cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.48597/uffs-rdhz
title: Measurement of Nitrogen_dioxide at Chaumont

description: Measurement of Nitrogen_dioxide at Chaumont
DOI: 10.48597/utx7-e6za
title: Measurement of Nitrogen_dioxide at Rigi

description: Measurement of Nitrogen_dioxide at Rigi
DOI: 10.48597/uvzb-tn3u
title: Measurement of Susp_part_matter at Chaumont

description: Measurement of Susp_part_matter at Chaumont
DOI: 10.6084/m9.figshare.7818650
title: Additional file 1: of Role of RASEF hypermethylation in cigarette smoke-induced pulmonary arterial smooth muscle remodeling

description: Methylation differences in CpG in PAs of the rats with different treatment (xls). The number 164, 165, 187 and 188 were from the air group, and the last (171,174, 189 and 197) were the smoking group rats. (XLS 1785 kb)
DOI: 10.21227/a939-t278
title: IEEEXtreme 15: Xtreme Teams

description: This dataset contains a total of 6616 submissions, with 1% correct solutions and 47% partial solutions. Link to the original challenge: https://csacademy.com/ieeextreme-practice/task/xtreme-teams/ See the included PDF document for details about the original challenge.
DOI: 10.5281/zenodo.10728008
title: Variant Calls for the Inbred Nachman Mouse Strains

description: SNV calling: 

Reads were mapped to the GRCm39 reference sequence using minimap2 invoking the “HIFI” preset. Per sample single nucleotide calling was performed using DeepVariant (v1.2.0) under the “PACBIO” model. Per sample gVCF files were then merged using glnexus (v1.2.7) under the DeepVariantWGS configuration to produce a joint call set. Sites with missing data, genotype quality <30, and indels were subsequently filtered using bcftools (v 0.1.19). We further eliminated sites with heterozygous calls as these sites are potentially enriched for false positives given our modest sequencing coverage. Variant effects were predicted using the Variant Effect Predictor (Ensembl release 109.3) using the GRCm39 Mus musculus assembly. 

Unfiltered SNV calls: hifi.deepvariant.jointGenotyping.vcf.gz

Filtered and annotated SNV calls: hifi.deepvariant.jointGenotyping.filtered.vep.vcf.gz

SV calling: 

We identified SVs in the Nachman wild-derived inbred strain genomes using both pbsv (https://github.com/PacificBiosciences/pbsv) and sniffles2 (v. 2.0.7). pbsv was first run on each sample in discover mode to identify read signatures consistent with possible SVs. SVs where then called and samples jointly genotyped by executing pbsv in call mode. Tandem repeats in the GRCm39 assembly were identified using the findTandemRepeats.py script (https://github.com/PacificBiosciences/pbsv/commit/bcec7d382f3ea40158ed9cca3c5fef9686a76641) and supplied when executing sniffles2 to improve the accuracy of calls in repetitive regions. Per sample SV calls generated by sniffles2 were merged and filtered to include only autosomal calls using bcftools merge (v. 0.1.19). Calls with close or overlapping breakpoints across samples were collapsed using truvari (v4.0.0), with the following parameters specified: -pctsize 0.75 –pctovl 0.5 –pctseq 0.7 -s 20 -S 10000000 -k common --chain. We then intersected pbsv and sniffles2 SV calls using truvari bench to produce a higher confidence call set. We used the pbsv callset as the “truth” set and invoked the following command line parameters: -pctsize 0.75 –pctovl 0.5 –pctseq 0.7 –dup-to-ins –passonly -sizemin 20. SVs were annotated using the Ensembl Variant Effect Predictor (release 109.3) and gene model annotations from the GRCm39 assembly. 

pbsv calls: NachmanInbred.pbsv.filtered.vcf.gz

sniffles2 SV calls: NachmanSV.sniffles.vcf.gz

pbsv - sniffles2 merged SV calls, with VEP annotations: Nachman.pbsv.sniffles.mergeSet.vep.vcf.gz
DOI: 10.5281/zenodo.10728009
title: Variant Calls for the Inbred Nachman Mouse Strains

description: SNV calling: 

Reads were mapped to the GRCm39 reference sequence using minimap2 invoking the “HIFI” preset. Per sample single nucleotide calling was performed using DeepVariant (v1.2.0) under the “PACBIO” model. Per sample gVCF files were then merged using glnexus (v1.2.7) under the DeepVariantWGS configuration to produce a joint call set. Sites with missing data, genotype quality <30, and indels were subsequently filtered using bcftools (v 0.1.19). We further eliminated sites with heterozygous calls as these sites are potentially enriched for false positives given our modest sequencing coverage. Variant effects were predicted using the Variant Effect Predictor (Ensembl release 109.3) using the GRCm39 Mus musculus assembly. 

