Some data management will be necessary to divide these strings of text into individual variables to represent each response option. ## Overview of questionnaire for respondents The following information was shared with all applicants to provide an overview of the questions and their rationale. First, we ask you for: - Consent to share your data, to confirm your supervisor’s support, and to make commitments to follow country and WHO guidelines on COVID-19 and immunization - Your legal name and birthdate to confirm your identity for certification. - Your WhatsApp number to connect you with other participants in the Movement. - Your organization, role, and health system level, and if you are a TGLF alum. - We ask you about your work and well-being: Before we ask you about the challenges you face, we ask about your work and well-being, especially your motivation and how learning is being supported where you work. - We ask about the challenges you face: In 2020, global immunization coverage levels for infants dropped back to 2009 levels. It is like we lost 11 years of hard work. So we ask you about the challenges you face: COVID-19 vaccination, epidemic outbreaks (measles, yellow fever, etc.), gender barriers, and zero-dose children. - We ask you to pick the challenge that you will work on in the Movement: Then we ask you to identify your most difficult and important challenge. This is the one that you will focus on in the Movement. (You can always change later.) - Are you truly committed to learning with colleagues from all over the world? Because the Movement is about learning, sharing experience, and collaborating with others, we ask you to confirm to what extent this is what you want to do. - We ask you to share your successes, ideas, and lessons learned: Because we know that you have many strengths, we ask you if you want to share a success story, and idea, or a lesson learned with colleagues. - We ask you if you want to help build and shape the Movement for IA2030: We ask you if you want to join the Organizing Committee to help build the Movement for Immunization Agenda 2030. - Global partners request your help: Finally, we ask you to answer questions that IA2030 global partners are specifically interested in, about the effect of COVID-19 on routine immunization, catch-up activities, and your own COVID-19 vaccination. (You can choose to skip these questions.) ### Specific questions that respondents were encouraged to reflect upon before writing out their answers - Tell us more about your work and well-being. What are the worst and best parts of your job? Where do you find the motivation to continue your work? What helps you feel involved in your work?  How has the COVID-19 pandemic changed how you feel about your work? What makes you lose or gain your motivation?  - Tell us more about the effect of the introduction of the COVID-19 vaccine for routine immunization (RI) and primary health care (PHC) services in the area where you work. Explain what has happened. What measures, if any, have been taken to mitigate disruptions or potential disruptions to health workers involvement in routine immunization due to COVID-19 vaccination activities where you work? - Do you have a story about gender barriers to immunization that you would like to share? - Tell us more about what you are doing to reach zero-dose children and missed communities.  - Tell us more about how we can better support you. What are the barriers for you to tackle the challenge you face? For your challenge, what kind of support would be most helpful to you? Why? Tell us more about your motivation to join the Movement for Immunization Agenda 2030. What do you hope to gain? What do you want to contribute? How will participating in this Movement help you improve your work? - Do you have something that you want to share with colleagues? What you share does not need to be a “big” idea. We are interested in what you are doing that helps you to continue or improve your immunization work, even in a small way. ## Ethical Considerations Prior to fielding of the survey, the survey instrument and protocol were subjected to ethical and legal review by TGLF. Prior to beginning the survey, prospective respondents reviewed a User Agreement and a summary of TGLF's Privacy Policy (https://www.learning.foundation/pages/privacy), which provides information about the personal information the Foundation collects; the ways in which the Foundation uses personal information; and TGLF's procedures for protecting the loss, misuse or alteration of personal information. Participants who chose to respond to the items relevant to work and well-being and organizational culture were promised that their responses would be strictly confidential and that only anonymous, aggregated data would be shared with others. ## Recruitment Process and Description of the Sample Members of TGLF's immunization learning community were invited to participate in the survey by email and were encouraged to invite relevant colleagues (immunization workers who work at either the national or sub-national level) to participate by sharing the invitation. Respondents accessed the survey via the Internet by clicking on the survey link contained in the email. Inclusion criteria for participation in the survey included being an immunization worker who works at the national or sub-national level. Only individuals who indicated their direct supervisor at work agreed with their participation and who completed the consent form were permitted to complete a survey. ## Survey Design and Administration This one-time Internet-based survey was administered as part of the launch of the IA2030 Movement. The survey was available from February 22, 2022 - June 17, 2022. Respondents did not receive any incentives for completing the survey. The survey was hosted on the Typeform server. The survey itself and all information collected for the survey was secured with multiple levels of encryption and access controls to guarantee participant confidentiality, per Typeform policy (https://www.typeform.com/help/a/security-at-typeform-360029259552/?tid=200afff9-65b2-46e2-9553-0063f2c808b6). ## Data Processing and Cleaning Duplicate surveys were identified using respondents' email addresses and were removed from the data file. When a duplicate survey was submitted, only the most recent survey data were retained. ## Data Privacy and Anonymization The data file shared on this site is intentionally incomplete.  