cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22237491.v1
title: Supplemental File from Symmetry and complexity in object-centric deep active inference models

description: Humans perceive and interact with hundreds of objects every day. In doing so, they need to employ mental models of these objects and often exploit symmetries in the object’s shape and appearance in order to learn generalizable and transferable skills. Active inference is a first principles approach to understanding and modelling sentient agents. It states that agents entertain a generative model of their environment, and learn and act by minimizing an upper bound on their surprisal, i.e. their Free Energy. The Free Energy decomposes into an accuracy and complexity term, meaning that agents favour the least complex model, that can accurately explain their sensory observations. In this paper, we investigate how inherent symmetries of particular objects also emerge as symmetries in the latent state space of the generative model learnt under deep active inference. In particular, we focus on object-centric representations, which are trained from pixels to predict novel object views as the agent moves its viewpoint. First, we investigate the relation between model complexity and symmetry exploitation in the state space. Second, we do a principal component analysis to demonstrate how the model encodes the principal axis of symmetry of the object in the latent space. Finally, we also demonstrate how more symmetrical representations can be exploited for better generalization in the context of manipulation.
DOI: 10.5281/zenodo.7709867
title: Tmem119_CreERT2_IAB_flox_IFNgamma_test

description: Tmem119 CreERT2/+ IAB fl/fl mice were dosed with i.p. tamoxifen. Six weeks after tamoxifen, mice were given IFN gamma. Three days later, microglial and BAM capacity to upregulate MHCII was assayed via flow cytometry.
DOI: 10.5281/zenodo.7706956
title: Tmem119Cre_TdTomato_flox_test

description: This dataset contains recombination data of Tmem119 CreERT2/+ TdTomato fl/fl mice injected with tamoxifen or corn oil as a control. Six weeks after tamoxifen, tdTomato expression was assayed via flow cytometry.
DOI: 10.5281/zenodo.7706957
title: Tmem119Cre_TdTomato_flox_test

description: This dataset contains recombination data of Tmem119 CreERT2/+ TdTomato fl/fl mice injected with tamoxifen or corn oil as a control. Six weeks after tamoxifen, tdTomato expression was assayed via flow cytometry.
DOI: 10.5281/zenodo.7709868
title: Tmem119_CreERT2_IAB_flox_IFNgamma_test

description: Tmem119 CreERT2/+ IAB fl/fl mice were dosed with i.p. tamoxifen. Six weeks after tamoxifen, mice were given IFN gamma. Three days later, microglial and BAM capacity to upregulate MHCII was assayed via flow cytometry.
DOI: 10.5281/zenodo.7709856
title: Sea-level fall driving enhanced hydrothermal and tectonic activities: evidence from a sediment core near the tectonic-controlled Tianxiu vent field, Carlsberg Ridge

description: The dataset file is Table S1 and Table S2 in the supporting information of the article entitled "Sea-level fall driving enhanced hydrothermal and tectonic activities: evidence from a sediment core near the tectonic-controlled Tianxiu vent field, Carlsberg Ridge".
DOI: 10.6084/m9.figshare.22132247.v4
title: ibb_scrnaseq

description: IBB scRNA-seq workshop
DOI: 10.25345/c5tm72b04
title: MassIVE MSV000091445 - Systems-wide adaptations in Arabidopsis thaliana plant lines grown in 1g and in microgravity environments, LC-MS Lipidomics
title: This research used Arabidopsis thaliana, aiming to identify systems-wide adaptations when plant lines are grown in 1g and microgravity environments. Both leaf and stem samples of WT plants and arogenate dehydratase mutants (adt5, adt45, adt3456) as well as carbon capturing mutants WTCCM and adt3456CCM were grown and analyzed for two separate repeat experiments on board the International Space Station (ISS) as compared to plants grown at 1 g at Kennedy Space Center (KSC). These two experiments are named Flight 1 and Flight 2. This work builds upon our recent progress in a) modulating lignin contents and vascular apparatus performance, via manipulating the arogenate dehydratase (ADT) multi-gene family, and b) enhancing carbon concentrating mechanisms (CCMs) to improve photosynthetic carbon assimilation and water use efficiency (WUE), alone and/or in combination with altered lignin levels. The knowledge gained will be essential for optimizing plants for spaceflight exploration and utilization (such as on Moon or Mars bases), as well as gaining new insights and knowledge into the various network interdependencies including, for example, photo-/gravi-tropisms, lignification, and WUE. Samples are extracts from a modified Folch extraction. This is the lipidomics analysis of the chloroform (non-polar) fraction.
DOI: 10.5517/ccdc.csd.cc2dzfjc
title: CCDC 2233783: Experimental Crystal Structure Determination

