cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1230169.v1
title: Effect of Distance On Flowering Plants Abundance

description: The purpose of our study was to understand plant–plant interactions, namely competition among grassland flowering plant species for resources, since we observed different abundance of species at different sites. We also examined how other factors such as temperature influenced grassland communities. The study site was in south side of York University in Toronto, Canada. This site is of importance due to its uses such as electric poles for city power supply, recreation and transportation. However, what was most important about it for us was its biodiversity. Although placed in the city its biodiversity and different vegetation patches of the site allowed us to conduct our data collection at this site. Our group started with a pilot study and the process of data collection followed for the next three consecutive weeks, which started on 2/10/2014. In our study, we examined the relationship between flowering plant species abundance and distance from the shrubs. We randomly chose shrubs and at distances of 1meter, 3meters and 5meters away from the shrubs used transect to take a sample of what different plant species and how many of each existed. To get a thorough idea of what was really happening and understand the effects of all factors combined we also measured and recorded the temperature at each distance and measured the dimensions of each shrub to test if there were any correlations between them. To recognize flowering plant species’ names, the plants book provided in the lab was used as a guide. To examine the effect of distance on the abundance of flowering plants, one-way ANOVA test was performed on the obtained data. Since ANOVA controls Type 1 errors, it was a good choice for our experiment purposes because it could ensure us that any significant result we found was not just down to chance. The means of samples were calculated, and variation between and within groups were calculated; and finally the calculated value was compared to the Fcritical value to test our hypothesis.
DOI: 10.6084/m9.figshare.1230165
title: Ecology Lab 4

description: Ecology Lab Hypothesis: If density and sunlight affect the dbh of the tree, then the dbh of the tree will increase as density and sunlight increases, because more sunlight allows for better growth of tree, and high-density displays a lot of resource availability. Predictions: As sunlight increases the dbh of the tree will increase. As density increases the dbh of the tree will increase. As sunlight and density increases the dbh of the tree will increase. Method: The experiment will be done in Woodlands at York University. The first Maple tree will be chosen randomly by starting at a random point and moving 10 steps north, and 5 steps east. The first Maple tree in the vicinity will be the target. We will measure the dbh of the tree, and then make a 10m radius with the maple tree in the middle and count all the trees that are 10 ft and higher within the radius. To measure the sunlight we will use our picture frame of 10 cm by15 cm and stand with our back to the tree, and look upwards, and calculate the percentage of light coming through. The next tree will be chosen by going to the edge of our 10 m radius in the North East direction, and then taking 10 steps north and 5 steps east and then chose the next maple tree nearby. The total number of maple trees being surveyed will be 35 giving a good idea if dbh is affected by sunlight and density.
DOI: 10.6084/m9.figshare.1230161
title: Lab Report Meta-Data

description: The experiment was conducted at York University on October 24th, 2014 in the grasslands adjacent to the Danby Woods lot. Trial 1 was conducted between 3:00 pm and 4:00 pm, while Trial 2 was conducted between 4:00 pm and 5:00 pm. The temperature during Trial 1 was 16°C, and dropped to 14°C during Trial 2. The Bauford Scale was at 3 for the duration of the entire experiment. While the sun was out for the majority of the experiment, it should be noted that the sun was lower in the sky and not as strong during the second experiment. The purpose of this experiment was to determine if plant species, distance from the plant species, and colour have an effect on the diversity and total number of arthropods collected. Fifteen pan traps (bowls), 5 each of different colours (blue, yellow, and white), were placed at varying distances (0ft, 1ft, 2ft, 3ft, 4ft.), from each plant species, for a total of 60 bowls. Plant species A was a Pollinator Plant, near the Danby woodlot, located in shady area. Plant species B was a tall grass, near the Danby woodlot,in shady location. Plant species C was a purple flowering pollinator, located in the sun. Plant species D was a red leaved shrub, located in the sun. The bowls were filled halfway with soapy water and left undisturbed for 60 minutes. After, the bowls were inspected. The number of arthropods was counted, as well as the number of recognizable taxonomic units. General classifications of the insects were also recorded. This data was collected in collaboration with other researchers Elron, and Laiba.
DOI: 10.6084/m9.figshare.1230160
title: Fieldwork experimental design.

