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GSS Customer Centric Enterprise Architecture Framework Quotations
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Flocculation results from modeling framework (current bottom boundary layer case)
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A flexible framework for N-mixture occupancy models: applications to breeding bird surveys
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A Flexible Framework for N-mixture Occupancy Models of Count Data Applications to Breeding Bird Surveys
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Information decomposition in the frequency domain: a new framework to study cardiovascular and cardiorespiratory oscillations.
<p>Faes L, Pernice R, Mijatovic G, Antonacci Y, Krohova JC, Javorka M, Porta A. Information decomposition in the frequency domain: a new framework to study cardiovascular and cardiorespiratory oscillations. Philos Trans A Math Phys Eng Sci. 2021 Dec 13;379(2212):20200250. doi: 10.1098/rsta.2020.0250. Epub 2021 Oct 25. PMID: 34689619.</p> <p>Abstract</p> <p>While cross-spectral and information-theoretic approaches are widely used for the multivariate analysis of physiological time series, their combined utilization is far less developed in the literature. This study introduces a framework for the spectral decomposition of multivariate information measures, which provides frequency-specific quantifications of the information shared between a target and two source time series and of its expansion into amounts related to how the sources contribute to the target dynamics with unique, redundant and synergistic information. The framework is illustrated in simulations of linearly interacting stochastic processes, showing how it allows us to retrieve amounts of information shared by the processes within specific frequency bands which are otherwise not detectable by time-domain information measures, as well as coupling features which are not detectable by spectral measures. Then, it is applied to the time series of heart period, systolic and diastolic arterial pressure and respiration variability measured in healthy subjects monitored in the resting supine position and during head-up tilt. We show that the spectral measures of unique, redundant and synergistic information shared by these variability series, integrated within specific frequency bands of physiological interest and reflect the mechanisms of short-term regulation of cardiovascular and cardiorespiratory oscillations and their alterations induced by the postural stress. This article is part of the theme issue 'Advanced computation in cardiovascular physiology: new challenges and opportunities'.</p>
AutoMESC: Automatic Framework for Mining and Classifying Ethereum Smart Contract Vulnerabilities and Their Fixes
<p>AutoMESC Dataset: Automatic Framework for Mining and Classifying Ethereum Smart Contract Vulnerabilities and Their<br> Fixes<br> <br> </p>
Met4DX: A mass spectrum-oriented computational framework for ion mobility-resolved untargeted metabolomics
<p>Supplementary data</p>
EXE2: dataset 2 collected within the framework of the Civil Protection Exercise "EXE.Lomb.Est 2023"
<p>Raw images dataset collected using multi-rotor UASs within the second assignment EXE 2 of the medium-scale technical civil protection exercise “EXE.Lomb.Est 2023”, carried out in October 2023 during Italian Civil Protection Week. </p> <p>The assignment is related to the post-event rapid mapping of a medium-size area for fast assessment.</p> <p>The technical group is a network of Italian Civil Protection Centre of Competence with internal UAS units.</p> <p> </p>
EXE1: dataset 1 collected within the framework of the Civil Protection Exercise "EXE.Lomb.Est 2023"
<p>Raw images dataset collected using multi-rotor UASs within the first assignment EXE 1 of the medium-scale technical civil protection exercise “EXE.Lomb.Est 2023”, carried out in October 2023 during Italian Civil Protection Week. </p> <p>The assignment is related to the post-event rapid mapping of a medium-size area for fast assessment.</p> <p>The technical group is a network of Italian Civil Protection Centre of Competence with internal UAS units.</p> <p> </p>
EXE3: dataset 3 collected within the framework of the Civil Protection Exercise "EXE.Lomb.Est 2023"
<p>Raw images dataset collected using multi-rotor UASs within the third assignment EXE 3 of the medium-scale technical civil protection exercise “EXE.Lomb.Est 2023”, carried out in October 2023 during Italian Civil Protection Week. </p> <p>The assignment is related to specific assessment injects, subsequent to the rapid mapping phase.</p> <p>The technical group is a network of Italian Civil Protection Centre of Competence with internal UAS units.</p> <p> </p>
Sample Dataset for YOLO-Behaviour: A simple, flexible framework to automatically quantify animal behaviours from videos
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PharmaVQA: A Retrieval-Augmented Visual Question Answering Framework for Molecular Representation via Pharmacophores Guided Prompts
