cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3971883
title: Data Science SNOM Sets

description: The entire compressed zip file contains 5 sub folders.<br><br>1. ATR_FTIR (raw spectra): 50 files with an overall size of 800 KB;<br>2. Collated_FB_SNOM_Raw: 488 files 19.2 MB;<br>3. Collated_FB_SNOM_TXT: 166 files 37.7 MB;<br>4. A metadata file containing demography of patients: 2 files (one Word; one PDF), 72 KB; and,<br>5. One Excel spreadsheet detailing experimental parameters: 1 file, 52 KB.<br><br>For 1, 2 and 3, each folder contains sub-folders grouping the files into the 5 different types of cervical cytology: normal, low-grade dyskaryosis; high-grade dyskaryosis; pre-invasive mixed lesion and adenocarcinoma.<br><br>1. Spectra can be viewed in Opus software;<br>2. Can be viewed in freely available software Gwyddion 2.40, available at http://gwyddion.net/;<br>3. Can be viewed as a text file/matrix in many applications, including matlab; and,<br>4 + 5 are self-obvious.<br>
DOI: 10.7910/dvn/v1rjpf/qaxsz1
title: snk20161116_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/jzviet
title: snk20160404_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3971883.v1
title: Data_Science_SNOM_Sets.zip

description: The entire compressed zip file contains 5 sub folders.<br><br>1. ATR_FTIR (raw spectra): 50 files with an overall size of 800 KB;<br>2. Collated_FB_SNOM_Raw: 488 files 19.2 MB;<br>3. Collated_FB_SNOM_TXT: 166 files 37.7 MB;<br>4. A metadata file containing demography of patients: 2 files (one Word; one PDF), 72 KB; and,<br>5. One Excel spreadsheet detailing experimental parameters: 1 file, 52 KB.<br><br>For 1, 2 and 3, each folder contains sub-folders grouping the files into the 5 different types of cervical cytology: normal, low-grade dyskaryosis; high-grade dyskaryosis; pre-invasive mixed lesion and adenocarcinoma.<br><br>1. Spectra can be viewed in Opus software;<br>2. Can be viewed in freely available software Gwyddion 2.40, available at http://gwyddion.net/;<br>3. Can be viewed as a text file/matrix in many applications, including matlab; and,<br>4 + 5 are self-obvious.<br>
DOI: 10.7910/dvn/v1rjpf/gqryre
title: snk20161216_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3971874
title: CSL protein regulates transcription of genes required to prevent catastrophic mitosis in fission yeast

description: For every eukaryotic cell to grow and divide, intricately coordinated action of numerous proteins is required to ensure proper cell-cycle progression. The fission yeast <i>Schizosaccharomyces pombe</i> has been instrumental in elucidating the fundamental principles of cell-cycle control. Mutations in <i>S. pombe</i> ‘cut’ (cell untimely torn) genes cause failed coordination between cell and nuclear division, resulting in catastrophic mitosis. Deletion of <i>cbf11</i>, a fission yeast CSL transcription factor gene, triggers a ‘cut’ phenotype, but the precise role of Cbf11 in promoting mitotic fidelity is not known. We report that Cbf11 directly activates the transcription of the acetyl-coenzyme A carboxylase gene <i>cut6</i>, and the biotin uptake/biosynthesis genes <i>vht1</i> and <i>bio2</i>, with the former 2 implicated in mitotic fidelity. Cbf11 binds to a canonical, metazoan-like CSL response element (GTGGGAA) in the <i>cut6</i> promoter. Expression of Cbf11 target genes shows apparent oscillations during the cell cycle using temperature-sensitive <i>cdc25–22</i> and <i>cdc10-M17</i> block-release experiments, but not with other synchronization methods. The penetrance of catastrophic mitosis in <i>cbf11</i> and <i>cut6</i> mutants is nutrient-dependent. We also show that drastic decrease in biotin availability arrests cell proliferation but does not cause mitotic defects. Taken together, our results raise the possibility that CSL proteins play conserved roles in regulating cell-cycle progression, and they could guide experiments into mitotic CSL functions in mammals.
DOI: 10.6084/m9.figshare.3971874.v1
title: CSL protein regulates transcription of genes required to prevent catastrophic mitosis in fission yeast

