cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19100092.v1
title: Sequential learning of regression models by penalized estimation

description: When data arrive in a sequence of two or more data sets, modeling on the most recent data set should take previous data sets into account. We specifically investigate a strategy for regression modeling when parameter estimates from previous data can be used as anchoring points, yet may not be available for all parameters, thus covariance information cannot be reused. A procedure that updates through targeted penalized estimation, which shrinks the estimator towards a nonzero value, is presented. The parameter estimate from the previous data serves as this nonzero value when an update is sought from novel data. This naturally extends to a sequence of data sets with the same response, but potentially only partial overlap in covariates. The iteratively updated regression parameter estimator is shown to be asymptotically unbiased and consistent. The penalty parameter is chosen through constrained cross-validated loglikelihood optimization. The constraint bounds the amount of shrinkage of the updated estimator toward the current one from below. The bound aims to preserve the (updated) estimator’s goodness-of-fit on all-but-the-novel data. The proposed approach is compared to other regression modeling procedures. Finally, it is illustrated on an epidemiological study where the data arrive in batches with different covariate-availability and the model is re-fitted with the availability of a novel batch.
DOI: 10.34740/kaggle/dsv/5264510
title: Balochi Language to English Translation Dataset
DOI: 10.5281/zenodo.7782668
title: Gradients 3 KM1906 Organic and Inorganic Nutrients

description: "This dataset is from the Gradients 3 cruise (KM1906) conducted April 10- April 29, 2019 in the North Pacific Ocean. CTD/rosette profiles were taken down to 1000 meters and samples were collected from niskin bottles attached to the CTD." "All organic and inorganic nutrients are analyzed in unfiltered seawater that was sampled aboard into HDPE or polypropylene bottles and immediately frozen. Silicate, phosphate and nitrate+nitrite are determined colormetrically on a SEAL Analytical Autoanalyzer (AA3 with HR detectors), with the exception of nitrate+nitrite that is &lt;0.5umol/L, which is analyzed by chemiluminescence. Total phosphorus (TP) and total nitrogen (TN) are determined by analysis of phosphate and nitrate, respectively, after oxidation by high-intensity ultraviolet light. Total organic phosphorus and total organic nitrogen are determined by subtracting background PO4 and NO3+NO2 from TP and TN, respectively. Total organic carbon is determined by combustion on a Shimadzu TOC-V analyzer." This description was reproduced using the following sources: https://simonscmap.com/catalog/datasets/KM1906_Gradients3 https://simonscmap.com/catalog/datasets/MGL1704_Gradients2_Nutrients
DOI: 10.5281/zenodo.7782667
title: Gradients 3 KM1906 Organic and Inorganic Nutrients

description: "This dataset is from the Gradients 3 cruise (KM1906) conducted April 10- April 29, 2019 in the North Pacific Ocean. CTD/rosette profiles were taken down to 1000 meters and samples were collected from niskin bottles attached to the CTD." "All organic and inorganic nutrients are analyzed in unfiltered seawater that was sampled aboard into HDPE or polypropylene bottles and immediately frozen. Silicate, phosphate and nitrate+nitrite are determined colormetrically on a SEAL Analytical Autoanalyzer (AA3 with HR detectors), with the exception of nitrate+nitrite that is &lt;0.5umol/L, which is analyzed by chemiluminescence. Total phosphorus (TP) and total nitrogen (TN) are determined by analysis of phosphate and nitrate, respectively, after oxidation by high-intensity ultraviolet light. Total organic phosphorus and total organic nitrogen are determined by subtracting background PO4 and NO3+NO2 from TP and TN, respectively. Total organic carbon is determined by combustion on a Shimadzu TOC-V analyzer." This description was reproduced using the following sources: https://simonscmap.com/catalog/datasets/KM1906_Gradients3 https://simonscmap.com/catalog/datasets/MGL1704_Gradients2_Nutrients
DOI: 10.5066/p9yu7op2
title: Sage-grouse Conservation Assessment Boundary

description: Boundary of the conservation assessment of Greater Sage-grouse and sagebrush habitat conducted by the Western Association of Fish and Wildlife Agencies. The boundary is derived from the pre-settlement distribution of the Sage-grouse.
DOI: 10.5281/zenodo.7782999
title: Female genital lichen sclerosus is connected with a higher depression rate, decreased sexual quality of life and diminished work productivity.