<p>The dataset includes the preprocessed Li's dataset, MoleculeACE dataset, and 3 ligands dataset.</p>
A model framework on air-snow vapor exchange and the associated isotope effects at Dome Argus, Antarctica
<p>Simulation result and Matlab code</p>
A Framework for Individualized Splice-Switching Oligonucleotide Therapy
<p>This RNA-seq dataset was generated and analyzed as described in Kim, Woo, de Gusmao, Zhao et al, "A Framework for Individualized Splice-Switching Oligonucleotide Therapy" Nature 2023.</p> <p>The RNA-seq dataset was obtained from cells derived from ataxia-telangiectasia (A-T) patients or their parents, and it comprises four groups:</p> <p>(1) RNA-seq of fibroblasts from an A-T patient with c.7865C>T (proband) and her mother and father.</p> <p>(2) RNA-seq of fibroblasts from an A-T patient with c.7865C>T (proband), transfected with ASOs (mock, NT-22, AT008, AT026).</p> <p>(3) RNA-seq of whole blood from an A-T patient with c.5763-1050A>G (DDP_ATCP_42) and three other A-T patients without the variant (DDP_ATCP_96, DDP_ATCP_103, DDP_ATCP_151).</p> <p>(4) RNA-seq of fibroblasts from an A-T patient with c.5763-1050A>G (DDP_ATCP_42), transfected with ASOs (naive, NT-22, AT043, AT056, AT057).</p>
Database of NGS results of UPC3 gene of intensive fattening lambs of sheep breeds raised in Latvia in 2022 within the framework of project of the Latvian Council of Science LZP-2021/1-0489 project
<p>Project of The Latvian Council of Science (LCS) - LZP-2021/1-0489 project: “<strong>Development of an innovative approach to identify biological determinants involved in the between-animal variation in feed efficiency in sheep farming</strong>.”</p> <p><strong>The aim of the project</strong> is to determine whether the feed efficiency status of Latvian meat sheep breeds could be predicted using a panel of genetic and molecular markers previously found to be associated with divergent Feed efficiency status in a training population of lambs when fed the same diet.</p> <p><strong>Novelty</strong>: to determine the parameters predicting the most productive result of lamb rearing, we set out to develop the cheapest and most effective method for determining markers of feed efficiency - based on molecular and genetic markers obtained from the blood of live lambs.</p> <p><strong>About the project:</strong></p> <p>The costs associated with lambing (buying or keeping sheep) and preparing or purchasing feed are the two largest components of variable costs in sheep raising. Feed costs are high due to poor grain growing conditions in major producing countries, the use of feed grains in ethanol production, and increased competition for land in crop production compared to urban development. Feed efficiency in growing lambs (i.e., the animal’s ability to reach a market or adult body weight (BW) with the least amount of feed intake) is a key factor in the sheep industry. Improving FE reduces production costs. Improving Feed efficiency by 5% can bring economic benefits that are up to four times higher than a 5% increase in average daily gain (ADG).</p> <p>Traditionally, meat breeding programs have focused on outputs, due mainly to the routine availability of phenotypic data on outputs or correlated traits. Currently, no marker has successfully explained enough of the variability in feed efficiency that they were used as part of a routine improvement program, as well as, according to our data, no genetic parameters for performance and feed efficiency traits are available for sheep. The physiological determinants of feed efficiency or putative biomarkers used to analyze animal-to-animal variation in live lambs could be used as a cost-effective and rapid tool for genetic selection or management decisions.</p> <p>As with other complex traits (also referred to as quantitative or polygenic traits), Feed efficiency is controlled by many genes which are involved in several molecular mechanisms and pathways causing animal-to-animal genetic variation in different biological functions. GWAS results suggested genes impacting lipid and energy metabolism as markers of Feed efficiency. Detection of many variants in these genes is necessary to predict or identify efficient animals accurately.</p> <p>It is also known that genetic factors can also influence the regulation of energy metabolism, body composition and determination of excess weight. Among the genes evolved in these pathways is uncoupling protein 3 (UCP3). Uncoupling protein (UCP) abundance increases at birth in the lung and adipose tissue, then gradually decline, an adaptation that is important in enabling normal tissue function. The UCP3 gene plays an important role as a mediator in adaptive thermogenesis, in the regulation of mitochondrial fatty acid oxidation and in the prevention of oxidative damage produced by free radicals. It is also known that this gene is involved in the regulation of energy metabolism and control of body weight. Moreover, some studies showed that UCP3 may modulate the use of lipids and glucose as an energy substrate after weight loss, suggesting possible actions in insulin resistance.