description: To study the effects of water stress on the white aster plant on greenways within the urban area,its height,its density,number of flowers and species richness were recorded in a powerline corridor which is located north of Steeles Avenue West (43.779291, -79.504367 ),Concord,ON L4K 3C8,across York University. Data collection occurred October 2nd, 9th and 16th, 2014, from 2:30 pm to 5:30 pm. The weather on the first day was warm and sunny with a temperature of 16 degrees Celsius, on the second day it was cold (13 degrees Celsius) and sunny with some clouds, and on the last day it was cold (12 degrees Celsius) and it rained. The area where the experiment took place was a small drainage ditch in the corridor which was directly behind buildings along Steels Ave., separated by a fence. Sets of quadrats (1m x 1m) were taken along the edge of the drainage ditch at 1.5 meters apart, and they were taken at 3 different distances along a transect perpendicular to the ditch: 0 meters (at the very edge of the ditch), 10 meters from the ditch, and 20 meters from the ditch. This process was repeated until n = 21 quadrats were completed. For this experiment, we looked at how distance from the drainage ditch (main water source in the area) affects different features in quadrats. The variables measured in each quadrat were height of the white aster plant, species richness, density of white aster plants, number of flowers per white aster plant, and the soil temperature in the quadrat.The tools used in this dataset were: a quadrat made of metal (1m x 1m), a measuring tape,a Durac soil termometer. In each quadrat,every white aster height was measured in meters from the ground to the highest point of the plant using the measuring tape. Only the white asters whose roots were visually observed being in the quadrat area were measured ( If the stem was inside but the roots were outside,the plant wasn't counted). Plant species in the quadrat were differentiated observing the morphology and number of different species was recorded in each quadrat. Density of white aster was visually observed in each quadrat,looking from up to down. Number of flowers was counted for each white aster stem in a quadrat.Only the flowers that at the moment of sampling were open were counted. Soil temperature was measured burying the soil termometer in the middle of the area covered by the quadrat at the start of each sample and then the temperature was recorded at the end of the quadrat sampling. Plant species observed in the grassland included the following : Canada Goldenrob (Solidago canadensis), White Aster (Aster ericoides),Queen Anne's Lace (Daucus carota),Common Dandelion (Taraxacum officinale),Graminoids ( grasses).
DOI: 10.6084/m9.figshare.1230159
title: The effects of Water Stress on the White Aster Characteristics

description: Methods: Variables including height, density, number of flowers and species richness were recorded on three different days; October 2nd, 9th and 16th 2014. The species chosen to be the objective of the study was White Aster (Symphyotrichum ericoides). The data was collected in a power line corridor located across York University north of Steeles Avenue West (43.779291, -79.504367). A drainage ditch in the corridor was chosen as a form of water supply, located as a divider between the grassland and surrounding buildings on Steeles Avenue. Quadrat sets of 1m x 1m were recorded along the drainage ditch at three different distances. The quadrats were placed at three distances, each 1.5 meters parallel along the transect going perpendicular to the water supply. The primary set of quadrats were placed at 0 meters from the edge of water supply, the secondary set was placed at 10 meters from the edge of the first quadrats and the tertiary set was placed at 20 meters from the primary quadrats location. The height of White Aster (S.ericoides) individuals was recorded in meters from the base of the stalk to the tip of the flowers using a transect. This procedure was repeated for all individuals in each of the quadrats. The numbers of different plant species were recorded to account for species richness within each quadrat. The density of White Asters was visually estimated in each quadrat and recorded as a percentage value. The numbers of flowers for each individual Aster plant stem were recorded in each quadrat; only the flowers that were fully bloomed were included in the visual number count. A total number of 21 quadrats were used for the collection of data, which will be analyzed using bar graphs with standard deviation bars. The average value and standard deviation of each variable will then be plotted against the distance from the water source. One-way ANOVA analysis with a=0.05 will be used to test the variance within the collected variables in relation to the distance from the water supply.
DOI: 10.6084/m9.figshare.1230160.v1
title: Fieldwork experimental design.