Columns holding personally identifying information (e.g., email address, gender, country) have been deleted. Out of an abundance of caution, columns that could potentially hold personally identifying information (i.e., responses to open-text questions) have been deleted. In accordance with the privacy policy noted in the questionnaire, responses to questions related to work and well-being and organizational culture have also been redacted. A complete list of the variables that have been redacted from the data file is provided in the data file "Summary" tab. Each respondent's record holds a unique identifier in the column named AP_DAT_99. ## Data Availability and Accessibility This data set is being made available through Zenodo, an open access repository. There are no restrictions on access to open data except those stated in the copyright and license. Researchers who would like to analyze the full set of unredacted responses are invited to contact the Geneva Learning Foundation to inquire about a Data Sharing Agreement that would stipulate conditions of access (insights@learning.foundation). ## Copyright and License © The Geneva Learning Foundation 2022. This data set and all associated files are licensed under the Creative Commons Attribution-ShareAlike 4.0 International (CC BY-SA 4.0) Some rights reserved. This work is available under the Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International; https://creativecommons.org/licenses/by-nc-sa/4.0/. Under the terms of this license, you may copy, redistribute and adapt the data set for non-commercial purposes, provided the work is appropriately cited, as indicated above. In any use of this data set, there should be no suggestion that the Foundation endorses any specific organization, products, or services. Any mediation relating to disputes arising under the license shall be conducted in accordance with the mediation rules of the World Intellectual Property Organization. General disclaimers. The designations employed and the presentation of the data set do not imply the expression of any opinion whatsoever on the part of the Foundation concerning the legal status of any country, territory, city or area or of its authorities. The mention of specific companies or of certain manufacturers' products does not imply that they are endorsed or recommended by the Foundation in preference to others of a similar nature that are not mentioned. Errors and omissions excepted, the names of all reasonable precautions have been taken by the Foundation to verify the information contained in this data set. However, the published material is being distributed without warranty of any kind, either expressed or implied. The responsibility for interpretation and use of the material lies with the reader. In no event shall the Foundation be liable for damages arising from its use. The data set contains individual views and does not necessarily represent the decisions or the policies of the Foundation. Version 1.0 (11 August 2023). ## References Asiwome Kosi Abiwu, P.H., and Jones, I. (2022). IA2030 Case study 5. Paul Hilarius Asiwome Kosi Abiwu. View from the frontline: building stronger systems (The Geneva Learning Foundation) 10.5281/ZENODO.7004284. Ateke, N.A., and Jones, I. (2022). IA2030 Case study 4. Njoh Andreas Ateke. View from the frontline: working with communities to strengthen immunization programmes (The Geneva Learning Foundation) 10.5281/ZENODO.7004263. Ekwam, D.K., and Jones, I. (2022). IA2030 Case study 13. Pharm. Daniel Kwesi Ekwam. Covering all the bases (The Geneva Learning Foundation) 10.5281/ZENODO.7010227. Faye, W., Jones, I., Mbuh, C., and Sadki, R. (2023). IA2030 Case study 18. Wasnam Faye. Vaccine angels - Give us the opportunity and we can perform miracles. (The Geneva Learning Foundation) 10.5281/ZENODO.7785244. Faye, W., Jones, I., Mbuh, C., and Sadki, R. (2023). IA2030 Étude de cas 18. Wasnam Faye. Les anges de la vaccination : « Donnez-nous l'occasion et nous ferons des miracles. » (The Geneva Learning Foundation) 10.5281/ZENODO.7849329. Ferrah Conteh, Z., and Jones, I. (2022). IA2030 Case study 6. Zainab Ferrah Conteh. View from the frontline: Strenghtening the immunization programme backbone (The Geneva Learning Foundation) 10.5281/ZENODO.7010079. Iwot, N., and Jones, I. (2022). IA2030 Case study 14. Ndaeyo Iwot. Building the capacities of communities (The Geneva Learning Foundation) 10.5281/ZENODO.7010211. Jones, I., Mbuh, C., and Sadki, R. (2023). Listening and Learning at Teach to Reach 7 (IA2030 Listening and Learning Report 4) (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7766585. Jones, I., Mbuh, C., and Sadki, R. (2023). Teach to Reach 7: Partager pour apprendre (Rapport IA2030 «Écouter pour apprendre n° 4) (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7851783. Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., and Kovanovic, V. (2022). IA2030 Case study 1. A digital health platform for immunization and primary health care (PHC) engagement (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.6982953. Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., and Kovanovic, V. (2022). IA2030 Case study 1. A digital health platform for immunization and primary health care (PHC) engagement (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.6982953. Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., and Kovanovic, V. (2022). IA2030 Case Study 10. Development of zero dose situational analyses and action plans (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7010177. Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., and Kovanovic, V. (2022). IA2030 Case study 2. Squaring the circle: safeguarding existing immunization programmes and primary healthcare during COVID-19 vaccination (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7004191. Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., and Kovanovic, V. (2022). IA2030 Case Study 8. Practitioners' perceptions of key immunization challenges (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7005241. Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., and Kovanovic, V. (2022). IA2030 Listening and learning report 1. Working groups consultative engagement through a peer learning platform (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7010140. Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., and Kovanovic, V. (2022). IA2030 Movement Year 1 report. Consultative engagement through a digitally enabled peer learning platform (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7119648. Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., and Kovanovic, V. (2022). IA2030. Listening and learning report 3. Everyone, everywhere: digital peer learning to leave no one behind (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7010209. Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., and Kovanovic, V. (2022). Mouvement pour la vaccination à l'horizon 2030. Rapport Écouter pour apprendre n° 3. Partout, pour tous: l'apprentissage numérique par les pairs pour que personne ne reste sur le côté (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7142102. Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., Kovanovic, V., et al. (2022). IA2030 Rapport «Écouter pour apprendre» n° 2. Notre engagement pour la vaccination #VaccinesWork (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7254160. Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., Kovanovic, V., et al. (2022). IA2030.Listening and learning report 2. It takes people to make #VaccinesWork (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7010196. Jones, I., Sadki, R., Brooks, A., Gasse, F., Yagnik, A., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., et al. (2022). IA2030 Case Study 9. Understanding and responding to zero-dose challenges (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7010171. Jones, I., Watkins, K.E., Sadki, R., Brooks, A., Gasse, F., Yagnik, A., Mbuh, C., Zha, M., Steed, I., Sequeira, J., et al. (2022). IA2030 Case Study 7. Motivation, learning culture and programme performance (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7004304. Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., and Kovanovic, V.(2022). IA2030 Year 1 report. Consultative engagement through a digitally enabled peer learning platform (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7119648. Jones, I., Watkins, K.E., Sadki, R., Brooks, A., Gasse, F., Yagnik, A., Mbuh, C., Zha, M., Steed, I., Sequeira, J., et al. (2022). IA2030 Case Study 7. Motivation, learning culture and programme performance (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7004304. Kaboré, B., and Jones, I. (2022). IA2030 Case study 12. Boureima Kaboré. Delivering services in conflict-affected areas (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7010188. Kuotong Nongho, R., and Jones, I. (2022). IA2030 Case study 3. Kuotong Nongho Rogers. View from the frontline: microplanning for equity (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7004235. Mbuh, C., Gasse, F., Jones, I., Sadki, R., Brooks, A., Zha, M., Steed, I., Sequeira, J., Churchill, S., and Kovanovic, V. (2022). IA2030 Case study 16. Continuum from knowledge to performance (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7014392. Monga, F., Jones, I., Mbuh, C., and Sadki, R. (2023). IA2030 Case study 19. Franck Monga. Building a movement for IA2030 in the Democratic Republic of Congo (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7794726. Monga, F., Jones, I., Mbuh, C., and Sadki, R. (2023). IA2030 Étude de cas 19. Franck Monga. Construire un Mouvement pour la vaccination en République Démocratique du Congo (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7851476. Monzón, M.F., Jones, I., Mbuh, C., and Sadki, R. (2023). IA2030 Case study 17. María Fernanda Monzón. Speaking up for frontline staff (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7785024. Monzón, M.F., Jones, I., Mbuh, C., and Sadki, R. (2023). IA2030 Étude de cas 17. María Fernanda Monzón. Prendre la parole au nom des personnels de première ligne (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7848308. Oketch, P., and Jones, I. (2022). IA2030 Case study 15. Penina Oketch. Planning, people and performance (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7010242. Sadki, R., Mbuh, C., Szylovec, A.P., and Brooks, A. (2023). Value creation stories anonymized open data set (Immunization Agenda 2030 Full Learning Cycle, 7 March - 20 June 2022). https://doi.org/10.5281/zenodo.7763922. WHO (2020). Immunization Agenda 2030: A Global Strategy to Leave No One Behind [Internet]. Available from: https://www.who.int/teams/immunization-vaccines-and-biologicals/strategies/ia2030.  Yagnik, A., Jones, I., Sadki, R., Brooks, A., Gasse, F., Mbuh, C., Zha, M., Steed, I., Sequeira, J., Churchill, S., et al. (2022). IA2030 Case Study 11. Gender barriers to immunization (The Geneva Learning Foundation) https://doi.org/10.5281/zenodo.7010184.