</p> <p><strong>About the data of the project:</strong></p> <p>LZP-2021/1-0489 project data on lamb samples of the year 2022, or the A22 group, which consists of 76 intensively fattened lambs from six breeds.</p> <p>Full UCP3 gene (7 exons) were sequenced using Illumina NGS technology (AmpliSeq). The UCP3 gene has been sequenced in lambs of Latvia (in sheep research in Latvia) for the first time.</p> <p>Information about 137 loci was found compared with the last reference sequences ARS_UI_Ramb_v2.0. Eighty-three (40) loci form ten groups with complete linkage disequilibrium between polymorphisms. Fifteen new SNP (without ID number) were found.</p> <p>The database contains information on each locus for each lamb and the distribution of alleles and genotypes for each locus across all 76 samples. The data will be used in (1) analysis of Latvian sheep and (2) analysis of association with feed efficiency.</p> <p> </p> <p>The data is the<strong> joint property</strong> of the participants of the LCS project: the University of Latvia and the Latvian University of Life Sciences and Technologies.</p>
Database of NGS results of UPC2 gene of intensive fattening lambs of sheep breeds raised in Latvia in 2022 within the framework of project of the Latvian Council of Science LZP-2021/1-0489 project
<p>Project of The Latvian Council of Science (LCS) - LZP-2021/1-0489 project: “<strong>Development of an innovative approach to identify biological determinants involved in the between-animal variation in feed efficiency in sheep farming</strong>.”</p> <p><strong>The aim of the project</strong> is to determine whether the feed efficiency status of Latvian meat sheep breeds could be predicted using a panel of genetic and molecular markers previously found to be associated with divergent Feed efficiency status in a training population of lambs when fed the same diet.</p> <p><strong>Novelty</strong>: to determine the parameters predicting the most productive result of lamb rearing, we set out to develop the cheapest and most effective method for determining markers of feed efficiency - based on molecular and genetic markers obtained from the blood of live lambs.</p> <p><strong>About the project:</strong></p> <p>The costs associated with lambing (buying or keeping sheep) and preparing or purchasing feed are the two largest components of variable costs in sheep raising. Feed costs are high due to poor grain growing conditions in major producing countries, the use of feed grains in ethanol production, and increased competition for land in crop production compared to urban development. Feed efficiency in growing lambs (i.e., the animal’s ability to reach a market or adult body weight (BW) with the least amount of feed intake) is a key factor in the sheep industry. Improving FE reduces production costs. Improving Feed efficiency by 5% can bring economic benefits that are up to four times higher than a 5% increase in average daily gain (ADG).</p> <p>Traditionally, meat breeding programs have focused on outputs due mainly to the routine availability of phenotypic data on outputs or correlated traits. Currently no marker has successfully explained enough of the variability in feed efficiency that they were used as part of routine improvement program, as well as, according to our data, no genetic parameters for performance and feed efficiency traits are available for sheep. The physiological determinants of feed efficiency or putative biomarkers used to analyze animal-to-animal variation in live lambs could be used as a cost-effective and rapid tool for genetic selection or management decisions.</p> <p>As with other complex traits (also referred to as quantitative or polygenic traits), Feed efficiency is controlled by many genes which are involved in several molecular mechanisms and pathways causing animal-to-animal genetic variation in different biological functions. GWAS results suggested genes impacting lipid and energy metabolism as markers of Feed efficiency. Detection of many variants in these genes is necessary to predict or identify efficient animals accurately.</p> <p>Uncoupling protein (UCP) abundance increases at birth in the lung and adipose tissue, to then gradually decline, an adaptation that is important in enabling normal tissue function. Uncoupling protein-2 (UCP-2), a recently discovered inner mitochondrial protein, has postulated roles in reactive oxygen species production and apoptosis as well as in energy regulation. UCP2 is present in a large number of tissues with its abundance being greatest in the lung, pancreas and skeletal muscle. Uncoupling protein 2 involves immune response, regulation of oxidative stress, and maintenance of mitochondrial membrane potential as well as energy production. Uncoupling protein 2 is a mitochondrial anion carrier protein, which uncouples the oxidative phosphorylation from ATP production by dissipating the proton gradient generated across the mitochondrial inner membrane.