Unfiltered SNV calls: hifi.deepvariant.jointGenotyping.vcf.gz

Filtered and annotated SNV calls: hifi.deepvariant.jointGenotyping.filtered.vep.vcf.gz

SV calling: 

We identified SVs in the Nachman wild-derived inbred strain genomes using both pbsv (https://github.com/PacificBiosciences/pbsv) and sniffles2 (v. 2.0.7). pbsv was first run on each sample in discover mode to identify read signatures consistent with possible SVs. SVs where then called and samples jointly genotyped by executing pbsv in call mode. Tandem repeats in the GRCm39 assembly were identified using the findTandemRepeats.py script (https://github.com/PacificBiosciences/pbsv/commit/bcec7d382f3ea40158ed9cca3c5fef9686a76641) and supplied when executing sniffles2 to improve the accuracy of calls in repetitive regions. Per sample SV calls generated by sniffles2 were merged and filtered to include only autosomal calls using bcftools merge (v. 0.1.19). Calls with close or overlapping breakpoints across samples were collapsed using truvari (v4.0.0), with the following parameters specified: -pctsize 0.75 –pctovl 0.5 –pctseq 0.7 -s 20 -S 10000000 -k common --chain. We then intersected pbsv and sniffles2 SV calls using truvari bench to produce a higher confidence call set. We used the pbsv callset as the “truth” set and invoked the following command line parameters: -pctsize 0.75 –pctovl 0.5 –pctseq 0.7 –dup-to-ins –passonly -sizemin 20. SVs were annotated using the Ensembl Variant Effect Predictor (release 109.3) and gene model annotations from the GRCm39 assembly. 

pbsv calls: NachmanInbred.pbsv.filtered.vcf.gz

sniffles2 SV calls: NachmanSV.sniffles.vcf.gz

pbsv - sniffles2 merged SV calls, with VEP annotations: Nachman.pbsv.sniffles.mergeSet.vep.vcf.gz
DOI: 10.15468/azwhsk
title: Avifauna en dos gradientes altitudinales en los distritos de Utco - Cajamarca y Balsas - Amazonas

description: Se evaluó la diversidad y distribución de la avifauna en dos gradientes altitudinales en los distritos de Utco (Cajamarca) y Balsas (Amazonas) al norte de Perú. En cada gradiente altitudinal se identificó cuatro estratos en base al tipo de cobertura vegetal y altitud; se evaluaron 160 puntos de conteo sin estimación de distancia en las áreas menos impactadas y con acceso factible, también se empleó observaciones asistemáticas. Se registraron 167 especies (11 endémicas), 112 en el gradiente altitudinal del distrito de Utco y 139 en el gradiente altitudinal del distrito de Balsas.
DOI: 10.15472/wvbxcj
title: Censo libre de Aves en el Parque Nacional Natural Pisba para el 2008

description: Este recurso contiene 351 registros de aves tomados en el monitoreo de aves por medio de un censo libre navideño en el Parque Nacional Natural Pisba en diciembre del año 2008. Comprende 35 especies de aves pertenecientes a 19 familias.
DOI: 10.21227/s256-5w13
title: IEEEXtreme 15: Word Search

description: This dataset contains a total of 1215 submissions, with 12% correct solutions and 68% partial solutions. Link to the original challenge: https://csacademy.com/ieeextreme-practice/task/wordsearch/ See the included PDF document for details about the original challenge.
DOI: 10.6084/m9.figshare.7294412.v1
title: A systematic review and meta-analysis assessing the effectiveness of alternative listening devices to conventional hearing aids in adults with hearing loss

