cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5683/sp/9dfxca
title: Census of Agriculture, 2001 [Canada]: Farm Data - Land use, tenure, and land management practices [B2020]

description: Statistics Canada conducts the Census of Agriculture every five years at the same time as the Census of Population. The most recent Census of Agriculture was on May 15, 2001.The Census of Agriculture collects and disseminates a wide range of data on the agriculture industry such as number and type of farms, farm operator characteristics, business operating arrangements, land management practices, crop areas, numbers of livestock and poultry, farm capital, operating expenses and receipts, and farm machinery and equipment. These data provide a comprehensive picture of the agriculture industry across Canada every five years at the national and provincial levels as well as at lower levels of geography. The Census of Agriculture is the cornerstone of Canada's Agriculture Statistics Program. Census of Agriculture data are an indispensable public and private sector tool for analysing important changes in the agriculture and food industries;developing, implementing and evaluating agricultural policies and programs such as farm income safety nets and environmental sustainability; and making production, marketing and investment decisions. Statistics Canada uses the data as benchmarks for its regular surveys on crops, livestock and farm finances between census years. In addition, data extracted from the unique Agriculture Population Linkage Database, which links data from both the Census of Population and Census of Agriculture databases, paint a socio-economic portrait not only of farm operators but also of their families and households. This release contains all farm data and farm operations data plus selected historical files. In 2001, a census farm was defined as an agricultural operation that produces at least one of the following products intended for sale: crops (hay, field crops, tree fruits or nuts, berries or grapes, vegetables, seed); livestock (cattle, pigs, sheep, horses, game animals, other livestock); poultry (hens, chickens, turkeys, chicks, game birds, other poultry); animal products (milk or cream, eggs, wool, furs, meat); or other agricultural products (Christmas trees, greenhouse or nursery products, mushrooms, sod, honey, maple syrup products). For 2001, a new farm type classification based on the North American Industrial Classification System (NAICS) has been added to the historical classification used in previous censuses. All tabulated data are subject to confidentiality restrictions prior to release. Due to confidentiality constraints, data for those geographic areas with very few agricultural operations are not released separately, but rather merged with a geographically adjacent area.
DOI: 10.5281/zenodo.8395732
title: Lista de artigos da BIOINFO #03

description: <strong>BIOINFO #03 - Revista Brasileira de Bioinformática e Biologia Computacional</strong> Este repositório apresenta os artigos da 3ª edição da Revista BIOINFO, publicada em setembro de 2023. Você pode encontrar mais sobre a revista, aqui: https://bioinfo.com.br/bioinfo-03/ Você pode citar o conteúdo deste repositório como: MARIANO, DCB (org.) et al. BIOINFO #03 - Revista Brasileira de Bioinformática e Biologia Computacional. 3. Ed. Vol. 3. ISBN: 978-65-992753-8-8 Lagoa Santa: Alfahelix, 2023. doi: 10.51780/978-65-992753-8-8 Para citações específicas, consulte cada artigo.
description: {"references": ["MARIANO, DCB (org.) et al. BIOINFO #03 - Revista Brasileira de Bioinform\u00e1tica e Biologia Computacional. 3. Ed. Vol. 3. ISBN: 978-65-992753-8-8 Lagoa Santa: Alfahelix, 2023. doi: 10.51780/978-65-992753-8-8"]}
DOI: 10.5281/zenodo.8395731
title: Lista de artigos da BIOINFO #03

description: <strong>BIOINFO #03 - Revista Brasileira de Bioinformática e Biologia Computacional</strong> Este repositório apresenta os artigos da 3ª edição da Revista BIOINFO, publicada em setembro de 2023. Você pode encontrar mais sobre a revista, aqui: https://bioinfo.com.br/bioinfo-03/ Você pode citar o conteúdo deste repositório como: MARIANO, DCB (org.) et al. BIOINFO #03 - Revista Brasileira de Bioinformática e Biologia Computacional. 3. Ed. Vol. 3. ISBN: 978-65-992753-8-8 Lagoa Santa: Alfahelix, 2023. doi: 10.51780/978-65-992753-8-8 Para citações específicas, consulte cada artigo.
description: {"references": ["MARIANO, DCB (org.) et al. BIOINFO #03 - Revista Brasileira de Bioinform\u00e1tica e Biologia Computacional. 3. Ed. Vol. 3. ISBN: 978-65-992753-8-8 Lagoa Santa: Alfahelix, 2023. doi: 10.51780/978-65-992753-8-8"]}
DOI: 10.6073/pasta/d8815d6a5629288acc4e7ae461c4957b
title: Long-Term Core Site Grasshopper Dynamics for the Sevilleta National Wildlife Refuge, New Mexico