</p> <p><strong>About the data of the project:</strong></p> <p>LZP-2021/1-0489 project data on lamb samples of the year 2022, or the A22 group, which consists of 76 intensively fattened lambs from six breeds.</p> <p>Full UCP2 gene (8 exons) were sequenced using Illumina NGS technology (AmpliSeq). The UCP2 gene has been sequenced in lambs of Latvia (in sheep research in Latvia) for the first time.</p> <p>Information about 93 loci were found compering with the last reference sequences ARS_UI_Ramb_v2.0. Sixty two (62) loci form twelve groups with complete linkage disequilibrium between polymorphisms. Ten new SNP (without ID number) were found.</p> <p>The database contains information on each locus for each lamb and the distribution of alleles and genotypes for each locus across all 76 samples. The data will be used in (1) analysis of Latvian sheep and (2) analysis of association with feed efficiency.</p> <p> </p> <p>The data is the<strong> joint property</strong> of the participants of the LCS project: the University of Latvia and the Latvian University of Life Sciences and Technologies.</p>
Database of NGS results of PPARG gene of intensive fattening of sheep breeds raised in Latvia in 2022 within the framework of project of the Latvian Council of Science LZP-2021/1-0489 project
<p>Project of The Latvian Council of Science (LCS) - LZP-2021/1-0489 project: “<strong>Development of an innovative approach to identify biological determinants involved in the between-animal variation in feed efficiency in sheep farming</strong>.”</p> <p><strong>The aim of the project</strong> is to determine whether the feed efficiency status of Latvian meat sheep breeds could be predicted using a panel of genetic and molecular markers previously found to be associated with divergent Feed efficiency status in a training population of lambs when fed the same diet.</p> <p><strong>Novelty</strong>: to determine the parameters predicting the most productive result of lamb rearing, we set out to develop the cheapest and most effective method for determining markers of feed efficiency - based on molecular and genetic markers obtained from the blood of live lambs.</p> <p><strong>About the project:</strong></p> <p>The costs associated with lambing (buying or keeping sheep) and preparing or purchasing feed are the two largest components of variable costs in sheep raising. Feed costs are high due to poor grain growing conditions in major producing countries, the use of feed grains in ethanol production, and increased competition for land in crop production compared to urban development. Feed efficiency in growing lambs (i.e., the animal’s ability to reach a market or adult body weight (BW) with the least amount of feed intake) is a key factor in the sheep industry. Improving Feed efficiency reduces production costs. Improving Feed efficiency by 5% can bring economic benefits that are up to four times higher than a 5% increase in average daily gain (ADG).</p> <p>Traditionally, meat breeding programs have focused on outputs, due mainly to the routine availability of phenotypic data on outputs or correlated traits. Currently, no marker has successfully explained enough of the variability in feed efficiency that they were used as part of routine improvement program, as well as, according to our data, no genetic parameters for performance and feed efficiency traits are available for sheep. The physiological determinants of feed efficiency or putative biomarkers used to analyze animal-to-animal variation in live lambs could be used as a cost-effective and rapid tool for genetic selection or management decisions.</p> <p>As with other complex traits (also referred to as quantitative or polygenic traits), Feed efficiency is controlled by many genes which are involved in several molecular mechanisms and pathways causing animal-to-animal genetic variation in different biological functions. GWAS results suggested genes impacting lipid and energy metabolism as markers of Feed efficiency. Detection of many variants in these genes is necessary to predict or identify efficient animals accurately.</p> <p>Peroxisomes are cytoplasmic organelles having important roles in modulating lipid homeostasis in mammals. The receptors found on peroxisomes were initially identified as the master regulators of adipose cell development, but are also involved with other cellular events such as inflammation, cell growth and steroidogenesis. The peroxisome proliferator-activated receptor gamma (PPARG, also called NR1C3) is a nuclear receptor of the peroxisome proliferator-activated receptor family (PPAR). PPARs are involved in the regulation of apoptosis, cell cycle, estradiol and progesterone synthesis, and metabolism. The PPARG, a nuclear receptor of the PPAR family, is activated after binding to natural ligands such as polyunsaturated fatty acids (PUFAs) and prostaglandin metabolites.</p> <p><strong>About the data of the project:</strong></p> <p>LZP-2021/1-0489 project data on lamb samples of the year 2022, or the A22 group, which consists of 76 intensively fattened lambs from six breeds.