cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.17019839.v1
title: Repeat-masked genome

description: Repeat-masked genome assembly
DOI: 10.5281/zenodo.5717473
title: ARP-Issues-Dataset

description: ARP-Issues Dataset APMINER : a tool to analyze the Javadoc and annotation of the Android SDK to infer API-DP mappings. ARP-DP : API-Permission mapping on API levels 23-30. ARPBENCH : Benchmark for experimental. GitHub Issues StackOverflow Posts
DOI: 10.5281/zenodo.5717472
title: ARP-Issues-Dataset

description: ARP-Issues Dataset APMINER : a tool to analyze the Javadoc and annotation of the Android SDK to infer API-DP mappings. ARP-DP : API-Permission mapping on API levels 23-30. ARPBENCH : Benchmark for experimental. GitHub Issues StackOverflow Posts
DOI: 10.5281/zenodo.5717487
title: Code for "The significant role of post-pairing male behaviour on the evolution of male preferences and female traits"

description: This project page archives Mathematica code to replicate the analyses and figures of "The significant role of post-pairing male behaviour on the evolution of male preferences and female traits" by Nan Lyu, D. Justin Yeh, Huw Lloyd, and Yue-Hua Sun appearing in Communications Biology. All figures from the manuscript (and its supplement) can be obtained by running the code.
DOI: 10.5281/zenodo.5717486
title: Code for "The significant role of post-pairing male behaviour on the evolution of male preferences and female traits"

description: This project page archives Mathematica code to replicate the analyses and figures of "The significant role of post-pairing male behaviour on the evolution of male preferences and female traits" by Nan Lyu, D. Justin Yeh, Huw Lloyd, and Yue-Hua Sun appearing in Communications Biology. All figures from the manuscript (and its supplement) can be obtained by running the code.
DOI: 10.6084/m9.figshare.16782484
title: POWV tutorial materials

description: Tutorial materials for the assessment of temporal signal dynamics.
DOI: 10.6084/m9.figshare.16782484.v2
title: POWV tutorial materials

description: Tutorial materials for the assessment of temporal signal dynamics.
DOI: 10.6084/m9.figshare.17019845
title: Repeat annotation

description: Repeat annotation
DOI: 10.6084/m9.figshare.17019845.v2
title: Repeat annotation

description: Repeat annotation
DOI: 10.6084/m9.figshare.17019845.v1
title: Repeat annotation

description: Repeat annotation
DOI: 10.15468/mqesrc
title: Contribution to the knowledge of Chinese Gryllacrididae II: Study of the genus of Microlarnaca (Orthoptera:) with description one new species from Yunnan, China

description: This dataset contains the digitized treatments in Plazi based on the original journal article Lu, Xiangyi, Bin, Wei, Bian, Xun (2021): Contribution to the knowledge of Chinese Gryllacrididae II: Study of the genus of Microlarnaca (Orthoptera:) with description one new species from Yunnan, China. Zootaxa 5061 (2): 353-360, DOI: https://doi.org/10.11646/zootaxa.5061.2.7
DOI: 10.6084/m9.figshare.16987990
title: xml file for standard BEAST input

description: The xml file include 100 individuals, and the label match the Table S1 in supplementary.
DOI: 10.6084/m9.figshare.16987954
title: 907 SNP in structure format

description: The structure format include 907 SNP with population labels, the labels are corresponded to the supplementary with Table S1 in supplementary.
DOI: 10.6084/m9.figshare.17019848
title: Annotations of non-coding RNAs

description: Annotations of non-coding RNAs
DOI: 10.6084/m9.figshare.17019848.v2
title: Annotations of non-coding RNAs

description: Annotations of non-coding RNAs
DOI: 10.6084/m9.figshare.17019848.v1
title: Annotations of non-coding RNAs

description: Annotations of non-coding RNAs
DOI: 10.6084/m9.figshare.17058230
title: Housing production cost for Tijuana.xlsx