description: Recent technological advances have led to a rapid increase in alternative listening devices to conventional hearing aids. The aim was to systematically review the existing evidence to assess the effectiveness of alternative listening devices in adults with mild and moderate hearing loss. A systematic search strategy of the scientific literature was employed, reported in accordance with the Preferred Reporting Items for Systematic reviews and Meta-analyses (PRISMA) checklist. Eleven studies met eligibility for inclusion: two studies evaluated personal sound amplification products, and nine studies assessed remote microphone systems (frequency modulation, Bluetooth, wireless). The evidence in this review suggests that alternative listening devices improve behavioural measures of speech intelligibility relative to unaided and/or aided conditions. Evidence for whether alternative listening devices improve self-reported outcomes is inconsistent. The evidence was judged to be of poor to good quality and subject to bias due to limitations in study design. Our overall recommendation is that high-quality evidence (i.e. randomised controlled trials) is required to demonstrate the effectiveness of alternative listening devices. Such evidence is not currently available and is necessary to guide healthcare commissioners and policymakers when considering new service delivery models for adults with hearing loss. <b>Review registration:</b> Prospective Register of Systematic Reviews (PROSPERO), CRD42015029582
DOI: 10.6084/m9.figshare.7294412
title: A systematic review and meta-analysis assessing the effectiveness of alternative listening devices to conventional hearing aids in adults with hearing loss

description: Recent technological advances have led to a rapid increase in alternative listening devices to conventional hearing aids. The aim was to systematically review the existing evidence to assess the effectiveness of alternative listening devices in adults with mild and moderate hearing loss. A systematic search strategy of the scientific literature was employed, reported in accordance with the Preferred Reporting Items for Systematic reviews and Meta-analyses (PRISMA) checklist. Eleven studies met eligibility for inclusion: two studies evaluated personal sound amplification products, and nine studies assessed remote microphone systems (frequency modulation, Bluetooth, wireless). The evidence in this review suggests that alternative listening devices improve behavioural measures of speech intelligibility relative to unaided and/or aided conditions. Evidence for whether alternative listening devices improve self-reported outcomes is inconsistent. The evidence was judged to be of poor to good quality and subject to bias due to limitations in study design. Our overall recommendation is that high-quality evidence (i.e. randomised controlled trials) is required to demonstrate the effectiveness of alternative listening devices. Such evidence is not currently available and is necessary to guide healthcare commissioners and policymakers when considering new service delivery models for adults with hearing loss. <b>Review registration:</b> Prospective Register of Systematic Reviews (PROSPERO), CRD42015029582
DOI: 10.6084/m9.figshare.7818701.v1
title: Additional file 1: of GSK3Î˛ regulates epithelial-mesenchymal transition and cancer stem cell properties in triple-negative breast cancer

description: Data S1. List of drugs from Selleckchem used in the high-throughput screen; chemical data and their arrangement in the plates used for the screen are listed. (XLSX 446â kb)
DOI: 10.6084/m9.figshare.7818701
title: Additional file 1: of GSK3Î˛ regulates epithelial-mesenchymal transition and cancer stem cell properties in triple-negative breast cancer

description: Data S1. List of drugs from Selleckchem used in the high-throughput screen; chemical data and their arrangement in the plates used for the screen are listed. (XLSX 446â kb)
DOI: 10.48597/v3bd-f7gp
title: Measurement of Susp_part_matter at Payerne

description: Measurement of Susp_part_matter at Payerne
DOI: 10.48597/v69v-6fs5
title: Measurement of Susp_part_matter at Tänikon

description: Measurement of Susp_part_matter at Tänikon
DOI: 10.48597/vbwk-zd5d
title: Measurement of Nitrogen_dioxide at Rigi

description: Measurement of Nitrogen_dioxide at Rigi
DOI: 10.48597/vfxa-77hx
title: Measurement of Inorganics in air and particle phase at Svratouch

description: Measurement of Inorganics in air and particle phase at Svratouch
DOI: 10.48597/vh5e-65wv
title: Measurement of Nitrogen_dioxide at Chaumont

description: Measurement of Nitrogen_dioxide at Chaumont
DOI: 10.48597/vq82-cff4
title: Measurement of Nitrogen_dioxide at Rigi

description: Measurement of Nitrogen_dioxide at Rigi
DOI: 10.48597/vqkv-98tj
title: Measurement of Inorganics in air and particle phase at Payerne