</p> <p>Exons (6) of the PPARG gene and their flanking intron regions were sequenced using Illumina NGS technology (AmpliSeq). The PPARG gene has been sequenced in lambs of Latvia (in sheep research in Latvia) for the first time.</p> <p>Information about 31 loci were found compering with the last reference sequences ARS_UI_Ramb_v2.0. Seven (7) loci form two groups with complete linkage disequilibrium between polymorphisms. Two new SNP (without ID number) were found.</p> <p>The database contains information on each locus for each lamb and the distribution of alleles and genotypes for each locus across all 76 samples. The data will be used in (1) analysis of Latvian sheep and (2) analysis of association with feed efficiency.</p> <p> </p> <p>The data is the<strong> joint property</strong> of the participants of the LCS project: the University of Latvia and the Latvian University of Life Sciences and Technologies.</p>
Database of NGS results of NPY gene of intensive fattening lambs of of sheep breeds raised in Latvia in 2022 within the framework of project of the Latvian Council of Science LZP-2021/1-0489 project
<p>Project of The Latvian Council of Science (LCS) - LZP-2021/1-0489 project: “<strong>Development of an innovative approach to identify biological determinants involved in the between-animal variation in feed efficiency in sheep farming</strong>.”</p> <p><strong>The aim of the project</strong> is to determine whether the feed efficiency status of Latvian meat sheep breeds could be predicted using a panel of genetic and molecular markers previously found to be associated with divergent Feed efficiency status in a training population of lambs when fed the same diet.</p> <p><strong>Novelty</strong>: to determine the parameters predicting the most productive result of lamb rearing, we set out to develop the cheapest and most effective method for determining markers of feed efficiency - based on molecular and genetic markers obtained from the blood of live lambs.</p> <p><strong>About the project:</strong></p> <p>The costs associated with lambing (buying or keeping sheep) and preparing or purchasing feed are the two largest components of variable costs in sheep raising. Feed costs are high due to poor grain growing conditions in major producing countries, the use of feed grains in ethanol production, and increased competition for land in crop production compared to urban development. Feed efficiency in growing lambs (i.e., the animal’s ability to reach a market or adult body weight (BW) with the least amount of feed intake) is a key factor in the sheep industry. Improving FE reduces production costs. Improving Feed efficiency by 5% can bring economic benefits that are up to four times higher than a 5% increase in average daily gain (ADG).</p> <p>Traditionally, meat breeding programs have focused on outputs due mainly to the routine availability of phenotypic data on outputs or correlated traits. Currently, no marker has successfully explained enough of the variability in feed efficiency that they were used as part of a routine improvement program, as well as according to our data, no genetic parameters for performance and feed efficiency traits are available for sheep. The physiological determinants of feed efficiency or putative biomarkers used to analyze animal-to-animal variation in live lambs could be used as a cost-effective and rapid tool for genetic selection or management decisions.</p> <p>As with other complex traits (also referred to as quantitative or polygenic traits), Feed efficiency is controlled by many genes which are involved in several molecular mechanisms and pathways causing animal-to-animal genetic variation in different biological functions. GWAS results suggested genes impacting lipid and energy metabolism as markers of Feed efficiency. Detection of many variants in these genes is necessary to predict or identify efficient animals accurately.</p> <p>Appetite control by the brain is a critical component of the normal growth and development process as well as of major importance for reproduction. Appetite control is a complex process whereby multiple stimulatory and inhibitory inputs are integrated in the hypothalamus to yield an increase or decrease in feed intake. In the arcuate nucleus, there resides a grouping of neurons that release either orexigenic or anorexigenic neurotransmitters. Neuropeptide Y (NYP) is a powerful orexigenic factor which plays important roles in feeding and reproducetion, also is an important component of the leptin signalling mechanism.</p> <p><strong>About data of the project:</strong></p> <p>LZP-2021/1-0489 project data on lamb samples of the year 2022, or A22 group, which consists of 76 intensively fattened lambs from six breeds.</p> <p>Full NPY gene were sequenced using Illumina NGS technology (AmpliSeq). The NPY gene has been sequenced in lambs of Latvia (in sheep research in Latvia) for the first time.</p> <p>Information about 53 loci was found compering with the last reference sequences ARS_UI_Ramb_v2.0. Five (5) loci form two groups with complete linkage disequilibrium between polymorphisms. Thirteen new SNP (without ID number) were found.</p> <p>The database contains information on each locus for each lamb and the distribution of alleles and genotypes for each locus across all 76 samples. The data will be used in (1) analysis of Latvian sheep and (2) analysis of association with feed efficiency.</p> <p> </p> <p>The data is the<strong> joint property</strong> of the participants of the LCS project: the University of Latvia and the Latvian University of Life Sciences and Technologies.</p>