description: Construction cost for 89 housing prototypes built in the city of Tijuana, Mexico, from 2007 to 2017, classified by construction technology.
DOI: 10.6084/m9.figshare.17058230.v1
title: Housing production cost for Tijuana.xlsx

description: Construction cost for 89 housing prototypes built in the city of Tijuana, Mexico, from 2007 to 2017, classified by construction technology.
DOI: 10.6084/m9.figshare.16892686
title: Transcripts of MAKER-annotated protein-coding genes

description: Transcripts of MAKER-annotated protein-coding genes
DOI: 10.6084/m9.figshare.16892686.v1
title: Transcripts of MAKER-annotated protein-coding genes

description: Transcripts of MAKER-annotated protein-coding genes
DOI: 10.6084/m9.figshare.16892677
title: Repeat annotation

description: Repeat annotation
DOI: 10.6084/m9.figshare.16892677.v1
title: Repeat annotation

description: Repeat annotation
DOI: 10.6084/m9.figshare.16892671
title: Annotations of non-coding RNAs

description: Annotations of non-coding RNAs
DOI: 10.6084/m9.figshare.16892671.v1
title: Annotations of non-coding RNAs

description: Annotations of non-coding RNAs
DOI: 10.6084/m9.figshare.16892674
title: Amino-acid sequences of MAKER-annotated protein-coding genes

description: Amino-acid sequences of MAKER-annotated protein-coding genes
DOI: 10.6084/m9.figshare.16892674.v1
title: Amino-acid sequences of MAKER-annotated protein-coding genes

description: Amino-acid sequences of MAKER-annotated protein-coding genes
DOI: 10.6084/m9.figshare.16892668
title: InterProscan results

description: InterProscan results
DOI: 10.6084/m9.figshare.16892668.v1
title: InterProscan results

description: InterProscan results
DOI: 10.6084/m9.figshare.16866940.v1
title: eggNOG annotation results

description: eggNOG annotation results
DOI: 10.6084/m9.figshare.16866940
title: eggNOG annotation results

description: eggNOG annotation results
DOI: 10.6084/m9.figshare.17012945
title: velocitystructure.zip

description: Velocity structure (Beijing Tongzhou). (by Multi-mode Surface wave inversion)
DOI: 10.6084/m9.figshare.16866892
title: Coding sequences of MAKER-annotated protein-coding genes

description: Coding sequences of MAKER-annotated protein-coding genes
DOI: 10.6084/m9.figshare.16866892.v1
title: Coding sequences of MAKER-annotated protein-coding genes

description: Coding sequences of MAKER-annotated protein-coding genes
DOI: 10.6084/m9.figshare.16866949
title: Annotation file of MAKER-annotated protein-coding genes

description: Annotation file of MAKER-annotated protein-coding genes
DOI: 10.6084/m9.figshare.16866949.v1
title: Annotation file of MAKER-annotated protein-coding genes

description: Annotation file of MAKER-annotated protein-coding genes
DOI: 10.6084/m9.figshare.17058263
title: Supplementary date for "Coordinating urban power-traffic networks: a subsidy based nash-stackelberg-nash game model"

description: Refer to my paper Coordinating urban power-traffic networks: a subsidy based nash-stackelberg-nash game model if published online.
DOI: 10.5281/zenodo.5717485
title: Formatted TCGA clinical and RNA-Seq data for colon adenocarcinoma (COAD) and rectum adenocarcinoma (READ)