description: Related Article: Ziqiang Zhang, Kuo Lv, Cheng Liu, Yuan Yue, Xiqiao Yang, Liuyang Jin, Huan Xiao, Chu Yao, Jingbo Sun, Ran Lu|2023|Dyes Pigm.|213|111160|doi:10.1016/j.dyepig.2023.111160
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2dzflf
title: CCDC 2233785: Experimental Crystal Structure Determination

description: Related Article: Ziqiang Zhang, Kuo Lv, Cheng Liu, Yuan Yue, Xiqiao Yang, Liuyang Jin, Huan Xiao, Chu Yao, Jingbo Sun, Ran Lu|2023|Dyes Pigm.|213|111160|doi:10.1016/j.dyepig.2023.111160
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2dzfmg
title: CCDC 2233786: Experimental Crystal Structure Determination

description: Related Article: Ziqiang Zhang, Kuo Lv, Cheng Liu, Yuan Yue, Xiqiao Yang, Liuyang Jin, Huan Xiao, Chu Yao, Jingbo Sun, Ran Lu|2023|Dyes Pigm.|213|111160|doi:10.1016/j.dyepig.2023.111160
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2dzfnh
title: CCDC 2233787: Experimental Crystal Structure Determination

description: Related Article: Ziqiang Zhang, Kuo Lv, Cheng Liu, Yuan Yue, Xiqiao Yang, Liuyang Jin, Huan Xiao, Chu Yao, Jingbo Sun, Ran Lu|2023|Dyes Pigm.|213|111160|doi:10.1016/j.dyepig.2023.111160
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6084/m9.figshare.22237516
title: Marital quality improves psychopathy (JOPY-22-0324)

description: The supplemental materials
DOI: 10.6084/m9.figshare.21778523
title: Water isotopes and DOM composition.xlsx

description: Water isotopes and DOM composition
DOI: 10.6084/m9.figshare.21778523.v1
title: Water isotopes and DOM composition.xlsx

description: Water isotopes and DOM composition
DOI: 10.5281/zenodo.7680295
title: Rapid evolutionary tradeoffs between resistance to herbivory and tolerance to abiotic stress in an invasive plant

description: The datatset was collected from field survey, common garden experiments and lab experiments. All data analyses were performed in R 4.1.3 (R Development Core Team 2021) and SPSS 20.0 (IBM SPSS, Somers, NY, USA). The effects of re-association history (infested vs. uninfested; 0-, 9-, 13-, 17-year-reassociation) on insect bioassays (i.e., development time, weight, pepsin and trypsin enzyme activity of <em>O. communa</em>), plant assays including biomass ratio, MDA change rate and antioxidant capacity (DPPH and ABTS), and leaf chemical assays (concentrations of tannin, lignin, CGA, two individual flavonol derivates, nitrogen and carbon) were estimated using general linear mixed models (LMMs) in R, with reassociation history as a fixed factor and population (nested within reassociation history) as a random factor. For all these data, we also separately assessed correlations with the duration of re-association with the specialist natural enemy (the number of re-association years, i.e., 0, 9, 13, 17) at the individual level using Spearman correlation assays in SPSS 20.0. To analyze the correlation between insect traits (i.e., development time, weight, pepsin and trypsin enzyme activity of <em>O. communa</em>) and leaf defensive chemicals (i.e., tannin and lignin), we calculated the mean value of each index at the population level for each of the four re-association durations and used Pearson correlation assays in SPSS 20.0. The same procedure was followed for analyzing the correlation between drought stress tolerance and concentrations of leaf antioxidant chemicals. In addition, for the widely targeted metabolic data, principal component analysis (PCA) was performed using R to visualize the sample distributions.
DOI: 10.5281/zenodo.7680296
title: Rapid evolutionary tradeoffs between resistance to herbivory and tolerance to abiotic stress in an invasive plant