Database of NGS results of IGF-1 gene of intensive fattening lambs of sheep breeds raised in Latvia in 2022 within the framework of project of the Latvian Council of Science LZP-2021/1-0489 project
<p>Project of The Latvian Council of Science (LCS) - LZP-2021/1-0489 project: “<strong>Development of an innovative approach to identify biological determinants involved in the between-animal variation in feed efficiency in sheep farming</strong>.”</p> <p><strong>The aim of the project</strong> is to determine whether the feed efficiency status of Latvian meat sheep breeds could be predicted using a panel of genetic and molecular markers previously found to be associated with divergent Feed efficiency status in a training population of lambs when fed the same diet.</p> <p><strong>Novelty</strong>: to determine the parameters predicting the most productive result of lamb rearing, we set out to develop the cheapest and most effective method for determining markers of feed efficiency - based on molecular and genetic markers obtained from the blood of live lambs.</p> <p><strong>About the project:</strong></p> <p>The costs associated with lambing (buying or keeping sheep) and preparing or purchasing feed are the two largest components of variable costs in sheep raising. Feed costs are high due to poor grain growing conditions in major producing countries, the use of feed grains in ethanol production, and increased competition for land in crop production compared to urban development. Feed efficiency in growing lambs (i.e., the animal's ability to reach a market or adult body weight (BW) with the least amount of feed intake) is a key factor in the sheep industry. Improving Feed efficiency reduces production costs. Improving Feed efficiency by 5% can bring economic benefits that are up to four times higher than a 5% increase in average daily gain (ADG).</p> <p>Traditionally, meat breeding programs have focused on outputs due mainly to the routine availability of phenotypic data on outputs or correlated traits. Currently, no marker has successfully explained enough of the variability in feed efficiency that they were used as part of a routine improvement program, as well as according to our data, no genetic parameters for performance and feed efficiency traits are available for sheep. The physiological determinants of feed efficiency or putative biomarkers used to analyze animal-to-animal variation in live lambs could be used as a cost-effective and rapid tool for genetic selection or management decisions.</p> <p>As with other complex traits (also referred to as quantitative or polygenic traits), Feed efficiency is controlled by many genes which are involved in several molecular mechanisms and pathways causing animal-to-animal genetic variation in different biological functions. GWAS results suggested genes impacting lipid and energy metabolism as markers of Feed efficiency. Detection of many variants in these genes is necessary to predict or identify efficient animals accurately.</p> <p>A major role of insulin-like growth factors (IGFs) is considered to be the regulation of tissue growth and differentiation. Insulin-like growth factor 1 is a mediator of the effects of growth hormone, and polymorphism in the IGF1 gene is reported to affect fat deposition in some livestock species. Growth hormone is synthesized in the anterior pituitary gland and released into the bloodstream. It stimulates the liver to produce IGF1, which can fuel body growth by having growth-promoting effects on almost every cell in the body while regulating cellular DNA synthesis.</p> <p><strong>About the data of the project:</strong></p> <p>LZP-2021/1-0489 project data on lamb samples of the year 2022, or the A22 group, which consists of 76 intensively fattened lambs from six breeds.</p> <p>Exons (4) of the IGF-1 gene and their flanking intron regions were sequenced using Illumina NGS technology (AmpliSeq). The IGF-1 gene has been sequenced in lambs of Latvia (in sheep research in Latvia) for the first time.</p> <p>Information about seven loci was found compared with the last reference sequences ARS_UI_Ramb_v2.0. Two (2) loci were in complete linkage disequilibrium.</p> <p>The database contains information on each locus for each lamb and the distribution of alleles and genotypes for each locus across all 76 samples. The data will be used in (1) analysis of Latvian sheep and (2) analysis of association with feed efficiency.</p> <p> </p> <p>The data is the<strong> joint property</strong> of the participants of the LCS project: the University of Latvia and the Latvian University of Life Sciences and Technologies.</p>