description: Measurement of Inorganics in air and particle phase at Payerne
DOI: 10.48597/vscf-2qg6
title: Measurement of Sulphate_total at Rigi

description: Measurement of Sulphate_total at Rigi
DOI: 10.48597/vvk5-te48
title: Measurement of Sulphate_total at Rigi

description: Measurement of Sulphate_total at Rigi
DOI: 10.48597/w2jn-qztm
title: Measurement of Susp_part_matter at Payerne

description: Measurement of Susp_part_matter at Payerne
DOI: 10.48597/w8g8-prep
title: Measurement of Nitrogen_dioxide at Rigi

description: Measurement of Nitrogen_dioxide at Rigi
DOI: 10.48597/w92s-gxge
title: Measurement of Susp_part_matter at Tänikon

description: Measurement of Susp_part_matter at Tänikon
DOI: 10.48597/wfes-unwa
title: Measurement of Nitrogen_dioxide at Rigi

description: Measurement of Nitrogen_dioxide at Rigi
DOI: 10.48597/xfqq-h8wu
title: Measurement of Sulphate_total at Rigi

description: Measurement of Sulphate_total at Rigi
DOI: 10.15468/pr8j3j
title: Bees (Apoidea: Anthophila) Found in Emerald Ash Borer Traps in Vermont, USA

description: Incidental bee specimens collected in Emerald Ash Borer traps located throughout Vermont in the spring of 2009. These were purple, three-sided traps resembling a box kite and hung on ash trees as part of a surveillance program by federal and state agencies. The purple traps are coated with an adhesive that captures the insects when they land and are baited with a lure to attract the beetle pest if it is present. Emerald ash borer (EAB; Agrilus planipennis) (Coleoptera: Buprestidae) is an invasive species wood boring beetle, native to China and eastern Asia, which targets ash trees. EAB probably arrived in North America hidden in wood packing materials commonly used to ship consumer and other goods. It was first detected in July 2002 in southeastern Michigan.
DOI: 10.48597/xhkx-s7qj
title: Measurement of Nitrogen_dioxide at Rigi

description: Measurement of Nitrogen_dioxide at Rigi
DOI: 10.48597/xn77-gc7z
title: Measurement of Susp_part_matter at Tänikon

description: Measurement of Susp_part_matter at Tänikon
DOI: 10.48597/xnfa-ah9w
title: Measurement of Nitrogen_dioxide at Chaumont

description: Measurement of Nitrogen_dioxide at Chaumont
DOI: 10.48597/xrz7-wps3
title: Measurement of Inorganics in air and particle phase at Svratouch

description: Measurement of Inorganics in air and particle phase at Svratouch
DOI: 10.48597/y6aq-zap2
title: Measurement of Inorganics in air and particle phase at Svratouch

description: Measurement of Inorganics in air and particle phase at Svratouch
DOI: 10.48597/y7mc-vf46
title: Measurement of Inorganics in air and particle phase at Payerne

description: Measurement of Inorganics in air and particle phase at Payerne
DOI: 10.15468/b8sg4a
title: Bee Specimens from Michael Veit Collection

description: Bee specimens collected by Michael Veit, primarily from Massachusetts, USA, but also including records from New England and other areas in eastern USA. Records from Vermont, USA (n=344) are in a separate dataset (https://doi.org/10.15468/inojpk).
DOI: 10.15468/z43gqg
title: Miscellaneous Historical Bee Records from Vermont, USA

description: Miscellaneous historical bee records compiled by the Vermont Wild Bee Survey from literature and other sources.
DOI: 10.48597/z544-d5qv
title: Measurement of Sulphate_total at Rigi

description: Measurement of Sulphate_total at Rigi
DOI: 10.48597/zcz9-ncz6
title: Measurement of Nitrogen_dioxide at Chaumont

description: Measurement of Nitrogen_dioxide at Chaumont
DOI: 10.48597/zewr-eaqz
title: Measurement of Sulphate_total at Rigi

description: Measurement of Sulphate_total at Rigi
DOI: 10.48597/zjd7-zqgu
title: Measurement of Susp_part_matter at Payerne

description: Measurement of Susp_part_matter at Payerne
DOI: 10.48597/2e98-kvqr
title: Measurement of Inorganics in air and particle phase at Bay dEspoir B

