cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25345/c5g44hq9q
title: MassIVE Reanalysis RMSV000000354.2414 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, BCKDHB [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5bc3sx43
title: MassIVE Reanalysis RMSV000000354.2415 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, PPP1R15A [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c56m3340r
title: MassIVE MSV000088875 - Novel fibrillization of TMEM106B across diverse neurodegenerative diseases
title: Misfolding and aggregation of disease-specific proteins, resulting in the formation of filamentous cellular inclusions, is a hallmark of neurodegenerative disease with characteristic filament structures, or conformers, defining each proteinopathy. Here we show that a previously unsolved amyloid fibril comprised of a 135 amino acid C-terminal fragment of TMEM106B is a common finding in distinct human neurodegenerative diseases, including cases characterized by abnormal aggregation of TDP-43, tau, or a-synuclein protein. A combination of cryo-electron microscopy and mass spectrometry was used to solve the structures of TMEM106B fibrils at a resolution of 2.7 A from postmortem human brain tissue afflicted with frontotemporal lobar degeneration with TDP-43 pathology (FTLD-TDP, N=8), progressive supranuclear palsy (PSP, N=2), or dementia with Lewy bodies (DLB, N=1). The commonality of abundant amyloid fibrils composed of TMEM106B, a lysosomal/endosomal protein, to a broad range of debilitating human disorders indicates a novel fibrillization pathway that may initiate or accelerate neurodegeneration.
DOI: 10.25345/c52v2c960
title: MassIVE Reanalysis RMSV000000354.2411 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, GIT2 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5z31np2d
title: MassIVE Reanalysis RMSV000000354.2417 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, USP18 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5td9n80z
title: MassIVE Reanalysis RMSV000000354.2354 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, SNRPG [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5pn8xf7p
title: MassIVE Reanalysis RMSV000000354.2416 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, PRODH [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5jw86n3x
title: MassIVE Reanalysis RMSV000000354.2420 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, WDR6 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5f47gt80
title: MassIVE Reanalysis RMSV000000354.2419 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, CCR1 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c59c6s148
title: MassIVE Reanalysis RMSV000000354.2418 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, L3MBTL2 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c55m6270h
title: MassIVE Reanalysis RMSV000000354.2424 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, GPR3 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c51v5bd6r
title: MassIVE Reanalysis RMSV000000354.2423 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, UTP3 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5x63b55w
title: MassIVE Reanalysis RMSV000000354.2426 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, MDK [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5sf2mc1r
title: MassIVE Reanalysis RMSV000000354.2425 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, TSFM [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5np1wj6h
title: MassIVE Reanalysis RMSV000000354.2421 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, EDC3 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5hx15r18
title: MassIVE Reanalysis RMSV000000354.2422 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, ATP6V0E1 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.5281/zenodo.5907099
title: Data and code for project "What makes users click: the effect of news values negativity and surprise in news headlines on the CTR"

description: This repository includes the following files and corresponding Python codes saved in Jupiter Notebooks: <strong>upworthy-archive-confirmatory-packages-03.12.2020.csv:</strong> Original dataset downloaded from The Upworthy Research Archive (https://osf.io/jd64p/) <strong>cleaned_data.csv</strong>: <strong>upworthy-archive-confirmatory-packages-03.12.2020.csv</strong> cleaned with <strong>notebook_clean_data.ipynb</strong> Data sorted by <em>clickability_test_id</em> Headlines with 0 clicks deleted Variables <em>ctr</em>, <em>mean_ctr</em>, and <em>lift</em> created Variable <em>winner</em> converted to dummy variable Only kept first occurrence of headlines that occur multiple times in the dataset per test Deleted tests with only one headline <strong>sample_manual_annotations.csv</strong>: sample of 300 headlines of <strong>cleaned_data.csv </strong>retrieved with <strong>notebook_sample_manual_annotations.ipynb</strong> <strong>inter-annotator_sentiment.csv</strong>: input for <strong>notebook_inter-annotator_scores_confusion_matrix.ipynb</strong> to calculate inter-annotator agreement scores with regard to annotating sentiment <strong>inter-annotator_emotion.csv</strong>: input for <strong>notebook_inter-annotator_scores_confusion_matrix.ipynb</strong> to calculate inter-annotator agreement scores with regard to annotating emotion <strong>input_sentiment.tsv</strong>: input for <strong>notebook_sentiment_emotion_test_set.ipynb </strong>for sentiment analysis on sample of 300 headlines in <strong>sample_manual_annotations.csv</strong> <strong>input_emotion.tsv</strong>: input for <strong>notebook_sentiment_emotion_test_set.ipynb </strong>for emotion analysis on sample of 300 headlines in <strong>sample_manual_annotations.csv</strong> <strong>input_all_headlines.tsv</strong>: input for <strong>notebook_sentiment_emotion_final_annotation.ipynb</strong> to annotate all headlines in <strong>cleaned_data.csv</strong> <strong>final_dataset.csv</strong>: output from <strong>notebook_merge_dataframes.ipynb</strong> that merges all csv output files from <strong>notebook_sentiment_emotion_final_annotation.ipynb </strong>with <strong>cleaned_data.csv</strong> <strong>notebook_descriptive_statistics.ipynb</strong>: Python code to retrieve descriptive statistics of various variables in <strong>cleaned_data.csv</strong> <strong>NRC-Emotion-Lexicon-Wordlevel-v0.92.txt:</strong> NRC Emotion Lexicon used in <strong>notebook_sentiment_emotion_test_set.ipynb </strong>and<strong> notebook_sentiment_emotion_final_annotation.ipynb</strong>
DOI: 10.5281/zenodo.5896853
title: Data and code for project "What makes users click: the effect of news values negativity and surprise in news headlines on the CTR"