description: Data from the survey including: Work Productivity and Activity Impairment: General Health (WPAI:GH), Patient Health Questionnaire-9 (PHQ-9), The Sexual Quality of Life-Female (SQOL-F) questionnaires collected between January and December 2021 from the study and the control group. Fifty-one adult female patients with genital LS, filled out an online questionnaire and were enrolled in the study group. The corresponding control group consisted of 45 healthy women with a similar demographic status.
description: This research was funded by the research projects of Medical University of Lodz: No 503/1-152-01/503-11-002.
DOI: 10.5281/zenodo.7782998
title: Female genital lichen sclerosus is connected with a higher depression rate, decreased sexual quality of life and diminished work productivity.

description: Data from the survey including: Work Productivity and Activity Impairment: General Health (WPAI:GH), Patient Health Questionnaire-9 (PHQ-9), The Sexual Quality of Life-Female (SQOL-F) questionnaires collected between January and December 2021 from the study and the control group. Fifty-one adult female patients with genital LS, filled out an online questionnaire and were enrolled in the study group. The corresponding control group consisted of 45 healthy women with a similar demographic status.
description: This research was funded by the research projects of Medical University of Lodz: No 503/1-152-01/503-11-002.
DOI: 10.6084/m9.figshare.22354666
title: Supplementary Data: Retention time and fragmentation predictors increase confidence in variant peptide identification

description: Supplementary data related to the paper "Retention time and fragmentation predictors increase confidence in variant peptide identification" <br> The database directory contains the FASTA files of the four protein sequence databases used in the analysis of the paper. <br> The data directory contains exports with lists of all peptide-to-spectrum matches obtained from the analysis. <br> More information and scripts to reproduce the post-processing steps are available at: https://github.com/ProGenNo/VariantPeptideIdentification
DOI: 10.7281/t1sf2t31/6xksms
title: LSOCA_Forms.zip

description: PDF forms associated with SAS datasets in LSOCA_OCT2015_PUBLIC.zip.
DOI: 10.7281/t1sf2t31/knvvfw
title: LSOCA_OCT2015_PUBLIC.zip

description: Each SAS dataset relates to the cumulative patient-visits from a particular form. For example, va.sas7bdat is the SAS dataset for the visual acuity data. Use the appropriate LSOCA form and SAS labels from the SAS PROC CONTENTS to decode each data item.
DOI: 10.6084/m9.figshare.22353091
title: SRR3414629.uniq.sorted.bam

description: data for my hometask
DOI: 10.6084/m9.figshare.22353091.v2
title: SRR3414629.uniq.sorted.bam

description: data for my hometask
DOI: 10.6084/m9.figshare.22353091.v1
title: SRR3414629.uniq.sorted.bam

description: data for my hometask
DOI: 10.6084/m9.figshare.22357267
title: EMSA_pyrin and NACHT probes_Raw band intensity data

description: EMSA
DOI: 10.6084/m9.figshare.22357267.v1
title: EMSA_pyrin and NACHT probes_Raw band intensity data

description: EMSA
DOI: 10.5281/zenodo.7782254
title: Th:LiCAF DFT Relaxations

description: This dataset was generated with VASP and contains OUTCAR files for 1625 relaxations. The paper for this work was published in Adv. Theory Simul. (2022). Relaxations in the folder "not_converged" did not reach the convergence criterion for ionic forces. Not all relaxations were generated with the same INCAR file, but all differences should be irrelevant for the simulation outcome. Specifically, the number of cores which work on an individual orbital (NCORE) and the total number of (empty) bands (NBANDS) are not equal in all relaxations.
description: Should you have any questions or comments please to send an email to martin.pimon@tuwien.ac.at
description: {"references": ["Pimon, Martin et al. (2022), DOI: 10.1002/adts.202200185"]}
DOI: 10.5281/zenodo.7782253
title: Th:LiCAF DFT Relaxations