description: To study the effects of water stress on the white aster plant on greenways within the urban area,its height,its density,number of flowers and species richness were recorded in a powerline corridor which is located north of Steeles Avenue West (43.779291, -79.504367 ),Concord,ON L4K 3C8,across York University. Data collection occurred October 2nd, 9th and 16th, 2014, from 2:30 pm to 5:30 pm. The weather on the first day was warm and sunny with a temperature of 16 degrees Celsius, on the second day it was cold (13 degrees Celsius) and sunny with some clouds, and on the last day it was cold (12 degrees Celsius) and it rained. The area where the experiment took place was a small drainage ditch in the corridor which was directly behind buildings along Steels Ave., separated by a fence. Sets of quadrats (1m x 1m) were taken along the edge of the drainage ditch at 1.5 meters apart, and they were taken at 3 different distances along a transect perpendicular to the ditch: 0 meters (at the very edge of the ditch), 10 meters from the ditch, and 20 meters from the ditch. This process was repeated until n = 21 quadrats were completed. For this experiment, we looked at how distance from the drainage ditch (main water source in the area) affects different features in quadrats. The variables measured in each quadrat were height of the white aster plant, species richness, density of white aster plants, number of flowers per white aster plant, and the soil temperature in the quadrat.The tools used in this dataset were: a quadrat made of metal (1m x 1m), a measuring tape,a Durac soil termometer. In each quadrat,every white aster height was measured in meters from the ground to the highest point of the plant using the measuring tape. Only the white asters whose roots were visually observed being in the quadrat area were measured ( If the stem was inside but the roots were outside,the plant wasn't counted). Plant species in the quadrat were differentiated observing the morphology and number of different species was recorded in each quadrat. Density of white aster was visually observed in each quadrat,looking from up to down. Number of flowers was counted for each white aster stem in a quadrat.Only the flowers that at the moment of sampling were open were counted. Soil temperature was measured burying the soil termometer in the middle of the area covered by the quadrat at the start of each sample and then the temperature was recorded at the end of the quadrat sampling. Plant species observed in the grassland included the following : Canada Goldenrob (Solidago canadensis), White Aster (Aster ericoides),Queen Anne's Lace (Daucus carota),Common Dandelion (Taraxacum officinale),Graminoids ( grasses).
DOI: 10.6084/m9.figshare.1230131
title: Insect vectors of potential relevance in the transmission of avian malaria

description: This is a poster designed to give broad details about my Honours project. This was used at various open days for the Scottish Centre for Ecology and the Natural Environment at Loch Lomond.
DOI: 10.6084/m9.figshare.1230158
title: Gaussian Job Archive for C15H27Cl8F3O8S

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1230159.v1
title: The effects of Water Stress on the White Aster Characteristics

description: Methods: Variables including height, density, number of flowers and species richness were recorded on three different days; October 2nd, 9th and 16th 2014. The species chosen to be the objective of the study was White Aster (Symphyotrichum ericoides). The data was collected in a power line corridor located across York University north of Steeles Avenue West (43.779291, -79.504367). A drainage ditch in the corridor was chosen as a form of water supply, located as a divider between the grassland and surrounding buildings on Steeles Avenue. Quadrat sets of 1m x 1m were recorded along the drainage ditch at three different distances. The quadrats were placed at three distances, each 1.5 meters parallel along the transect going perpendicular to the water supply. The primary set of quadrats were placed at 0 meters from the edge of water supply, the secondary set was placed at 10 meters from the edge of the first quadrats and the tertiary set was placed at 20 meters from the primary quadrats location. The height of White Aster (S.ericoides) individuals was recorded in meters from the base of the stalk to the tip of the flowers using a transect. This procedure was repeated for all individuals in each of the quadrats. The numbers of different plant species were recorded to account for species richness within each quadrat. The density of White Asters was visually estimated in each quadrat and recorded as a percentage value. The numbers of flowers for each individual Aster plant stem were recorded in each quadrat; only the flowers that were fully bloomed were included in the visual number count. A total number of 21 quadrats were used for the collection of data, which will be analyzed using bar graphs with standard deviation bars. The average value and standard deviation of each variable will then be plotted against the distance from the water source. One-way ANOVA analysis with a=0.05 will be used to test the variance within the collected variables in relation to the distance from the water supply.
DOI: 10.6084/m9.figshare.1230128
title: Gaussian Job Archive for C5H13NO4

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1230129
title: Gaussian Job Archive for C15H27Cl8F3O8S

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1230131.v1
title: Insect vectors of potential relevance in the transmission of avian malaria

description: This is a poster designed to give broad details about my Honours project. This was used at various open days for the Scottish Centre for Ecology and the Natural Environment at Loch Lomond.
DOI: 10.6084/m9.figshare.1230158.v1
title: Gaussian Job Archive for C15H27Cl8F3O8S

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1230127
title: Lab 5 - Field experiment

description: This experiment was conducted at the Danby grassland at York University. A quadrat was randomly placed at the edge of the grassland where milkweeds were observed. The height of each milkweed in the quadrat was recorded using a transect as a ruler. The number of milkweeds in the quadrat was recorded as density. The sample size was 20 quadrats. This process was repeated for milkweed found in the middle of the grassland. Then, the average heights of milkweed in each quadrat was calculated for both locations.
DOI: 10.6084/m9.figshare.1230129.v1
title: Gaussian Job Archive for C15H27Cl8F3O8S