description: COAD/READ/COADREAD_rnaseq_fpkm.txt files contain TCGA RNA-Seq data in FPKM normalisation for colorectal adenocarcinoma (COAD), rectum adenocarcinoma (READ) or combined (COADREAD). COAD/READ/COADREAD_rnaseq_tpm.txt files contain TCGA RNA-Seq data in TPM normalisation for colorectal adenocarcinoma (COAD), rectum adenocarcinoma (READ) or combined (COADREAD). COAD/READ/COADREAD_clinical_raw.xlsx files contain TCGA clinical data for patients with colorectal adenocarcinoma (COAD), rectum adenocarcinoma (READ) or combined (COADREAD). COAD/READ/COADREAD_rnaseq_clinical_raw.xlsx files contain corresponding information of TCGA clinical data and RNA-Seq data for patients with colorectal adenocarcinoma (COAD), rectum adenocarcinoma (READ) or combined (COADREAD).
DOI: 10.5281/zenodo.5717484
title: Formatted TCGA clinical and RNA-Seq data for colon adenocarcinoma (COAD) and rectum adenocarcinoma (READ)

description: COAD/READ/COADREAD_rnaseq_fpkm.txt files contain TCGA RNA-Seq data in FPKM normalisation for colorectal adenocarcinoma (COAD), rectum adenocarcinoma (READ) or combined (COADREAD). COAD/READ/COADREAD_rnaseq_tpm.txt files contain TCGA RNA-Seq data in TPM normalisation for colorectal adenocarcinoma (COAD), rectum adenocarcinoma (READ) or combined (COADREAD). COAD/READ/COADREAD_clinical_raw.xlsx files contain TCGA clinical data for patients with colorectal adenocarcinoma (COAD), rectum adenocarcinoma (READ) or combined (COADREAD). COAD/READ/COADREAD_rnaseq_clinical_raw.xlsx files contain corresponding information of TCGA clinical data and RNA-Seq data for patients with colorectal adenocarcinoma (COAD), rectum adenocarcinoma (READ) or combined (COADREAD).
DOI: 10.6084/m9.figshare.16892689
title: genome.fa.masked.gz

description: Repeat-masked genome assembly
DOI: 10.6084/m9.figshare.16892689.v1
title: genome.fa.masked.gz

description: Repeat-masked genome assembly
DOI: 10.6084/m9.figshare.17056145
title: Contrasting Stratospheric Smoke Mass and Lifetime from 2017 Canadian and 2019/2020 Australian Megafires: Global Simulations and Satellite Observations

description: Stratospheric injections of carbonaceous aerosols and combustion gases by extreme wildfires have become increasingly common. Recent "megafires", particularly large and intense fires, delivered particulate burdens to the lower stratosphere comparable to those of moderate volcanic eruptions. The 2017 Canadian megafire generated four large Pyrocumulonimbi (pyroCbs), injecting up to approximately 0.3 Tg of smoke in the lower stratosphere. Even more extreme, the 2019/2020 Australian event produced a pyroCb activity resulting in stratospheric smoke intrusions of approximately 1 Tg. To understand their contrasting behavior, we present global climate simulations of the atmospheric response to these events, applying smoke burdens informed by remote observations. Model outcomes, compared to satellite data of smoke transport, reproduce reasonably well the initial plume rise, at 0.2-0.3 km/day, attaining heights of approximately 20 km in Canada and above 30 km in Australia. Global dispersal of the plume occurs within about three weeks in both cases, consistent with observations. Smoke removal timescales, approximately 5 months for the Canadian megafire, agree with remote measurements. During the Australian megafire, observations indicate stratospheric injections three times larger, and models predict comparatively longer smoke lifetimes, approximately 16 months. After the latter event, atmospheric optical depths and radiative cooling achieved values close to those measured following the Pinatubo eruption. Sensitivity tests of model assumptions indicate, in accord with prior studies, that smoke burden, injection heights, and black carbon content can determine plume evolution and possible climate impacts. An empirical relation between peak heights of stratospheric plumes and lifetimes is derived that can help assess megafire impacts on the stratosphere, climate and the Earth system.
DOI: 10.6084/m9.figshare.17056145.v1
title: Contrasting Stratospheric Smoke Mass and Lifetime from 2017 Canadian and 2019/2020 Australian Megafires: Global Simulations and Satellite Observations