description: This dataset was generated with VASP and contains OUTCAR files for 1625 relaxations. The paper for this work was published in Adv. Theory Simul. (2022). Relaxations in the folder "not_converged" did not reach the convergence criterion for ionic forces. Not all relaxations were generated with the same INCAR file, but all differences should be irrelevant for the simulation outcome. Specifically, the number of cores which work on an individual orbital (NCORE) and the total number of (empty) bands (NBANDS) are not equal in all relaxations.
description: Should you have any questions or comments please to send an email to martin.pimon@tuwien.ac.at
description: {"references": ["Pimon, Martin et al. (2022), DOI: 10.1002/adts.202200185"]}
DOI: 10.5517/ccdc.csd.cc2dnm1r
title: CCDC 2224344: Experimental Crystal Structure Determination

description: Related Article: Madeleine Geers, Jie Yie Lee, Sanliang Ling, Oscar Fabelo, Laura Cañadillas-Delgado, Matthew J. Cliffe|2023|Chemical Science|14|3531|doi:10.1039/D2SC06861C
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.cc2dn9x9
title: CCDC 2224061: Experimental Crystal Structure Determination

description: Related Article: Madeleine Geers, Jie Yie Lee, Sanliang Ling, Oscar Fabelo, Laura Cañadillas-Delgado, Matthew J. Cliffe|2023|Chemical Science|14|3531|doi:10.1039/D2SC06861C
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.cc2dnbr5
title: CCDC 2224087: Experimental Crystal Structure Determination

description: Related Article: Madeleine Geers, Jie Yie Lee, Sanliang Ling, Oscar Fabelo, Laura Cañadillas-Delgado, Matthew J. Cliffe|2023|Chemical Science|14|3531|doi:10.1039/D2SC06861C
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.cc2dn9cr
title: CCDC 2224044: Experimental Crystal Structure Determination

description: Related Article: Madeleine Geers, Jie Yie Lee, Sanliang Ling, Oscar Fabelo, Laura Cañadillas-Delgado, Matthew J. Cliffe|2023|Chemical Science|14|3531|doi:10.1039/D2SC06861C
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.cc2dn9zc
title: CCDC 2224063: Experimental Crystal Structure Determination

description: Related Article: Madeleine Geers, Jie Yie Lee, Sanliang Ling, Oscar Fabelo, Laura Cañadillas-Delgado, Matthew J. Cliffe|2023|Chemical Science|14|3531|doi:10.1039/D2SC06861C
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: 10.7281/t17p8w98/ejztpu
title: 6_SEM_to_characterize_cell_extensions.zip

description: SEM images (BMP) Micropillar substrates cell extensions were characterized using scanning electron microscopy. Filenames: Laura_01_[diameter spacing].
DOI: 10.7281/t17p8w98/gbrwc5
title: 1_Positive_PDMS_substrates.zip

description: ESEM images (TIFF format) from fabrication of substrate micropillars, producing PDMS “positive” micropillar substrate. (“negative” template molds not included) Images named sequentially, by order taken (no significance to numbers) Successful & Unsuccessful, paper documents why they were unsuccessful.  Instrument settings metadata on image, not properties. (Scale, kilovolts, others) Shows different fields of view and areas, of those fitting optimal sizes.
DOI: 10.7281/t17p8w98/hztc2v
title: CollectionOverview Dickinson_2012 micropillar substrates.rtf

description: Tables in this document provide an overview of the data types and files produced by the figures in the publish paper, which generally correspond to the stages of research and methods used for this publication, as reflected in the organization the data collection included in the JHU Data Archive. A second table summarizes the archive contents by the article's methods sections and corresponding research data products.
DOI: 10.7281/t17p8w98/w7karl
title: 5_HUVECS_on_stiff_patterned_micropillars.zip

description: Fluorescence imaging (JPG) Human HUVECs cultured, cultures seeded to micropillar substrate. Files named by cell type – pillar height- study.  Includes .lsm image stacks in “5 day CNBH”.
DOI: 10.7281/t17p8w98/7hpqhk
title: 4_ECFC&Huvec_Spreading_nonpatterned_Fig2.zip