Thermal Response due to Crack Growth in Viscoelasticity

The study of thermal response in the crack tip due to crack growth is very important to study the material behavior. Actually, the thermal response in the crack tip is generated by the mechanical dissipation energy properties, e.g. the viscous energy dissipation. Therefore, we proposed the PFM for crack propagation in thermoviscoelasticity solids and demonstrated several numerical examples. Our present model is derived from the Francfort–Marigo energy with the Ambrosio–Tortorelli regularization, and thermal energy.  Our study aims to investigate the thermal response in the material due to crack growth numerically using the proposed model.  In the numerical method, since we need the mesh which has to be fine enough to capture the damage variable $z$, we apply the adaptive finite element method. Several interesting numerical examples are demonstrated, such as; Mode I crack propagation, Mixed Mode I+II crack propagation, and scalar Mode III crack propagation in the non-isothermal and adiabatic processes. Numerical experiments demonstrate the capability of the proposed model to capture the temperature increasing around crack tips which is consistent with the viewpoint of laboratory experiments in the literature.

Data and results for "Germline-encoded specificities and the predictability of the B cell response"

Data and results for Vieira et al., <a href="https://www.biorxiv.org/content/10.1101/2022.09.16.508315v4">Germline-encoded specificities and the predictability of the B cell response</a> Code for the analyses is available at <a href="https://github.com/cobeylab/v_gene_selection/">https://github.com/cobeylab/v_gene_selection/</a>

opencc-by-sa-4.0Aug 2023View details →

Dataset on biomarkers for the project "Intermittent hypoxia differentially affects metabolic and oxidative stress responses in two species of cyprinid fish"

The file contains the data for the tissue-level biomarkers evaluating the impact of short-term hypoxia on oxidative stress and metabolic parameters in silver carp Hypophthalmichthys molitrix and gibel carp Carassius gibelio.

opencc-zeroAug 2023View details →

Data from: The effect of initial vortex asymmetric structure on tropical cyclone intensity change in response to an imposed environmental vertical wind shear