description: Stratospheric injections of carbonaceous aerosols and combustion gases by extreme wildfires have become increasingly common. Recent "megafires", particularly large and intense fires, delivered particulate burdens to the lower stratosphere comparable to those of moderate volcanic eruptions. The 2017 Canadian megafire generated four large Pyrocumulonimbi (pyroCbs), injecting up to approximately 0.3 Tg of smoke in the lower stratosphere. Even more extreme, the 2019/2020 Australian event produced a pyroCb activity resulting in stratospheric smoke intrusions of approximately 1 Tg. To understand their contrasting behavior, we present global climate simulations of the atmospheric response to these events, applying smoke burdens informed by remote observations. Model outcomes, compared to satellite data of smoke transport, reproduce reasonably well the initial plume rise, at 0.2-0.3 km/day, attaining heights of approximately 20 km in Canada and above 30 km in Australia. Global dispersal of the plume occurs within about three weeks in both cases, consistent with observations. Smoke removal timescales, approximately 5 months for the Canadian megafire, agree with remote measurements. During the Australian megafire, observations indicate stratospheric injections three times larger, and models predict comparatively longer smoke lifetimes, approximately 16 months. After the latter event, atmospheric optical depths and radiative cooling achieved values close to those measured following the Pinatubo eruption. Sensitivity tests of model assumptions indicate, in accord with prior studies, that smoke burden, injection heights, and black carbon content can determine plume evolution and possible climate impacts. An empirical relation between peak heights of stratospheric plumes and lifetimes is derived that can help assess megafire impacts on the stratosphere, climate and the Earth system.
DOI: 10.26180/17058278.v1
title: PhD thesis: supplementary files and tables

description: This file contains the supplementary files and tables for the manuscripts included in my PhD thesis.
DOI: 10.26180/17058278.v2
title: PhD thesis: supplementary files and tables

description: This file contains the supplementary files and tables for the manuscripts included in my PhD thesis.
DOI: 10.5281/zenodo.5717537
title: Virtual Screening and Testing of GSK-3 Kinase Inhibitors Using human SH-SY5Y Neuronal cells Expressing Tau Folding Reporter and Mouse Hippocampal Primary Neuron Culture Under Tau Cytotoxicity

description: Supplementary Figure S1. for IJMS
DOI: 10.5281/zenodo.5717536
title: Virtual Screening and Testing of GSK-3 Kinase Inhibitors Using human SH-SY5Y Neuronal cells Expressing Tau Folding Reporter and Mouse Hippocampal Primary Neuron Culture Under Tau Cytotoxicity

description: Supplementary Figure S1. for IJMS
DOI: 10.26180/17058278.v3
title: PhD thesis: supplementary data

description: This file contains the supplementary files and tables for the manuscripts included in my PhD thesis.
DOI: 10.6084/m9.figshare.17058332.v1
title: AID associated protein LC-MS .csv

description: To identify the protein(s) affecting the activity of AID, we tried to identify the AID interacting proteins by expressing AID-FLAG in 293T cells. The AID interacting proteins were subject to co-immunoprecipitation with anti-FLAG-conjugated beads and then separated by SDS-PAGE. Multiple silver-stained bands, especially proteins over 100 kDa were observed.The visualized bands were excised and examined by mass spectrometry after trypsin digestion. In total 1194 proteins were identified. Among the interactors, 17 proteins were AID-specific interacting proteins.We were especially interested in the factors involved in PTMs.
DOI: 10.6084/m9.figshare.17058332
title: AID associated protein LC-MS .csv

description: To identify the protein(s) affecting the activity of AID, we tried to identify the AID interacting proteins by expressing AID-FLAG in 293T cells. The AID interacting proteins were subject to co-immunoprecipitation with anti-FLAG-conjugated beads and then separated by SDS-PAGE. Multiple silver-stained bands, especially proteins over 100 kDa were observed.The visualized bands were excised and examined by mass spectrometry after trypsin digestion. In total 1194 proteins were identified. Among the interactors, 17 proteins were AID-specific interacting proteins.We were especially interested in the factors involved in PTMs.
DOI: 10.25919/p7fx-2k41
title: iOS Shortcuts for the lab