description: For every eukaryotic cell to grow and divide, intricately coordinated action of numerous proteins is required to ensure proper cell-cycle progression. The fission yeast <i>Schizosaccharomyces pombe</i> has been instrumental in elucidating the fundamental principles of cell-cycle control. Mutations in <i>S. pombe</i> ‘cut’ (cell untimely torn) genes cause failed coordination between cell and nuclear division, resulting in catastrophic mitosis. Deletion of <i>cbf11</i>, a fission yeast CSL transcription factor gene, triggers a ‘cut’ phenotype, but the precise role of Cbf11 in promoting mitotic fidelity is not known. We report that Cbf11 directly activates the transcription of the acetyl-coenzyme A carboxylase gene <i>cut6</i>, and the biotin uptake/biosynthesis genes <i>vht1</i> and <i>bio2</i>, with the former 2 implicated in mitotic fidelity. Cbf11 binds to a canonical, metazoan-like CSL response element (GTGGGAA) in the <i>cut6</i> promoter. Expression of Cbf11 target genes shows apparent oscillations during the cell cycle using temperature-sensitive <i>cdc25–22</i> and <i>cdc10-M17</i> block-release experiments, but not with other synchronization methods. The penetrance of catastrophic mitosis in <i>cbf11</i> and <i>cut6</i> mutants is nutrient-dependent. We also show that drastic decrease in biotin availability arrests cell proliferation but does not cause mitotic defects. Taken together, our results raise the possibility that CSL proteins play conserved roles in regulating cell-cycle progression, and they could guide experiments into mitotic CSL functions in mammals.
DOI: 10.7910/dvn/v1rjpf/5hvbjy
title: snk20151010_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/1tc87u
title: snk20150930_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/1pvudl
title: snk20161124_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3971868.v1
title: New draft item

description: Results of bioactivity analysis of purified hGM-CSF derived from P. pastoris X33::hgmcsf and S. cerevisiae BY4742/pYES2-hgmcsf
DOI: 10.7910/dvn/v1rjpf/gecc0t
title: snk20160826_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3971868.v2
title: Data of Fig 7

description: Results of bioactivity analysis of purified hGM-CSF derived from P. pastoris X33::hgmcsf and S. cerevisiae BY4742/pYES2-hgmcsf
DOI: 10.7910/dvn/v1rjpf/mvbxn2
title: snk20150423_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/fwggaq
title: snk20160328_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/obhxld
title: snk20160401_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/2sdfxv
title: snk20150728_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3971823
title: Efficacy of poly (ADP-ribose) polymerase inhibitor olaparib against head and neck cancer cells: Predictions of drug sensitivity based on PAR–p53–NF-κB interactions

description: Poly (ADP-ribose) polymerase (PARP) is a key molecule in the DNA damage response (DDR), which is a major target of both chemotherapies and radiotherapies. PARP inhibitors therefore comprise a promising class of anticancer therapeutics. In this study, we evaluated the efficacy of the PARP inhibitor olaparib, and also sought to identify the mechanism and predictive marker associated with olaparib sensitivity in head and neck cancer (HNC) cells. A total of 15 HNC cell lines, including AMC HNC cells, were tested. AMC-HN3 and HN4 exhibited stronger responses to olaparib. Among cisplatin-resistant cell lines, only AMC HN9-cisR cells were significantly suppressed by olaparib. We found that basal poly (ADP-ribose) (PAR) levels, but not PARP-1 levels, correlated with olaparib sensitivity. AMC-HN3 and HN4 cells exhibited higher basal levels of NF-κB that decreased significantly after olaparib treatment. In contrast, apoptotic proteins were intrinsically expressed in AMC-HN9-cisR cells. As interference with p53 expression led to NF-κB reactivation, we concluded that elevated basal PAR and NF-κB levels are predictive of olaparib responsiveness in HNC cells; in addition, olaparib inhibits HNC cells via PAR–p53–NF-κB interactions.
DOI: 10.7910/dvn/v1rjpf/svvjzv
title: snk20150912_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3971823.v2
title: Efficacy of poly (ADP-ribose) polymerase inhibitor olaparib against head and neck cancer cells: Predictions of drug sensitivity based on PAR–p53–NF-κB interactions