description: The datatset was collected from field survey, common garden experiments and lab experiments. All data analyses were performed in R 4.1.1 (R Development Core Team 2021) and SPSS 20.0 (IBM SPSS, Somers, NY, USA). The effects of re-association history (infested vs. uninfested; 0-, 9-, 13-, 17-year-reassociation) on insect bioassays (i.e., development time, weight, pepsin and trypsin enzyme activity of <em>O. communa</em>), plant assays including biomass ratio, MDA change rate and antioxidant capacity (DPPH and ABTS), and leaf chemical assays (concentrations of tannin, lignin, CGA, two individual flavonol derivates, nitrogen and carbon) were estimated using general linear mixed models (LMMs) in R, with reassociation history as a fixed factor and population (nested within reassociation history) as a random factor. For all these data, we also separately assessed correlations with the duration of re-association with the specialist natural enemy (the number of re-association years, i.e., 0, 9, 13, 17) at the individual level using Spearman correlation assays in SPSS 20.0. To analyze the correlation between insect traits (i.e., development time, weight, pepsin and trypsin enzyme activity of <em>O. communa</em>) and leaf defensive chemicals (i.e., tannin and lignin), we calculated the mean value of each index at the population level for each of the four re-association durations and used Pearson correlation assays in SPSS 20.0. The same procedure was followed for analyzing the correlation between drought stress tolerance and concentrations of leaf antioxidant chemicals. In addition, for the widely targeted metabolic data, principal component analysis (PCA) was performed using R to visualize the sample distributions.
DOI: 10.5281/zenodo.7709979
title: Rapid evolutionary tradeoffs between resistance to herbivory and tolerance to abiotic stress in an invasive plant

description: The datatset was collected from field survey, common garden experiments and lab experiments. All data analyses were performed in R 4.1.3 (R Development Core Team 2021) and SPSS 20.0 (IBM SPSS, Somers, NY, USA). The effects of re-association history (infested vs. uninfested; 0-, 9-, 13-, 17-year-reassociation) on insect bioassays (i.e., development time, weight, pepsin and trypsin enzyme activity of <em>O. communa</em>), plant assays including biomass ratio, MDA change rate and antioxidant capacity (DPPH and ABTS), and leaf chemical assays (concentrations of tannin, lignin, CGA, two individual flavonol derivates, nitrogen and carbon) were estimated using general linear mixed models (LMMs) in R, with reassociation history as a fixed factor and population (nested within reassociation history) as a random factor. For all these data, we also separately assessed correlations with the duration of re-association with the specialist natural enemy (the number of re-association years, i.e., 0, 9, 13, 17) at the individual level using Spearman correlation assays in SPSS 20.0. To analyze the correlation between insect traits (i.e., development time, weight, pepsin and trypsin enzyme activity of <em>O. communa</em>) and leaf defensive chemicals (i.e., tannin and lignin), we calculated the mean value of each index at the population level for each of the four re-association durations and used Pearson correlation assays in SPSS 20.0. The same procedure was followed for analyzing the correlation between drought stress tolerance and concentrations of leaf antioxidant chemicals. In addition, for the widely targeted metabolic data, principal component analysis (PCA) was performed using R to visualize the sample distributions.
DOI: 10.34944/dspace/8367
title: Nurse Stigma with Opioid Addicted Patients Integrative Review Search Strategy

description: To identify studies to include or consider for this integrative review, the review team worked with a medical librarian (TN) to develop detailed search strategies for each database. The PRISMA-S extension was followed for search reporting. The medical librarian (TN) developed the search for PubMed (NLM) and translated the search for every database searched. The PubMed (NLM) search strategy was reviewed by the research team to check for accuracy and term relevancy, and all final searches were peer-reviewed by another medical librarian. The databases included in this search are PubMed (NLM), CINAHL (EbscoHost), PsycInfo (EbscoHost), Embase (Elsevier), and Web of Science (Clarivate Analytics) using a combination of keywords and subject headings. A grey literature search included TRIP Pro medical database (tripdatabase.com) website, Substance Abuse and Mental Health Services Administration (samhsa.gov), National Academy of Medicine, and ProQuest Dissertations and Theses. There were no limits to the search. All final searches were performed on January 17, 2023 by the librarian and were fully reported (TN). The full search strategies as reported by the librarian are provided in Appendix(___). A summary of the search results from databases: PubMed (NLM) from inception to 01/17/2023 (1,118 Results), CINAHL (EbscoHost) from inception to 01/17/2023 (3,662 Results), PsycInfo (EbscoHost) from inception to 01/17/2023 (103 Results), Embase (Elsevier) from inception to 01/17/2023 (2,119 Results), Web of Science (Clarivate Analytics) from inception to 01/17/2023 (156 Results). The search resulted in 7,421 studies and 1,710 duplicate studies were found and omitted by the librarian (TN) using the EndNote 20 duplicate identification strategy. This resulted in 5,702 records to screen from databases or registers and 221 records to screen from other methods, resulting in a total of 5,923 records. Studies were screened by title and abstract by two blinded and independent reviewers. If a tiebreaker was needed, a third reviewer was called in. This process was repeated for full text article screening and article selection.
DOI: 10.25345/c5pv6bh5w
title: MassIVE MSV000091446 - Advancing FFPE proteomics with a spectral library-free method
title: Formalin-fixed paraffin-embedded (FFPE) samples are valuable archived bio-specimens of individuals and are commonly used in biomedical research. In this study, we present a rapid, highly sensitive, and reproducible protocol for deep proteomic profiling of FFPE specimens using a spectral library-free approach. This method is applicable for high-throughput proteomic profiling and can be used on various types of specimens. Gene ontology (GO) and functional analysis specifically enriched pathways associated with brain and breast cancer, demonstrating the sensitivity and specificity of the protocol.
DOI: 10.5281/zenodo.7709817
title: Supplementary Tables and Datasets for publication: Spatial and finely tuned temporal metagenomics of river compartments reveals viral community dynamics in an urban stream