description: iOS 15+ Shortcuts on iPhone for use in the lab.
DOI: 10.25919/ta8f-3k59
title: iOS Shortcuts for the lab

description: iOS 15+ Shortcuts on iPhone for use in the lab.
DOI: 10.6084/m9.figshare.17058602
title: BCR sequence data

description: AID is required for SHM and antibody affinity maturation. To evaluate the effect of USP10 on AID-mediated SHM and affinity maturation, we first examined the BCR mutation frequency in NP-CGG-immunized USP10-B<sup>WT</sup> and USP10-B<sup>KO</sup> mice by antibody gene sequencing. After USP10-B<sup>WT</sup> and USP10-B<sup>KO</sup> mouse GC B cells were sorted by FACS, we sequenced the IgH VH186.2 germline, which encodes an NP-specific antibody, and the JH4 intronic region, which is irrelevant for affinity selection, thus, serves as a pure indicator of SHM efficiency. The overall mutation frequency of both JH4 and VH186.2 was substantially decreased in the absence of USP10 (Figure 3G), suggesting that SHM was impaired.
DOI: 10.6084/m9.figshare.17058651
title: Additional file 2 of Single-cell transcriptome identifies molecular subtype of autism spectrum disorder impacted by de novo loss-of-function variants regulating glial cells

description: Additional file 2. Supplementary Tables - 1, 2, 3, 5, 6.
DOI: 10.6084/m9.figshare.17058651.v1
title: Additional file 2 of Single-cell transcriptome identifies molecular subtype of autism spectrum disorder impacted by de novo loss-of-function variants regulating glial cells

description: Additional file 2. Supplementary Tables - 1, 2, 3, 5, 6.
DOI: 10.6084/m9.figshare.17058654
title: Additional file 3 of Single-cell transcriptome identifies molecular subtype of autism spectrum disorder impacted by de novo loss-of-function variants regulating glial cells

description: Additional file 3. Supplementary Tables - 4, 10, 13, 14, 17, 18, 19
DOI: 10.6084/m9.figshare.17058654.v1
title: Additional file 3 of Single-cell transcriptome identifies molecular subtype of autism spectrum disorder impacted by de novo loss-of-function variants regulating glial cells

description: Additional file 3. Supplementary Tables - 4, 10, 13, 14, 17, 18, 19
DOI: 10.6084/m9.figshare.17058657
title: Additional file 4 of Single-cell transcriptome identifies molecular subtype of autism spectrum disorder impacted by de novo loss-of-function variants regulating glial cells

description: Additional file 4. Supplementary Tables - 7, 8, 9, 11, 12.
DOI: 10.6084/m9.figshare.17058657.v1
title: Additional file 4 of Single-cell transcriptome identifies molecular subtype of autism spectrum disorder impacted by de novo loss-of-function variants regulating glial cells

description: Additional file 4. Supplementary Tables - 7, 8, 9, 11, 12.
DOI: 10.6084/m9.figshare.17058660
title: Additional file 5 of Single-cell transcriptome identifies molecular subtype of autism spectrum disorder impacted by de novo loss-of-function variants regulating glial cells

description: Additional file 5. Supplementary Table - 15.
DOI: 10.6084/m9.figshare.17058660.v1
title: Additional file 5 of Single-cell transcriptome identifies molecular subtype of autism spectrum disorder impacted by de novo loss-of-function variants regulating glial cells

description: Additional file 5. Supplementary Table - 15.
DOI: 10.6084/m9.figshare.17058663.v1
title: Additional file 6 of Single-cell transcriptome identifies molecular subtype of autism spectrum disorder impacted by de novo loss-of-function variants regulating glial cells