description: Poly (ADP-ribose) polymerase (PARP) is a key molecule in the DNA damage response (DDR), which is a major target of both chemotherapies and radiotherapies. PARP inhibitors therefore comprise a promising class of anticancer therapeutics. In this study, we evaluated the efficacy of the PARP inhibitor olaparib, and also sought to identify the mechanism and predictive marker associated with olaparib sensitivity in head and neck cancer (HNC) cells. A total of 15 HNC cell lines, including AMC HNC cells, were tested. AMC-HN3 and HN4 exhibited stronger responses to olaparib. Among cisplatin-resistant cell lines, only AMC HN9-cisR cells were significantly suppressed by olaparib. We found that basal poly (ADP-ribose) (PAR) levels, but not PARP-1 levels, correlated with olaparib sensitivity. AMC-HN3 and HN4 cells exhibited higher basal levels of NF-κB that decreased significantly after olaparib treatment. In contrast, apoptotic proteins were intrinsically expressed in AMC-HN9-cisR cells. As interference with p53 expression led to NF-κB reactivation, we concluded that elevated basal PAR and NF-κB levels are predictive of olaparib responsiveness in HNC cells; in addition, olaparib inhibits HNC cells via PAR–p53–NF-κB interactions.
DOI: 10.7910/dvn/v1rjpf/agklts
title: snk20150605_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3971772
title: A Study on the Correlation between Birds in the Danby Woodlot versus Grasslands.

description: Meta Data: Time: Continuous- Time was recorded using a timer that was set to two minutes, and birds that flew over the transect within that time frame were recorded for that interval. Distance of bird from transect: Numerical and Continuous. Each member of the group estimated the approximate distance from the bird to the transect in meters, and the average measurement was recorded in meters. Total number of birds: Numerical and discrete. Only counted the birds that flew over the transect area. Methods: Transect tape was randomly placed within the grasslands of Danby woods, where the area was closely observed for birds. The transect tape was 30 meters long in length and the readings were taken in two minute intervals, recording the number of birds that flew over the transect within each interval. A total of five transects were done in the grasslands, and 5 transects in the woodlot. The grasslands were observed from 3:38pm- 3:50pm, and the woodlot was observed from 3:54pm-4:04pm. Study Site Description: This field study was conducted at the Danby Woodlot located at York University, Toronto, Ontario, Canada. 43.7735 N, 79.5019 W. The weather was 12 degrees Celsius , cloudy with a drizzle near the end. Windspeed 24km/hr E. Hypothesis: There will be a correlation between the abundance of trees and the number of birds seen because the trees provide shelter for the birds, so they will be spotted more in the woodlot versus the grasslands. Predictions: 1. 1.Birds that are seen will be flying in groups due to migration. 2. 2.More birds will be seen in the woodlot than grasslands 3. 3.Most of the birds observed will be Seagulls. <br><br>Group Members: Lanisha Thangeswaran, Niyousha Taati, Rija Ghani<br>
DOI: 10.6084/m9.figshare.3971823.v1
title: Efficacy of poly (ADP-ribose) polymerase inhibitor olaparib against head and neck cancer cells: predictions of drug sensitivity based on PAR–p53–NF-κB interactions

description: Poly (ADP-ribose) polymerase (PARP) is a key molecule in the DNA damage response (DDR), which is a major target of both chemotherapies and radiotherapies. PARP inhibitors therefore comprise a promising class of anticancer therapeutics. In this study, we evaluated the efficacy of the PARP inhibitor olaparib, and also sought to identify the mechanism and predictive marker associated with olaparib sensitivity in head and neck cancer (HNC) cells. A total of 15 HNC cell lines, including AMC HNC cells, were tested. AMC-HN3 and HN4 exhibited stronger responses to olaparib. Among cisplatin-resistant cell lines, only AMC HN9-cisR cells were significantly suppressed by olaparib. We found that basal poly (ADP-ribose) (PAR) levels, but not PARP-1 levels, correlated with olaparib sensitivity. AMC-HN3 and HN4 cells exhibited higher basal levels of NF-κB that decreased significantly after olaparib treatment. In contrast, apoptotic proteins were intrinsically expressed in AMC-HN9-cisR cells. As interference with p53 expression led to NF-κB reactivation, we concluded that elevated basal PAR and NF-κB levels are predictive of olaparib responsiveness in HNC cells; in addition, olaparib inhibits HNC cells via PAR–p53–NF-κB interactions.
DOI: 10.7910/dvn/v1rjpf/r51kso
title: snk20150105_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3971763
title: Studying the abundance and recognizable taxanomic units of insects in woodlots and grasslands of York University keele campus using pan traps