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1230125
title: Goldenrod (Solidago) Leaf Count in Relation to Sunlight Exposure & Vegetation Density

description: In order to determine whether or not the number of leaves found on a Goldenrod<br>plant are directly related to the amount of sunlight that the plant receives, and the<br>vegetation density, thirty quadrat samples were randomly taken in the grassland of<br>York University. Samples of Goldenrod were then identified, and the total leaf count for each was taken<br>and the average was determined. Next, the percentage of leaves that were exposed to<br>sunlight per Goldenrod plant within the quadrat was estimated and averaged.<br>Lastly, the percentage of the quadrat that was covered with vegetation was<br>estimated. The next area to place the quadrat was determined by, moving five meters away<br>in any direction from the last spot the that quadrat was placed, then moving five<br>meters to the left, and one meter to the right.
DOI: 10.6084/m9.figshare.1230128.v1
title: Gaussian Job Archive for C5H13NO4

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1230161.v1
title: Lab Report Meta-Data

description: The experiment was conducted at York University on October 24th, 2014 in the grasslands adjacent to the Danby Woods lot. Trial 1 was conducted between 3:00 pm and 4:00 pm, while Trial 2 was conducted between 4:00 pm and 5:00 pm. The temperature during Trial 1 was 16°C, and dropped to 14°C during Trial 2. The Bauford Scale was at 3 for the duration of the entire experiment. While the sun was out for the majority of the experiment, it should be noted that the sun was lower in the sky and not as strong during the second experiment. The purpose of this experiment was to determine if plant species, distance from the plant species, and colour have an effect on the diversity and total number of arthropods collected. Fifteen pan traps (bowls), 5 each of different colours (blue, yellow, and white), were placed at varying distances (0ft, 1ft, 2ft, 3ft, 4ft.), from each plant species, for a total of 60 bowls. Plant species A was a Pollinator Plant, near the Danby woodlot, located in shady area. Plant species B was a tall grass, near the Danby woodlot,in shady location. Plant species C was a purple flowering pollinator, located in the sun. Plant species D was a red leaved shrub, located in the sun. The bowls were filled halfway with soapy water and left undisturbed for 60 minutes. After, the bowls were inspected. The number of arthropods was counted, as well as the number of recognizable taxonomic units. General classifications of the insects were also recorded. This data was collected in collaboration with other researchers Elron, and Laiba.
DOI: 10.6084/m9.figshare.1230125.v1
title: Goldenrod (Solidago) Leaf Count in Relation to Sunlight Exposure & Vegetation Density

description: In order to determine whether or not the number of leaves found on a Goldenrod<br>plant are directly related to the amount of sunlight that the plant receives, and the<br>vegetation density, thirty quadrat samples were randomly taken in the grassland of<br>York University. Samples of Goldenrod were then identified, and the total leaf count for each was taken<br>and the average was determined. Next, the percentage of leaves that were exposed to<br>sunlight per Goldenrod plant within the quadrat was estimated and averaged.<br>Lastly, the percentage of the quadrat that was covered with vegetation was<br>estimated. The next area to place the quadrat was determined by, moving five meters away<br>in any direction from the last spot the that quadrat was placed, then moving five<br>meters to the left, and one meter to the right.
DOI: 10.6084/m9.figshare.1230127.v1
title: Lab 5 - Field experiment

description: This experiment was conducted at the Danby grassland at York University. A quadrat was randomly placed at the edge of the grassland where milkweeds were observed. The height of each milkweed in the quadrat was recorded using a transect as a ruler. The number of milkweeds in the quadrat was recorded as density. The sample size was 20 quadrats. This process was repeated for milkweed found in the middle of the grassland. Then, the average heights of milkweed in each quadrat was calculated for both locations.
DOI: 10.6084/m9.figshare.1230121
title: iUbiq-Lys: prediction of lysine ubiquitination sites in proteins by extracting sequence evolution information via a gray system model

description: As one of the most important posttranslational modifications (PTMs), ubiquitination plays an important role in regulating varieties of biological processes, such as signal transduction, cell division, apoptosis, and immune response. Ubiquitination is also named “lysine ubiquitination” because it occurs when an ubiquitin is covalently attached to lysine (K) residues of targeting proteins. Given an uncharacterized protein sequence that contains many lysine residues, which one of them is the ubiquitination site, and which one is of non-ubiquitination site? With the avalanche of protein sequences generated in the postgenomic age, it is highly desired for both basic research and drug development to develop an automated method for rapidly and accurately annotating the ubiquitination sites in proteins. In view of this, a new predictor called “iUbiq-Lys” was developed based on the evolutionary information, gray system model, as well as the general form of pseudo-amino acid composition. It was demonstrated via the rigorous cross-validations that the new predictor remarkably outperformed all its counterparts. As a web-server, iUbiq-Lys is accessible to the public at http://www.jci-bioinfo.cn/iUbiq-Lys. For the convenience of most experimental scientists, we have further provided a protocol of step-by-step guide, by which users can easily get their desired results without the need to follow the complicated mathematics that were presented in this paper just for the integrity of its development process.