Database of NGS results of MTOR gene of intensive fattening lambs of sheep breeds raised in Latvia in 2022 within the framework of project of the Latvian Council of Science LZP-2021/1-0489 project
<p>Project of The Latvian Council of Science (LCS) - LZP-2021/1-0489 project: “<strong>Development of an innovative approach to identify biological determinants involved in the between-animal variation in feed efficiency in sheep farming</strong>.”</p> <p><strong>The aim of the project</strong> is to determine whether the feed efficiency status of Latvian meat sheep breeds could be predicted using a panel of genetic and molecular markers previously found to be associated with divergent Feed efficiency status in a training population of lambs when fed the same diet.</p> <p><strong>Novelty</strong>: to determine the parameters predicting the most productive result of lamb rearing, we set out to develop the cheapest and most effective method for determining markers of feed efficiency - based on molecular and genetic markers obtained from the blood of live lambs.</p> <p><strong>About the project:</strong></p> <p>The costs associated with lambing (buying or keeping sheep) and preparing or purchasing feed are the two largest components of variable costs in sheep raising. Feed costs are high due to poor grain growing conditions in major producing countries, the use of feed grains in ethanol production, and increased competition for land in crop production compared to urban development. Feed efficiency in growing lambs (i.e., the animal’s ability to reach a market or adult body weight (BW) with the least amount of feed intake) is a key factor in the sheep industry. Improving Feed efficiency reduces production costs. Improving Feed efficiency by 5% can bring economic benefits that are up to four times higher than a 5% increase in average daily gain (ADG).</p> <p>Traditionally, meat breeding programs have focused on outputs due mainly to the routine availability of phenotypic data on outputs or correlated traits. Currently, no marker has successfully explained enough of the variability in feed efficiency that they were used as part of a routine improvement program, as well as, according to our data, no genetic parameters for performance and feed efficiency traits are available for sheep. The physiological determinants of feed efficiency or putative biomarkers used to analyze animal-to-animal variation in live lambs could be used as a cost-effective and rapid tool for genetic selection or management decisions.</p> <p>As with other complex traits (also referred to as quantitative or polygenic traits), Feed efficiency is controlled by many genes which are involved in several molecular mechanisms and pathways causing animal-to-animal genetic variation in different biological functions. GWAS results suggested genes impacting lipid and energy metabolism as markers of Feed efficiency. Detection of many variants in these genes is necessary to predict or identify efficient animals accurately.</p> <p>Mammalian cell growth, in general, and particularly in cells of the conceptus, is regulated by growth factors and the availability of nutrients. The mechanistic mammalian target of rapamycin (MTOR/FRAP1) cell signaling pathway plays an important role in regulating cell growth and metabolism in response to growth factors and nutritional status to affect biological and physiological responses of cells and organs. MTOR is an evolutionarily conserved serine/threonine kinase. The MTOR pathway is a ‘‘nutrient-sensing system’’ stimulated by molecules that include SPP1, insulin-like growth factor 2 (IGF2), glucose and selected amino acids. The MTOR cell signaling pathway is a prominent component of the peri-implantation intra-uterine environment in sheep.</p> <p><strong>About the data of the project:</strong></p> <p>LZP-2021/1-0489 project data on lamb samples of the year 2022, or the A22 group, which consists of 76 intensively fattened lambs from six breeds.</p> <p>Exons (57) of the MTOR gene and their flanking intron regions were sequenced using Illumina NGS technology (AmpliSeq). The MTOR gene has been sequenced in lambs of Latvia (in sheep research in Latvia) for the first time.</p> <p>Information about 77 loci was found comparing with the last reference sequences ARS_UI_Ramb_v2.0. Forty-four (44) loci form seventeen groups with complete linkage disequilibrium between polymorphisms. Four new SNP (without ID number) were found.</p> <p>The database contains information on each locus for each lamb and the distribution of alleles and genotypes for each locus across all 76 samples. The data will be used in (1) analysis of Latvian sheep and (2) analysis of association with feed efficiency.</p> <p> </p> <p>The data is the<strong> joint property</strong> of the participants of the LCS project: the University of Latvia and the Latvian University of Life Sciences and Technologies.</p>
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.