description: Additional file 6. Supplementary Table - 16.
DOI: 10.6084/m9.figshare.17058663
title: Additional file 6 of Single-cell transcriptome identifies molecular subtype of autism spectrum disorder impacted by de novo loss-of-function variants regulating glial cells

description: Additional file 6. Supplementary Table - 16.
DOI: 10.6084/m9.figshare.17058707
title: Additional file 2 of Successful intergeneric transfer of a major apple scab resistance gene (Rvi6) from apple to pear and precise comparison of the downstream molecular mechanisms of this resistance in both species

description: Additional File 2: Table S3. Metadata for the 73 apple and 93 pear DEGs discussed in this work
DOI: 10.6084/m9.figshare.17058707.v1
title: Additional file 2 of Successful intergeneric transfer of a major apple scab resistance gene (Rvi6) from apple to pear and precise comparison of the downstream molecular mechanisms of this resistance in both species

description: Additional File 2: Table S3. Metadata for the 73 apple and 93 pear DEGs discussed in this work
DOI: 10.6084/m9.figshare.17058710
title: Additional file 3 of Successful intergeneric transfer of a major apple scab resistance gene (Rvi6) from apple to pear and precise comparison of the downstream molecular mechanisms of this resistance in both species

description: Additional File 3 Table S2. DEGs analyzed by QPCR. Table S5: Accessions and primer sequences for molecular characterization of pear transgenic lines
DOI: 10.6084/m9.figshare.17058710.v1
title: Additional file 3 of Successful intergeneric transfer of a major apple scab resistance gene (Rvi6) from apple to pear and precise comparison of the downstream molecular mechanisms of this resistance in both species

description: Additional File 3 Table S2. DEGs analyzed by QPCR. Table S5: Accessions and primer sequences for molecular characterization of pear transgenic lines
DOI: 10.6084/m9.figshare.17058711
title: Additional file 1 of The whole-genome sequencing in predicting Mycobacterium tuberculosis drug susceptibility and resistance in Papua, Indonesia

description: Additional file 1.
DOI: 10.6084/m9.figshare.17058711.v1
title: Additional file 1 of The whole-genome sequencing in predicting Mycobacterium tuberculosis drug susceptibility and resistance in Papua, Indonesia

description: Additional file 1.
DOI: 10.6084/m9.figshare.17058749
title: Additional file 2 of Eating disorders symptoms and excessive internet use in adolescents: the role of internalising and externalising problems

description: Additional file 2: R script.
DOI: 10.6084/m9.figshare.17058749.v1
title: Additional file 2 of Eating disorders symptoms and excessive internet use in adolescents: the role of internalising and externalising problems

description: Additional file 2: R script.
DOI: 10.6084/m9.figshare.17058752
title: Additional file 3 of Eating disorders symptoms and excessive internet use in adolescents: the role of internalising and externalising problems

description: Additional file 3: Factor loadings of EDS.
DOI: 10.6084/m9.figshare.17058752.v1
title: Additional file 3 of Eating disorders symptoms and excessive internet use in adolescents: the role of internalising and externalising problems

description: Additional file 3: Factor loadings of EDS.
DOI: 10.25345/c5p272
title: MassIVE MSV000088426 - LCMSMS analysis of two fungi samples
title: Some samples used for testing MSMS parameters run on Exploris 120 Thermo
DOI: 10.5281/zenodo.5717553
title: The results of the survey, Shuryshkarsky District, YANAO

description: The results of a survey of the citizens of Shuryshkarsky district, YANAO (field research of the Arctic Research Center, Febriary - March, 2020)
DOI: 10.5281/zenodo.5717552
title: The results of the survey, Shuryshkarsky District, YANAO

description: The results of a survey of the citizens of Shuryshkarsky district, YANAO (field research of the Arctic Research Center, Febriary - March, 2020)
DOI: 10.15156/bio/sh304935.07fu
title: SH304935.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.