description: Measurement of Inorganics in air and particle phase at Bay dEspoir B
DOI: 10.48597/2fyr-pdkm
title: Measurement of Inorganics in precipitation at Frelighsburg

description: Measurement of Inorganics in precipitation at Frelighsburg
DOI: 10.48597/2ghn-xgdb
title: Measurement of Precipitation_amount_off at Penn State (NADP)

description: Measurement of Precipitation_amount_off at Penn State (NADP)
DOI: 10.48597/2u6a-h7dp
title: Measurement of Precipitation_amount at Risco Llamo

description: Measurement of Precipitation_amount at Risco Llamo
DOI: 10.48597/2xfs-hgy6
title: Measurement of Precipitation_amount_off at Fundy NP

description: Measurement of Precipitation_amount_off at Fundy NP
DOI: 10.48597/36ss-3cwa
title: Measurement of Precipitation_amount_off at Coles Island

description: Measurement of Precipitation_amount_off at Coles Island
DOI: 10.48597/3f6r-yamv
title: Measurement of Precipitation_amount_off at Trout Brook

description: Measurement of Precipitation_amount_off at Trout Brook
DOI: 10.5281/zenodo.10728476
title: SnoRNa box type information from various sources in the literature

description: SnoRNA type information obtained and formated from different sources. 



dieci_et_al_2009_Genomics_summary.tsv: SnoRNA type information on Caenorhabditis elegans, Drosophila melanogaster and Schizosaccharomyces pombe obtained from the supplementary data of Dieci et al. , 2009, Genomics.

saccharomyces_cerevisiae_snotype_umass.tsv: SnoRNA type information on Saccharomyces cerevisiae from the yeast snoRNA database at UMass (Piekna-Przybylska et al., 2007, RNA).

snoDB_BED.bed: SnoRNA genomic position obtained from snoDB v2.0 (Bergeron et al., 2023, NAR).

snoDB_data.tsv: SnoRNA type information of Homo sapiens snoRNAs obtained from snoDB v2.0 (Bergeron et al., 2023, NAR).

snoRNA_type_rfam_families.tsv: SnoRNA type for each Rfam snoRNA family present on the Rfam database (Kalvari et al., Current Protoc Bioinforma, 2018).
DOI: 10.5281/zenodo.10728477
title: SnoRNa box type information from various sources in the literature

description: SnoRNA type information obtained and formated from different sources. 



dieci_et_al_2009_Genomics_summary.tsv: SnoRNA type information on Caenorhabditis elegans, Drosophila melanogaster and Schizosaccharomyces pombe obtained from the supplementary data of Dieci et al. , 2009, Genomics.

saccharomyces_cerevisiae_snotype_umass.tsv: SnoRNA type information on Saccharomyces cerevisiae from the yeast snoRNA database at UMass (Piekna-Przybylska et al., 2007, RNA).

snoDB_BED.bed: SnoRNA genomic position obtained from snoDB v2.0 (Bergeron et al., 2023, NAR).

snoDB_data.tsv: SnoRNA type information of Homo sapiens snoRNAs obtained from snoDB v2.0 (Bergeron et al., 2023, NAR).

snoRNA_type_rfam_families.tsv: SnoRNA type for each Rfam snoRNA family present on the Rfam database (Kalvari et al., Current Protoc Bioinforma, 2018).
DOI: 10.48597/3jbp-g82v
title: Measurement of Inorganics in precipitation at Sprucedale

description: Measurement of Inorganics in precipitation at Sprucedale
DOI: 10.5281/zenodo.10728510
title: brycinus_nurse_spades_01.fasta.gz

description: .
DOI: 10.5281/zenodo.10728511
title: brycinus_nurse_spades_01.fasta.gz

description: .
DOI: 10.48597/4bdk-p5tp
title: Measurement of Inorganics in precipitation at Coles Island

description: Measurement of Inorganics in precipitation at Coles Island
DOI: 10.48597/4rfw-ugcr
title: Measurement of Precipitation_amount_off at Experimental Lakes Area

description: Measurement of Precipitation_amount_off at Experimental Lakes Area
DOI: 10.48597/4vcs-rzwn
title: Measurement of Sulphate_total at Rucava