description: Grasshoppers are important animals in semi-arid environments, both as herbivores and as food resources for higher level consumer animals. Grasshoppers tend to be numerous and speciose in semi-arid environments, especially desert grasslands, where they range from environmental specialists to environmental generalists. Grasshopper populations tend to change considerably from year to year, often in response to annual variation in rainfall and plant production. The purpose of this study was to monitor grasshopper species composition and abundance over large temporal and spatial dimentions which include black grama grassland, blue grama grassland, creosotebush shrubland, and pinyon/juniper woodland environments at the Sevilleta, in relation to seasonal and annual variation in precipitation and plant production. Data were collected for all individual species to provide information on community dynamics as well as population dynamics, starting in 1992 and continuing to the present. The working research hypothesis for this study was that grasshopper populations in all environments will correlate positively to seasonal and annual variation in precipitation and plant production. Spring grasshopper populations will be especially high during El Nino years, and late summer populations especially high during La Nina years.
DOI: 10.6084/m9.figshare.23957979.v1
title: Repository Data for Living Shoreline Pilot Project Monitoring by the Coastal Habitat Restoration Team in the Great Bay Estuary, New Hampshire

description: Over the past six years, the New Hampshire (NH) Department of Environmental Services has shifted its preference for shoreline stabilization from traditional engineered shorelines (e.g., seawalls, concrete armoring) to nature-based living shoreline (LS) solutions. To improve the expectations and outcomes of future projects, we monitored three LS pilot projects in the Great Bay Estuary of NH from 2019 - 2022, estimated short-term recovery of the soil biogeochemistry, plant community, and habitat use by fauna, and documented adaptive management needs. Each LS was paired with a nearby (&lt; 200 m) reference salt marsh and a degraded shoreline. After four years, halophyte cover had recovered 25 – 75% in the low marsh and 26 – 70% in the high marsh. Creation of salt marsh habitat supported similar mummichog population abundances (10 – 24 indiv. per trap) similar to reference marshes and substantially greater than no action control shorelines (0 – 1 indiv. per trap). Aerobic or mildly anaerobic reduction-oxidation potentials in the low marsh (14 – 302 mV) and high marsh (243 – 266 V) were attributed to rapid drainage of the marsh in two of the LS projects. A novel planting technique of spreading a turf with pre-installed graminoid plugs across the marsh surface at one of the sites may have jumpstarted development of anerobic soil conditions within three years (Low: -192.7 + 14.9 mV, High: -119.0 + 25.3 mV). Opportunistic foraging waterfowl and burial by wrack led to annual replacement replanting and seasonal wrack removal as adaptive management needs of these and future projects. LS projects in the Great Bay Estuary provide functional salt marsh habitat and improved shoreline resilience that can serve as a valuable strategy for coastal restoration.
DOI: 10.5281/zenodo.7761423
title: CRISPR/dCas9-mediated DNA demethylation screen identifies driver epigenetic determinants of colorectal cancer (Processed data)

description: <strong>Background:</strong> Promoter hypermethylation of tumour suppressor genes is frequently observed during the malignant transformation of colorectal cancer (CRC). However, whether this epigenetic mechanism is an actual driver of cancer or is a mere consequence of the carcinogenic process remains to be elucidated. <strong>Results: </strong>In this work we performed an integrative multi -omic approach to identify gene candidates with strong correlations between DNA methylation and gene expression in human CRC samples and a set of 8 colon cancer cell lines. As a proof of concept, we combined recent CRISPR-Cas9 epigenome editing tools (dCas9-TET1, dCas9-TET-IM) with a custom arrayed gRNA library to modulate the DNA methylation status of 56 promoters previously linked with strong epigenetic repression in CRC, and we monitored the potential functional consequences of such DNA methylation loss by means of a high-content cell proliferation screen. Overall, the epigenetic modulation of most of these DNA methylated regions had a mild impact in the reactivation of gene expression and in the viability of cancer cells. Interestingly, we found that epigenetic reactivation of RSPO2 in the tumour context was associated with a significant impairment in cell proliferation in p53-/- cancer cell lines and further validation with human samples demonstrated that the epigenetic silencing of RSPO2 is a mid-late event in the adenoma to carcinoma sequence. <strong>Conclusions: </strong>These results highlight the potential role of DNA methylation as a driver mechanism of CRC and open up the venue for the identification of novel therapeutic windows based on the epigenetic reactivation of certain tumour suppressor genes.
DOI: 10.5281/zenodo.7761422
title: CRISPR/dCas9-mediated DNA demethylation screen identifies driver epigenetic determinants of colorectal cancer (Processed data)