description: Hypothesis: pan traps with brighter colours attract more insects since insects see the ultra violet spectrum and brighter colours reflect more UV light.<br>prediction 1: Yellow and white pan traps will attract more insects.<br>prediction 2: Blue pan traps will attract the least amount of insects.<br>Prediction 3: the more distance between the pan traps, the greater the number of insects in each of the pan traps.<br>Meta-data: This experiment was carried out to compare the abundance and different species of insects in woodlots and grasslands and to determine which colour of pan traps attracts more insects.<br>The experiment started at 3:05 by placing 9 pan traps(equal numbers of white, blue, and yellow pan traps) in grasslands and 9 pan traps in woodlots with 2 meters of distance from each other. All 18 of the pan traps were half filled with soapy water and they were placed on the ground in a white, yellow, blue pattern. The pan traps were collected at 4:18.<br>Then the number of insects in each pan trap was counted and the number of recognizable taxanomic units were also counted to determine diversity of insects in the area.<br>Site: The experiment took place in Danby forest near York University keele campus. <br>The provided pan traps were in three different colours(white, yellow, blue).The total abundance of insects was determined by counting the insects in each pan trap.RTU which is the recognizable taxonomic unit of insects was determined based on the physical appearance of each of the insects.<br><br>
DOI: 10.6084/m9.figshare.3971772.v1
title: A Study on the Correlation between Birds in the Danby Woodlot versus Grasslands.

description: Meta Data: Time: Continuous- Time was recorded using a timer that was set to two minutes, and birds that flew over the transect within that time frame were recorded for that interval. Distance of bird from transect: Numerical and Continuous. Each member of the group estimated the approximate distance from the bird to the transect in meters, and the average measurement was recorded in meters. Total number of birds: Numerical and discrete. Only counted the birds that flew over the transect area. Methods: Transect tape was randomly placed within the grasslands of Danby woods, where the area was closely observed for birds. The transect tape was 30 meters long in length and the readings were taken in two minute intervals, recording the number of birds that flew over the transect within each interval. A total of five transects were done in the grasslands, and 5 transects in the woodlot. The grasslands were observed from 3:38pm- 3:50pm, and the woodlot was observed from 3:54pm-4:04pm. Study Site Description: This field study was conducted at the Danby Woodlot located at York University, Toronto, Ontario, Canada. 43.7735 N, 79.5019 W. The weather was 12 degrees Celsius , cloudy with a drizzle near the end. Windspeed 24km/hr E. Hypothesis: There will be a correlation between the abundance of trees and the number of birds seen because the trees provide shelter for the birds, so they will be spotted more in the woodlot versus the grasslands. Predictions: 1. 1.Birds that are seen will be flying in groups due to migration. 2. 2.More birds will be seen in the woodlot than grasslands 3. 3.Most of the birds observed will be Seagulls. <br><br>Group Members: Lanisha Thangeswaran, Niyousha Taati, Rija Ghani<br>
DOI: 10.6084/m9.figshare.3971760
title: Lab 3: A study on the amount and diversity of insects found in the York University Danby woodlot and grassland

description: Meta Data <b>Pan Trap Colour:</b> There were 18 pan traps of 3 different colours; 6 yellow, 6 white and 6 blue. The colours were placed alternately along the 10m transect line. <b>Habitat: </b>The pan traps were placed in two different habitats. Nine pan traps were placed in the Danby Woodlot. The woodlot was a small area of many trees, dirt, leaves, and twigs. Nine pan traps were also place in the Danby grassland. The grassland was an open area covered with grass and some vegetation. <b>Number of Insects:</b> The amount of insects that were caught in a pan trap after an hour and a half. This discrete variable was counted by the ecology student. <b>Different Number of Recognizable Taxonomic Units (RTUs):</b> This discrete variable was calculated by the ecology student's differentiation of insects' morphological features. <b>Methods:</b>In order to collect this dataset, 9 pan traps were placed, a metre apart, along a 10m transect line in the Danby woodlot and Danby grassland. This gave a total of 18 pan traps. The pan traps were placed in alternating colours; yellow, white and blue. The pan traps were filled with detergent, which consisted of water and soap. After 90 minutes, the total number of insects and the number of different RTUs were calculated by the ecology student. After recording the data, the detergent was discarded from the pan traps. <b>Study Site:</b> This study took place on Thursday, September 29, 2016 at York University in the Danby woodlot and grassland. It was 14 degrees Celsius, cloudy, little precipitation, and windy. <b>Hypothesis:</b> There are more insects and more RTUs in the grassland than in the woodlot due to the higher amount of resources and nutrients. The yellow pan trap will also attract more insects due to its vibrant colour. <b>Predictions:</b> 1) The abundance of insects is higher in the grasslands compared to the woodlot because of the open area and resources. 2) The amount of different RTUs is higher in the grasslands compared to the woodlot because of the open area and resources. 3) The yellow pan trap will collect more insects compared to the white and blue pan traps. <b>Group Members:</b> Shunelle Prasad, Michelle Urman, Kiana Malak Hosseini
DOI: 10.6084/m9.figshare.3971763.v1
title: Studying the abundance and recognizable taxanomic units of insects in woodlots and grasslands of York University keele campus using pan traps