description: Fluorescence imaging (JPG) HUVEC and ECFC adhesion onto Fn-coated micropillar SiO2 substrates. Analyzed spreading of both cell types. Files named by type and size.
DOI: 10.7281/t17p8w98/9fttlk
title: 3_LiveDead_Fluorescent_Images.zip

description: LSM images (JPG) Viability and immunofluorescent live/dead staining of human ECFCs & HUVECs, cultured 1-2 days for immunoflorescence. Folder contains analysis tables and images by type and size (micrometer).
DOI: 10.7281/t17p8w98/wiyl0i
title: 2_Fn_patterning_on_micropillar_substrates.zip

description: LSM images (JPG) Fn pattering on SiO2 micropillar substrates. Proof of concept on how patterning occurs on different size and height regions. Size (micrometer), separation for filenames. Folder: 1um, 3um, 6um, 8um, 10,10; 10,20  “size,separation” (placement on chip).
DOI: 10.5683/sp3/9rjbpg
title: Censuses of Canada, 1665-1871, Atlantic Canada - Acadia

description: Censuses of Canada contain 343 tables on the social and economic conditions in Canada from the earliest settlements to 1871.
DOI: 10.5281/zenodo.7779818
title: 101-nights -sleep and dream study night 006

description: The research project presented aims at putting the personal perception of Nathalie’s dreams through an objective, quantitative analysis using electroencephalography (EEG), in an attempt to establish a linkage between the two dimensions. During sleep periods, brain activity is similar to that of an awakened state, yet the thalamus, a phylogenetically ancient structure in the nervous system, isolates us from the environment. But this isolation is not total, and sometimes external stimuli are incorporated into the plot of our dreams. To establish a bridge between the record (EEG) and Nathalie’s dream narrative, we experiment with auditory stimuli as a possible mechanism of interference. The 101 nights is a longitudinal dataset. At the core of the study is the concordance of two divergent fields of knowledge to record and represent the dream experience. For 101 nights physiological and behavioral data are continuously paired with the dreamer’s inner life, geared towards a dialogue. A unique dataset for scientific analyses, methodological developments as well artistic projects, including cognitive science and multiple modalities of art. The unprecedented project allows an internal and external perspective on Nathalie’s dreams, containing extensive data for 101 consecutive nights and days. the project produced four immediate results: 1. 952 GB of brain data was produced by the registry of 256 sensors over the period of 101 nights in continuity, including her body movement (actimetry and infrared camera).<br> 2. the logs of the words triggered by the computer system, each night with their exact time.<br> 3. Nathalie’s daily dream diary entries.<br> 4. day-by-day activity.
description: dreamsessions.org would like to acknowledge: the acquisition of 101-nights was possible with the in-kind support of EGI, a division of Philips Healthcare, a medical device company, and a key component of the dense array EEG method based in Eugene, Oregon, U.S.A. the project 101 nights, was launched on September 1st, 2017, in Eugene, OR, USA
DOI: 10.5281/zenodo.7779817
title: 101-nights -sleep and dream study night 006

description: The research project presented aims at putting the personal perception of Nathalie’s dreams through an objective, quantitative analysis using electroencephalography (EEG), in an attempt to establish a linkage between the two dimensions. During sleep periods, brain activity is similar to that of an awakened state, yet the thalamus, a phylogenetically ancient structure in the nervous system, isolates us from the environment. But this isolation is not total, and sometimes external stimuli are incorporated into the plot of our dreams. To establish a bridge between the record (EEG) and Nathalie’s dream narrative, we experiment with auditory stimuli as a possible mechanism of interference. The 101 nights is a longitudinal dataset. At the core of the study is the concordance of two divergent fields of knowledge to record and represent the dream experience. For 101 nights physiological and behavioral data are continuously paired with the dreamer’s inner life, geared towards a dialogue. A unique dataset for scientific analyses, methodological developments as well artistic projects, including cognitive science and multiple modalities of art. The unprecedented project allows an internal and external perspective on Nathalie’s dreams, containing extensive data for 101 consecutive nights and days. the project produced four immediate results: 1. 952 GB of brain data was produced by the registry of 256 sensors over the period of 101 nights in continuity, including her body movement (actimetry and infrared camera).<br> 2. the logs of the words triggered by the computer system, each night with their exact time.<br> 3. Nathalie’s daily dream diary entries.<br> 4. day-by-day activity.
description: dreamsessions.org would like to acknowledge: the acquisition of 101-nights was possible with the in-kind support of EGI, a division of Philips Healthcare, a medical device company, and a key component of the dense array EEG method based in Eugene, Oregon, U.S.A. the project 101 nights, was launched on September 1st, 2017, in Eugene, OR, USA
DOI: 10.5281/zenodo.7783070
title: 101-nights -sleep and dream study night 006