description: <strong>Background:</strong> Promoter hypermethylation of tumour suppressor genes is frequently observed during the malignant transformation of colorectal cancer (CRC). However, whether this epigenetic mechanism is an actual driver of cancer or is a mere consequence of the carcinogenic process remains to be elucidated. <strong>Results: </strong>In this work we performed an integrative multi -omic approach to identify gene candidates with strong correlations between DNA methylation and gene expression in human CRC samples and a set of 8 colon cancer cell lines. As a proof of concept, we combined recent CRISPR-Cas9 epigenome editing tools (dCas9-TET1, dCas9-TET-IM) with a custom arrayed gRNA library to modulate the DNA methylation status of 56 promoters previously linked with strong epigenetic repression in CRC, and we monitored the potential functional consequences of such DNA methylation loss by means of a high-content cell proliferation screen. Overall, the epigenetic modulation of most of these DNA methylated regions had a mild impact in the reactivation of gene expression and in the viability of cancer cells. Interestingly, we found that epigenetic reactivation of RSPO2 in the tumour context was associated with a significant impairment in cell proliferation in p53-/- cancer cell lines and further validation with human samples demonstrated that the epigenetic silencing of RSPO2 is a mid-late event in the adenoma to carcinoma sequence. <strong>Conclusions: </strong>These results highlight the potential role of DNA methylation as a driver mechanism of CRC and open up the venue for the identification of novel therapeutic windows based on the epigenetic reactivation of certain tumour suppressor genes.
DOI: 10.5281/zenodo.7729080
title: A human genome editing-based MLL-AF4 acute lymphoblastic leukemia model recapitulates key cellular and molecular leukemogenic features. (Processed data)

description: The prognosis of infant B-cell acute lymphoblastic leukemia (iB-ALL) remains dismal, especially in patients harboring the MLL-AF4 (KTM2A-AFF1) rearrangement, which arises prenatally in early hematopoietic stem/progenitor cells (HSPCs) and accounts for 80% of iB-ALL and 10% of non-infant cases. MLL-AF4+ B-ALL shows a bimodal localization of the MLL gene breakpoint within the MLL break cluster region, and two subgroups of patients based on the gene expression pattern of the HOXA/MEIS cluster have been identified. The pathogenic mechanisms in MLL- AF4+ B-ALL are challenging to study functionally due to the absence of faithful human cellular models recapitulating the disease phenotype and latency. Here, we assess the molecular contribution and leukemogenic capacity of MLL breakpoints occurring in either intron 10 (MLL i10 , centromeric) or intron 12 (MLL i12 , telomeric) in ontogenically-different human HSPCs sourced prenatally (fetal liver) and neonatally (cord blood). CRISPR-Cas9-induced MLL-AF4 (MA) targeting either MLL i10 (M i10 A) or MLL i12 (M i12 A) causes MA-driven in vitro myeloid immortalization in both fetal liver- and cord blood-CD34+ HSPCs. The centromeric location of the MLL breakpoint, but not the cellular ontogeny, determined the expression of HOXA/MEIS1 genes in MLL-edited cells. Centromeric MLL breakpoints endowed enhanced myeloid clonogenic replating to MLL- edited CD34+ HSPCs. The cellular ontogeny and the location of the MLL breakpoint also influenced the capacity of MLL-edited CD34+ HSPCs to initiate pro-B-ALL in vivo, which faithfully recapitulated the molecular, transcriptomic and methylome profiles of patients with primary MA+ iB-ALL. Our data provide key insights into the cellular and molecular leukemogenic determinants of MA+ iB-ALL. This dataset contains processed RNAseq and DNA methylation data from the abovementioned study.
DOI: 10.5281/zenodo.7729079
title: A human genome editing-based MLL-AF4 acute lymphoblastic leukemia model recapitulates key cellular and molecular leukemogenic features. (Processed data)