description: Hypothesis: pan traps with brighter colours attract more insects since insects see the ultra violet spectrum and brighter colours reflect more UV light.<br>prediction 1: Yellow and white pan traps will attract more insects.<br>prediction 2: Blue pan traps will attract the least amount of insects.<br>Prediction 3: the more distance between the pan traps, the greater the number of insects in each of the pan traps.<br>Meta-data: This experiment was carried out to compare the abundance and different species of insects in woodlots and grasslands and to determine which colour of pan traps attracts more insects.<br>The experiment started at 3:05 by placing 9 pan traps(equal numbers of white, blue, and yellow pan traps) in grasslands and 9 pan traps in woodlots with 2 meters of distance from each other. All 18 of the pan traps were half filled with soapy water and they were placed on the ground in a white, yellow, blue pattern. The pan traps were collected at 4:18.<br>Then the number of insects in each pan trap was counted and the number of recognizable taxanomic units were also counted to determine diversity of insects in the area.<br>Site: The experiment took place in Danby forest near York University keele campus. <br>The provided pan traps were in three different colours(white, yellow, blue).The total abundance of insects was determined by counting the insects in each pan trap.RTU which is the recognizable taxonomic unit of insects was determined based on the physical appearance of each of the insects.<br><br>
DOI: 10.7910/dvn/v1rjpf/pd5vvd
title: snk20150823_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3971760.v1
title: Lab 3: A study on the amount and diversity of insects found in the York University Danby woodlot and grassland

description: Meta Data <b>Pan Trap Colour:</b> There were 18 pan traps of 3 different colours; 6 yellow, 6 white and 6 blue. The colours were placed alternately along the 10m transect line. <b>Habitat: </b>The pan traps were placed in two different habitats. Nine pan traps were placed in the Danby Woodlot. The woodlot was a small area of many trees, dirt, leaves, and twigs. Nine pan traps were also place in the Danby grassland. The grassland was an open area covered with grass and some vegetation. <b>Number of Insects:</b> The amount of insects that were caught in a pan trap after an hour and a half. This discrete variable was counted by the ecology student. <b>Different Number of Recognizable Taxonomic Units (RTUs):</b> This discrete variable was calculated by the ecology student's differentiation of insects' morphological features. <b>Methods:</b>In order to collect this dataset, 9 pan traps were placed, a metre apart, along a 10m transect line in the Danby woodlot and Danby grassland. This gave a total of 18 pan traps. The pan traps were placed in alternating colours; yellow, white and blue. The pan traps were filled with detergent, which consisted of water and soap. After 90 minutes, the total number of insects and the number of different RTUs were calculated by the ecology student. After recording the data, the detergent was discarded from the pan traps. <b>Study Site:</b> This study took place on Thursday, September 29, 2016 at York University in the Danby woodlot and grassland. It was 14 degrees Celsius, cloudy, little precipitation, and windy. <b>Hypothesis:</b> There are more insects and more RTUs in the grassland than in the woodlot due to the higher amount of resources and nutrients. The yellow pan trap will also attract more insects due to its vibrant colour. <b>Predictions:</b> 1) The abundance of insects is higher in the grasslands compared to the woodlot because of the open area and resources. 2) The amount of different RTUs is higher in the grasslands compared to the woodlot because of the open area and resources. 3) The yellow pan trap will collect more insects compared to the white and blue pan traps. <b>Group Members:</b> Shunelle Prasad, Michelle Urman, Kiana Malak Hosseini
DOI: 10.6084/m9.figshare.3971748
title: Human epicardial cells generated from pluripotent stem cells.xls

description: High-throughput screening of small molecules and proteins to identify signaling pathways that are important for human epicardial cell specification and self-renewal
DOI: 10.7910/dvn/v1rjpf/zu8cdz
title: snk20160724_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/ahak9c
title: snk20161101_03.txt.gz

description: :unav