description: This repository includes the following files and corresponding Python codes saved in Jupiter Notebooks: <strong>upworthy-archive-confirmatory-packages-03.12.2020.csv:</strong> Original dataset downloaded from The Upworthy Research Archive (https://osf.io/jd64p/) <strong>cleaned_data.csv</strong>: <strong>upworthy-archive-confirmatory-packages-03.12.2020.csv</strong> cleaned with <strong>notebook_clean_data.ipynb</strong> Data sorted by <em>clickability_test_id</em> Headlines with 0 clicks deleted Variables <em>ctr</em>, <em>mean_ctr</em>, and <em>lift</em> created Variable <em>winner</em> converted to dummy variable Only kept first occurrence of headlines that occur multiple times in the dataset per test Deleted tests with only one headline <strong>sample_manual_annotations.csv</strong>: sample of 300 headlines of <strong>cleaned_data.csv </strong>retrieved with <strong>notebook_sample_manual_annotations.ipynb</strong> <strong>inter-annotator_sentiment.csv</strong>: input for <strong>notebook_inter-annotator_scores_confusion_matrix.ipynb</strong> to calculate inter-annotator agreement scores with regard to annotating sentiment <strong>inter-annotator_emotion.csv</strong>: input for <strong>notebook_inter-annotator_scores_confusion_matrix.ipynb</strong> to calculate inter-annotator agreement scores with regard to annotating emotion <strong>input_sentiment.tsv</strong>: input for <strong>notebook_sentiment_emotion_test_set.ipynb </strong>for sentiment analysis on sample of 300 headlines in <strong>sample_manual_annotations.csv</strong> <strong>input_emotion.tsv</strong>: input for <strong>notebook_sentiment_emotion_test_set.ipynb </strong>for emotion analysis on sample of 300 headlines in <strong>sample_manual_annotations.csv</strong> <strong>input_all_headlines.tsv</strong>: input for <strong>notebook_sentiment_emotion_final_annotation.ipynb</strong> to annotate all headlines in <strong>cleaned_data.csv</strong> <strong>final_dataset.csv</strong>: output from <strong>notebook_merge_dataframes.ipynb</strong> that merges all csv output files from <strong>notebook_sentiment_emotion_final_annotation.ipynb </strong>with <strong>cleaned_data.csv</strong> <strong>notebook_descriptive_statistics.ipynb</strong>: Python code to retrieve descriptive statistics of various variables in <strong>cleaned_data.csv</strong> <strong>NRC-Emotion-Lexicon-Wordlevel-v0.92.txt:</strong> NRC Emotion Lexicon used in <strong>notebook_sentiment_emotion_test_set.ipynb </strong>and<strong> notebook_sentiment_emotion_final_annotation.ipynb</strong>
DOI: 10.25345/c5d50fx7t
title: MassIVE Reanalysis RMSV000000354.2427 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, BEST1 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.6084/m9.figshare.17881073
title: Data and code to “Field experiments underestimate aboveground biomass response to drought”

description: File collection to the paper “Field experiments underestimate aboveground biomass response to drought” by Kröel-Dulay et al. Nature Ecology and Evolution (2022)This file collection contains the data files and computer codes (R scripts) that are needed to reproduce the analyses presented in the paper. Specifically, the collection contains the following files:Table_of_all_collected_data.xlsx file contains all data that we collected and used for our meta-analyses (Data sheet), and the explanation of the data (Data description sheet). Data_focal_N-weighted.csv file contains the data that were included in the focal meta-analysis weighted by replication (N) for grasslands with biomass data and site aridity index lower than 1 (focal data set). Data_focal_unweighted.csv file contains the data that were included in the unweighted meta-analysis for grasslands with biomass data and site aridity index lower than 1. Data_focal_variance-weighted.csv file contains the data that were included in the meta-analysis weighted by the inverse of the pooled variance for a subset of the focal data set where variance estimates were available. Data_additional_N-weighted.csv file contains the data that were left out from the focal data set (shrublands, grasslands with cover estimates and/or site aridity index exceeding 1), but were included in a separate N-weighted meta-analysis. R_scripts.docx file contains the R code for our each analysis.<br>
DOI: 10.25345/c58c9r43j
title: MassIVE Reanalysis RMSV000000354.2429 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, CYTIP [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c54m91b08
title: MassIVE Reanalysis RMSV000000354.2430 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, OLFM4 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c50z70x0x
title: MassIVE Reanalysis RMSV000000354.2428 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, TEX28 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.
DOI: 10.25345/c5w66985n
title: MassIVE Reanalysis RMSV000000354.2432 - CCMS MassIVE Knowledge Base (MassIVE-KB) MS-GF+ reanalysis of Bioplex AP-MS Dataset for Library Construction, ZNF18 [launched by fce971e5ede541cca3fc5307a73294d8]
title: Center for Computational Mass Spectrometry (CCMS) systematic reanalysis of public proteomics mass spectrometry (MS) datasets provides a public, large-scale and comparable set of dataset reanalyses results including detailed provenance records. To further facilitate the broad reusability of public proteomics MS data, these reanalyses were also used to build the MassIVE Knowledge Base (MassIVE-KB) spectral library, a community-wide resource derived from hundreds of millions of identified spectra from tens of terabytes of mass spectrometry data.