description: The prognosis of infant B-cell acute lymphoblastic leukemia (iB-ALL) remains dismal, especially in patients harboring the MLL-AF4 (KTM2A-AFF1) rearrangement, which arises prenatally in early hematopoietic stem/progenitor cells (HSPCs) and accounts for 80% of iB-ALL and 10% of non-infant cases. MLL-AF4+ B-ALL shows a bimodal localization of the MLL gene breakpoint within the MLL break cluster region, and two subgroups of patients based on the gene expression pattern of the HOXA/MEIS cluster have been identified. The pathogenic mechanisms in MLL- AF4+ B-ALL are challenging to study functionally due to the absence of faithful human cellular models recapitulating the disease phenotype and latency. Here, we assess the molecular contribution and leukemogenic capacity of MLL breakpoints occurring in either intron 10 (MLL i10 , centromeric) or intron 12 (MLL i12 , telomeric) in ontogenically-different human HSPCs sourced prenatally (fetal liver) and neonatally (cord blood). CRISPR-Cas9-induced MLL-AF4 (MA) targeting either MLL i10 (M i10 A) or MLL i12 (M i12 A) causes MA-driven in vitro myeloid immortalization in both fetal liver- and cord blood-CD34+ HSPCs. The centromeric location of the MLL breakpoint, but not the cellular ontogeny, determined the expression of HOXA/MEIS1 genes in MLL-edited cells. Centromeric MLL breakpoints endowed enhanced myeloid clonogenic replating to MLL- edited CD34+ HSPCs. The cellular ontogeny and the location of the MLL breakpoint also influenced the capacity of MLL-edited CD34+ HSPCs to initiate pro-B-ALL in vivo, which faithfully recapitulated the molecular, transcriptomic and methylome profiles of patients with primary MA+ iB-ALL. Our data provide key insights into the cellular and molecular leukemogenic determinants of MA+ iB-ALL. This dataset contains processed RNAseq and DNA methylation data from the abovementioned study.
DOI: 10.6084/m9.figshare.14126768
title: Site-specific substitution rates - sequence simulations

description: Simulated sequence alignment based on the random reference tree
DOI: 10.6084/m9.figshare.14126768.v2
title: Site-specific substitution rates - sequence simulations

description: Simulated sequence alignment based on the random reference tree
DOI: 10.6084/m9.figshare.14126768.v3
title: Site-specific substitution rates - sequence simulations

description: Simulated sequence alignment based on the random reference tree
DOI: 10.5281/zenodo.8395758
title: Interview data contributions of social enterprises in South Africa

description: Data Set. Interviewees for contributions of social enterprises manuscript.
DOI: 10.5281/zenodo.8395757
title: Interview data contributions of social enterprises in South Africa

description: Data Set. Interviewees for contributions of social enterprises manuscript.
DOI: 10.5519/qd.0aaiysl4
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (22 records)
DOI: 10.34740/kaggle/dsv/6580388
title: Country Data
DOI: 10.6084/m9.figshare.24224953
title: Single_Tree_Detection__NEWFOR_Benchmark_Dataset.zip

description: The data used in this research are publicly available from the NEWFOR Single Tree Detection Benchmark Dataset. The data can be downloaded from the NEWFOR website via https://www.newfor.net/download-newfor-single-tree-detection-benchmark-dataset/
DOI: 10.5281/zenodo.8395752
title: organ_fscil_dataset_images

description: Required to train/test fscil models (images only)
DOI: 10.5281/zenodo.8395751
title: organ_fscil_dataset_images

description: Required to train/test fscil models (images only)
DOI: 10.5281/zenodo.7144663
title: Exposing New Taxonomic Variation with Inflammation – A Model-Specific Genome Database for Microbiome Researchers

description: Data deposit for CBAJ-DB v1.2
DOI: 10.5281/zenodo.7144664
title: Exposing New Taxonomic Variation with Inflammation – A Model-Specific Genome Database for Microbiome Researchers

description: Data deposit for CBAJ-DB
DOI: 10.5281/zenodo.8395759
title: Exposing New Taxonomic Variation with Inflammation – A Model-Specific Genome Database for Microbiome Researchers

description: Data deposit for CBAJ-DB v1.2
DOI: 10.5281/zenodo.8395774
title: organ_annotations_fscil

description: only annotations for fscil organ
DOI: 10.5281/zenodo.8395773
title: organ_annotations_fscil

description: only annotations for fscil organ
DOI: 10.6084/m9.figshare.24224995
title: Dataset for the Project 'A Prompt Book for Turning a Large Language Model into a Startup Digital Assistant'