description: This is a data dump of the tables, genomes, and .faa files that were too large to submit as part of the publication titled: Spatial and finely tuned temporal metagenomics of river compartments reveals viral community dynamics in an urban stream Files here include: -Fasta file containing 1230 vMAGs. -Zip file containing individual fasta files for 125 MAGs -Annotations output for DRAM and DRAM-v for all MAGs and vMAGs -.faa proteins file for the full Freshwater / Wastewater / TARA Oceans dataset that was used for vContact2 biogeography analyses
DOI: 10.5281/zenodo.7709816
title: Supplementary Tables and Datasets for publication: Spatial and finely tuned temporal metagenomics of river compartments reveals viral community dynamics in an urban stream

description: This is a data dump of the tables, genomes, and .faa files that were too large to submit as part of the publication titled: Spatial and finely tuned temporal metagenomics of river compartments reveals viral community dynamics in an urban stream Files here include: -Fasta file containing 1230 vMAGs. -Zip file containing individual fasta files for 125 MAGs -Annotations output for DRAM and DRAM-v for all MAGs and vMAGs -.faa proteins file for the full Freshwater / Wastewater / TARA Oceans dataset that was used for vContact2 biogeography analyses
DOI: 10.6084/m9.figshare.22237327
title: Data & code underlying the publication: Self-organized mud cracking amplifies the resilience of an iconic ‘Red Beach’ salt marsh

description: Data & code underlying the publication: "Self-organized mud cracking amplifies the resilience of an iconic ‘Red Beach’ salt marsh" by Kang Zhang#, Jiaguo Yan#, Qiang He, Chi Xu*, Johan van de Koppel, Bo Wang, Baoshan Cui*, and Quan-Xing Liu, Science Advances, 2023. The name of the folds correspond to figures in main text; The codes include the R, Matlab and Python. Moves S1-S3 are also included within this repository. Movies can directly produce by Jupyter Notebook code. <br> <br> <br>
DOI: 10.5519/qd.kwuzv0gu
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.25582/data.2022-03.2450758/1933021
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450880/1933029
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451409/1933057
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450925/1933083
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451109/1933832
title: Data for EMSL Project 51605 from March 2022
DOI: 10.25582/data.2022-03.2451449/1933975
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450985/1934004
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451420/1934029
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450629/1934059
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451149/1934064
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451410/1934076
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451418/1934101
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451189/1934114
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451412/1934121
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451427/1934124
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451120/1934140
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451411/1934178
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451206/1934217
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451478/1934219
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451087/1934222
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451408/1934321
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451469/1935240
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451116/1935247
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451077/1935261
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450926/1935262
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450810/1935277
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451463/1935313
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451187/1935315
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451207/1935376
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451005/1935382
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451114/1935387
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451138/1935388
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450869/1935389
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451448/1935394
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450913/1935409
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450618/1935417
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450698/1935426
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451126/1935428
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450850/1935434
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450865/1935529
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451191/1935555
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451175/1935577
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450777/1935611
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450867/1936063
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451008/1936080
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451020/1936158
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450611/1936181
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451043/1936251
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450935/1936302
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450859/1936330
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450910/1936394
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450890/1936397
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450795/1936407
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451479/1936411
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451485/1936429
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2450839/1937205
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451401/1937216
title: Data for EMSL Project 51132 from March 2022
DOI: 10.25582/data.2022-03.2451163/1937230
title: Data for EMSL Project 51132 from March 2022