description: The research project presented aims at putting the personal perception of Nathalie’s dreams through an objective, quantitative analysis using electroencephalography (EEG), in an attempt to establish a linkage between the two dimensions. During sleep periods, brain activity is similar to that of an awakened state, yet the thalamus, a phylogenetically ancient structure in the nervous system, isolates us from the environment. But this isolation is not total, and sometimes external stimuli are incorporated into the plot of our dreams. To establish a bridge between the record (EEG) and Nathalie’s dream narrative, we experiment with auditory stimuli as a possible mechanism of interference. The 101 nights is a longitudinal dataset. At the core of the study is the concordance of two divergent fields of knowledge to record and represent the dream experience. For 101 nights physiological and behavioral data are continuously paired with the dreamer’s inner life, geared towards a dialogue. A unique dataset for scientific analyses, methodological developments as well artistic projects, including cognitive science and multiple modalities of art. The unprecedented project allows an internal and external perspective on Nathalie’s dreams, containing extensive data for 101 consecutive nights and days. the project produced four immediate results: 1. 952 GB of brain data was produced by the registry of 256 sensors over the period of 101 nights in continuity, including her body movement (actimetry and infrared camera).<br> 2. the logs of the words triggered by the computer system, each night with their exact time.<br> 3. Nathalie’s daily dream diary entries.<br> 4. day-by-day activity.
description: dreamsessions.org would like to acknowledge: the acquisition of 101-nights was possible with the in-kind support of EGI, a division of Philips Healthcare, a medical device company, and a key component of the dense array EEG method based in Eugene, Oregon, U.S.A. the project 101 nights, was launched on September 1st, 2017, in Eugene, OR, USA
DOI: 10.5281/zenodo.7779459
title: Processed data to regenerate figures in Noecker et al, "Systems biology elucidates the distinctive metabolic niche filled by the human gut microbe Eggerthella lenta"

description: This archive contains the processed source data for the publication by Noecker et al, "Systems biology elucidates the distinctive metabolic niche filled by the human gut microbe <em>Eggerthella lenta</em>" (2023, in review). Data tables underlying each figure panel are included, except for the following panels: Figure S1A: Source data is in Table S1 of the publication Figure 6D: Source data can be found at NCBI GEO accession GSE212420 (supplementary counts data matrix) Raw metabolomics data can also be found at Metabolomics Workbench accession PR001620. Methods used to summarize these data and generate the figures are described in the manuscript Materials and Methods and figure captions. Code to generate all figures is also available at www.github.com/turnbaughlab/2022_Noecker_ElentaMetabolism and 10.5281/zenodo.7779454.
DOI: 10.5281/zenodo.7779458
title: Processed data to regenerate figures in Noecker et al, "Systems biology elucidates the distinctive metabolic niche filled by the human gut microbe Eggerthella lenta"

description: This archive contains the processed source data for the publication by Noecker et al, "Systems biology elucidates the distinctive metabolic niche filled by the human gut microbe <em>Eggerthella lenta</em>" (2023, in review). Data tables underlying each figure panel are included, except for the following panels: Figure S1A: Source data is in Table S1 of the publication Figure 6D: Source data can be found at NCBI GEO accession GSE212420 (supplementary counts data matrix) Raw metabolomics data can also be found at Metabolomics Workbench accession PR001620. Methods used to summarize these data and generate the figures are described in the manuscript Materials and Methods and figure captions. Code to generate all figures is also available at www.github.com/turnbaughlab/2022_Noecker_ElentaMetabolism and 10.5281/zenodo.7779454.