description: This dataset consists of a systematic analysis of 100 startup-related questions. These questions were categorized based on their <b>underlying purposes</b> and according to the <b>five pillars of startups</b>. This results in the identification of distinct purposes that can be used to classify startup-related inquiries. The identified purposes include decision-making, seeking information, seeking advice, and finally reflecting on experience. On the other hand, regarding the startup pillars, we classified these 100 questions into five startup pillars i.e. team, product or service, business model, general, and market.
DOI: 10.6084/m9.figshare.24225031
title: Rogers et al. Acceptability Supplemental Table 1.docx

description: All data are displayed as the number of respondents (n) who answered “Yes” to questions asking if they were experiencing any discomfort on a week that they did perform 3-min resistance exercise breaks to interrupt sedentary behavior and another week where they did not, and if so, if they were experiencing discomfort in each of the body areas listed.
DOI: 10.6084/m9.figshare.24225031.v1
title: Rogers et al. Acceptability Supplemental Table 1.docx

description: All data are displayed as the number of respondents (n) who answered “Yes” to questions asking if they were experiencing any discomfort on a week that they did perform 3-min resistance exercise breaks to interrupt sedentary behavior and another week where they did not, and if so, if they were experiencing discomfort in each of the body areas listed.
DOI: 10.5281/zenodo.8395825
title: agave_tequilana_spades_01.fasta.gz

description: .
DOI: 10.5281/zenodo.8395824
title: agave_tequilana_spades_01.fasta.gz

description: .
DOI: 10.5281/zenodo.8395828
title: agave_tequilana_decontaminated_FSCR.fasta.gz

description: .
DOI: 10.5281/zenodo.8395827
title: agave_tequilana_decontaminated_FSCR.fasta.gz

description: .
DOI: 10.34740/kaggle/dsv/6580885
title: US counties COVID 19 dataset
DOI: 10.57967/hf/1171
title: autotrain-data-kcstitches
DOI: 10.5517/ccdc.csd.cc2dgy4z
title: CCDC 2218891: Experimental Crystal Structure Determination

description: Related Article: Matthew Pennachio, Zheng Zhou, Zheng Wei, Alexandra Tsybizova, Renana Gershoni-Poranne, Marina A. Petrukhina|2023|Organometallics|42|2492|doi:10.1021/acs.organomet.2c00583
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.cc2dgy50
title: CCDC 2218892: Experimental Crystal Structure Determination

description: Related Article: Matthew Pennachio, Zheng Zhou, Zheng Wei, Alexandra Tsybizova, Renana Gershoni-Poranne, Marina A. Petrukhina|2023|Organometallics|42|2492|doi:10.1021/acs.organomet.2c00583
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.cc2dgy61
title: CCDC 2218893: Experimental Crystal Structure Determination

description: Related Article: Matthew Pennachio, Zheng Zhou, Zheng Wei, Alexandra Tsybizova, Renana Gershoni-Poranne, Marina A. Petrukhina|2023|Organometallics|42|2492|doi:10.1021/acs.organomet.2c00583
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.cc2dgy3y
title: CCDC 2218890: Experimental Crystal Structure Determination

description: Related Article: Matthew Pennachio, Zheng Zhou, Zheng Wei, Alexandra Tsybizova, Renana Gershoni-Poranne, Marina A. Petrukhina|2023|Organometallics|42|2492|doi:10.1021/acs.organomet.2c00583
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6084/m9.figshare.24031836
title: Repository for "Experimental Uncertainty in Training Data for Protein-Ligand Binding Affinity Prediction Models"

description: Repository for "Experimental Uncertainty in Training Data for Protein-Ligand Binding Affinity Prediction Models"ChEMBL_33.tsv contains the raw data as downloaded from ChEMBLData_Processing_ChEMBL33.ipynb contains all the code necesary to reproduce the results reported in the manuscript.
DOI: 10.6084/m9.figshare.24031836.v1
title: Repository for "Experimental Uncertainty in Training Data for Protein-Ligand Binding Affinity Prediction Models"

description: Repository for "Experimental Uncertainty in Training Data for Protein-Ligand Binding Affinity Prediction Models"ChEMBL_33.tsv contains the raw data as downloaded from ChEMBLData_Processing_ChEMBL33.ipynb contains all the code necesary to reproduce the results reported in the manuscript.
DOI: 10.34740/kaggle/dsv/6581097
title: Global Crypto Currency Price Database