description: Measurement of Sulphate_total at Rucava
DOI: 10.5281/zenodo.10728542
title: Dataset - Adaptions of a commercial imaging ellipsometer for the complete Mueller matrix
DOI: 10.5281/zenodo.10728543
title: Dataset - Adaptions of a commercial imaging ellipsometer for the complete Mueller matrix
DOI: 10.15468/p2h2f9
title: Occurrence dataset of birds in the Sihong Hongze Lake Wetland National Nature Reserve,Jiangsu, China

description: Sihong Hongze Lake Wetland National Nature Reserve is an area of high biodiversity around Hongze Lake. We conducted a one-year bird survey applying fixed-point method in the reserve from July 2020 to June 2021, and provided an occurrence dataset with detailed species and geographic information. The occurrence dataset recorded a total of 201,918 detections of 215 species belonging to 18 orders and 55 families. 16 species were listed in the IUCN Red List as Threatened Species.
DOI: 10.48597/5d8r-su8v
title: Measurement of Precipitation_amount_off at Robertville

description: Measurement of Precipitation_amount_off at Robertville
DOI: 10.48597/5muf-wd5y
title: Measurement of Inorganics in precipitation at Warsaw Caves

description: Measurement of Inorganics in precipitation at Warsaw Caves
DOI: 10.48597/5q7m-fa5c
title: Measurement of Inorganics in precipitation at Canterbury

description: Measurement of Inorganics in precipitation at Canterbury
DOI: 10.48597/6kfy-8bhk
title: Measurement of Inorganics in air and particle phase at De Zilk

description: Measurement of Inorganics in air and particle phase at De Zilk
DOI: 10.48597/6yw8-u3ht
title: Measurement of Inorganics in precipitation at Trout Brook

description: Measurement of Inorganics in precipitation at Trout Brook
DOI: 10.5281/zenodo.10728522
title: Lethbridge cemetry
DOI: 10.5281/zenodo.10728523
title: Lethbridge cemetry
DOI: 10.48597/74dr-rvxz
title: Measurement of Inorganics in precipitation at Burnt Island

description: Measurement of Inorganics in precipitation at Burnt Island
DOI: 10.48597/7b54-u5t8
title: Measurement of Precipitation_amount_off at Sutton

description: Measurement of Precipitation_amount_off at Sutton
DOI: 10.48597/7pyb-d4wc
title: Measurement of Inorganics in precipitation at Bratts Lake

description: Measurement of Inorganics in precipitation at Bratts Lake
DOI: 10.48597/8aqs-57t9
title: Measurement of Inorganics in air and particle phase at Bush

description: Measurement of Inorganics in air and particle phase at Bush
DOI: 10.48597/8jf7-e4y7
title: Measurement of Precipitation_amount_off at Longwoods

description: Measurement of Precipitation_amount_off at Longwoods
DOI: 10.48597/939a-tndb
title: Measurement of Inorganics in air and particle phase at Egbert

description: Measurement of Inorganics in air and particle phase at Egbert
DOI: 10.48597/96pj-ursh
title: Measurement of Inorganics in air and particle phase at Lac Edouard

description: Measurement of Inorganics in air and particle phase at Lac Edouard
DOI: 10.48597/9883-mx7k
title: Measurement of Ammonium at Rucava

description: Measurement of Ammonium at Rucava
DOI: 10.48597/9arh-gyva
title: Measurement of Benzo_a_pyrene at Rucava

description: Measurement of Benzo_a_pyrene at Rucava
DOI: 10.48597/9d6b-x5hz
title: Measurement of Precipitation_amount_off at Snare Rapids

description: Measurement of Precipitation_amount_off at Snare Rapids
DOI: 10.48597/9exy-34kw
title: Measurement of Precipitation_amount_off at St. Maure

description: Measurement of Precipitation_amount_off at St. Maure
DOI: 10.48597/9mpf-nat3
title: Measurement of Inorganics in precipitation at Westport

description: Measurement of Inorganics in precipitation at Westport
DOI: 10.48597/a5yn-xctz
title: Measurement of Precipitation_amount_off at LG4

description: Measurement of Precipitation_amount_off at LG4
DOI: 10.48597/abv8-t62r
title: Measurement of Precipitation_amount_off at Nictau

description: Measurement of Precipitation_amount_off at Nictau