Previous studies have investigated how the environmental vertical wind shear (VWS) may trigger the asymmetric structure in an initially axisymmetric tropical cyclone (TC) vortex and how TC intensity changes in response. In this study, the possible effect of the initial vortex asymmetric structure on the TC intensity change in response to an imposed environmental VWS is investigated based on idealized full-physics model simulations. Results show that the effect of the asymmetric structure in the initial TC vortex can either enhance or suppress the initial weakening of the TC in response to the imposed environmental VWS. When the initial asymmetric structure is in phase of the VWS-induced asymmetric structure, the TC weakening will be enhanced and vice versa. Our finding calls for realistic representation of initial TC asymmetric structure in numerical weather prediction models and observations to better resolve the asymmetric structure in TCs.

opencc-zeroAug 2023View details →

Long-term ecological responses of a lowland dipterocarp forest to climate changes and nutrient availability at Bulusan Lake

This data publication encompasses the datasets generated in a study focusing on reconstructing ecological responses to climatic and nutrient availability changes during the late Holocene in northern Philippines. The data comes from samples taken from sediment cores retrieved from Bulusan Lake, located on Luzon Island, Philippines, in March 2013. In these samples, we analyzed fossil pollen and spores (a proxy for plant taxa abundance), charcoal (a proxy for fire activity), stable carbon isotopic composition of terrestrial-lipid biomarkers (a proxy for vegetation cover), stable nitrogen and phosphate isotope composition of bulk sediments, and elemental composition of sediment cores at a high resolution (proxies for nutrient availability and volcanic activity). The dataset also includes links to records generated in a previous study on the same sediments (Prohaska et al. 2023), where we measured the stable hydrogen isotopic composition of terrestrial-lipid biomarkers to reconstruct past hydrological conditions, as well as the magnetic susceptibility record and AMS dates of plant macrofossils to calculate sediment accumulation ages. The data generation spanned the period from April 2013 to September 2020, and the data files are provided in Excel spreadsheet format.

BSSE_QGF_61757 L010-L016 (Single-cell mRNA profiling reveals the hierarchical response of miRNA targets to miRNA induction)

Fastq files from sequencing of sample BSSE_QGF_61757 L010 to L016 Publication: https://doi.org/10.15252/msb.20188266

Data repository supporting the JGR article: A case study of the solar and lunar semidiurnal tide response to the 2013 sudden stratospheric warming

This dataset contains the meteor radar wind measurements and the background atmospheric data fields used to produce the results in the Journal of Geophysical Research - Space Physics article titled: A case study of the solar and lunar semidiurnal tide response to the 2013 sudden stratospheric warming. The nav_2013_ERAn_1dm_grid.dat file contains gridded latitude-longitude-altitude daily mean winds and temperatures for the composite atmosphere described in the article. The full range of dates span from the 1st of December 2012 to the 1st of April 2023. The composite atmosphere is constructed using ERA5 winds and temperatures below 85 hPa, NAVGEM-HA winds and temperatures between 85-0.001 hPa, and HWM14 + MSISE00 winds and temperatures above 0.001 hPa. The meteor_radars.zip file contains a folder containing the hourly meteor radar wind measurements for the Collm (Col), CMOR (CMO), and Kiruna (Kir) radars, as described in the supporting paper. The .hdf5 files contain both the horizontal and meridional wind measurements for December, January, February, and March (winter of 2012/2013).

Data repository in support of the article: A case study of the solar and lunar semidiurnal tide response to the 2013 sudden stratospheric warming

BSSE_QGF_61757 L001-L009 (Single-cell mRNA profiling reveals the hierarchical response of miRNA targets to miRNA induction)

Fastq files from sequencing of sample BSSE_QGF_61757 L001 to L009 Publication: https://doi.org/10.15252/msb.20188266

BSSE_QGF_61756 (Single-cell mRNA profiling reveals the hierarchical response of miRNA targets to miRNA induction)

Fastq files from sequencing of sample BSSE_QGF_61756 Publication: https://doi.org/10.15252/msb.20188266

BSSE_QGF_61759 (Single-cell mRNA profiling reveals the hierarchical response of miRNA targets to miRNA induction)

Fastq files from sequencing of sample BSSE_QGF_61759 Publication: https://doi.org/10.15252/msb.20188266