cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.26188/5e4f43123b214
title: Maurer's cleft Data set

description: <b>Data set 1. Proteins identified by mass spectrometry of purified Maurer’s clefts</b>Excel file containing all parasite proteins detected in the Maurer’s cleft mass spectrometry experiments. <b> </b><b>Data set 2. Proteins identified in the GFP-Trap co-IPs of MAHRP1-GFP</b>Excel file containing all proteins detected in the MAHRP1-GFP and 3D7 control mass spectrometry experiments. <b> </b><b>Data set 3. Proteins identified in the GFP-Trap co-IPs of VCAP1-GFP</b>Excel file containing all proteins detected in the VCAP1-GFP and 3D7 control mass spectrometry experiments. <b> </b><b>Data set 4. Proteins identified in the GFP-Trap co-IPs of GEXP10-GFP</b>Excel file containing all proteins detected in the GEXP10-GFP and 3D7 control mass spectrometry experiments. <b> </b><b>Data set 5. Proteins identified in the GFP-Trap co-IPs of REX1-GFP</b>Excel file containing all proteins detected in the REX1-GFP and 3D7 control mass spectrometry experiments. <b> </b><b>Data set 6. Proteins identified in the GFP-Trap co-IPs of PTP5-GFP</b>Excel file containing all proteins detected in the PTP5-GFP and 3D7 control mass spectrometry experiments. <b> </b><b>Data set 7. Proteins identified in the GFP-Trap co-IPs of <i>PF</i>3D7_1353100-GFP</b>Excel file containing all proteins detected in the <i>PF</i>3D7_1353100-GFP and 3D7 control mass spectrometry experiments. <b> </b><b>Data set 8. Proteins identified in the GFP-Trap co-IPs of PTP6-GFP </b>Excel file containing all proteins detected in the PTP6-GFP and 3D7 control mass spectrometry experiments.
DOI: 10.26188/5e545ffd6799a
title: tufA alignment showing sample names

description: tufA alignment showing sample names
DOI: 10.26188/5e545ffd74709
title: tufA alignment showing regions of origin

description: tufA alignment showing regions of origin
DOI: 10.5519/0013826
title: tetstststs

description: blah
DOI: 10.7910/dvn/v1rjpf/dpzswu
title: snk20160323_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/rbvfl9
title: snk20160726_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/93q8m2
title: snk20150711_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3978090
title: Shell sorting algorithm: review and implementation example using Rcpp

description: This review resumes the most famous sorting algorithm: the shell Sort. This method starts by sorting pairs of elements far apart from each other, then progressively reducing the gap between elements to be compared.We used Rcpp to impliment the code in R and we show how the running time of Shell sort is heavily dependent on the gap sequence it use.
DOI: 10.7910/dvn/v1rjpf/ikvqi5
title: snk20150513_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/kp8d0w
title: snk20150723_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3978081
title: DS054

description: Downsampled and compressed DS054 data
DOI: 10.7910/dvn/v1rjpf/jmbdnx
title: snk20160905_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3978078
title: DS005

description: compressed and downsampled DS005 data
DOI: 10.7910/dvn/v1rjpf/oagd1r
title: snk20150615_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3978078.v1
title: DS005

description: compressed and downsampled DS005 data
DOI: 10.6084/m9.figshare.3978081.v1
title: DS054

description: Downsampled and compressed DS054 data
DOI: 10.7910/dvn/v1rjpf/8vviw1
title: snk20150603_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/rqcdxc
title: snk20150419_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3978069
title: PONE-D-16-31535R1 DATA SET.pptx

description: <b>Morin flavonoid adsorbed on mesoporous silica, </b> <b>a novel antioxidant nanomaterial</b>
DOI: 10.7910/dvn/v1rjpf/tirt9g
title: snk20150401_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3978069.v1
title: PONE-D-16-31535R1 DATA SET.pptx

description: <b>Morin flavonoid adsorbed on mesoporous silica, </b> <b>a novel antioxidant nanomaterial</b>
DOI: 10.7910/dvn/v1rjpf/tvvlbt
title: snk20160626_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3978015
title: Raw data_Investigating emotional contagion in dog.xlsx

description: We conducted a playback study with dogs to investigate canine empathy. We tested 53 dogs and played back non-emotional sounds of the dogs' environment and contrasted these sounds with emotional sounds of humans and conspecifics. These emotional sounds contained a negatively and a positively valenced sound each. We measured the duration the subjects looked to their owners and whether they approached her or him. We also measured the duration the dogs looked to the loudspeaker that played back the stimulus and whether the dog approached it. We, furthermore, analysed ten behavioural indicators for negatively valenced states in dogs which we pooled together to develop an overall Relative Reactivity Score.
DOI: 10.7910/dvn/v1rjpf/w6qsb0
title: snk20150119_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/uzlj23
title: snk20160415_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3976761
title: A brush-polymer/exendin-4 conjugate reduces blood glucose levels for up to five days and eliminates poly(ethylene glycol) antigenicity

description: This file contains raw data that support the findings reported in Qi et. al. article titled "A brush-polymer/exendin-4 conjugate reduces blood glucose levels for up to five days and eliminates poly(ethylene glycol) antigenicity" published in Vol.1 of Nat. Biomed. Eng., 2017, doi:10.1038/s41551-016-002.<br>See full length paper here: http://www.nature.com/articles/s41551-016-0002
DOI: 10.7910/dvn/v1rjpf/tlhfbz
title: snk20151106_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3976761.v1
title: Qi et. al. raw data

description: This file contains raw data that support the findings reported in Qi et. al. article titled "A brush-polymer/exendin-4 conjugate reduces blood glucose levels for up to five days and eliminates poly(ethylene glycol) antigenicity" published in Vol.1 of Nat. Biomed. Eng., 2017, doi:10.1038/s41551-016-002.<br>See full length paper here: http://www.nature.com/articles/s41551-016-0002
DOI: 10.7910/dvn/v1rjpf/mwgys4
title: snk20151216_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/iggm3j
title: snk20160629_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3976761.v2
title: Qi et. al. "A brush-polymer/exendin-4 conjugate reduces blood glucose levels for up to five days and eliminates poly(ethylene glycol) antigenicity" raw data

description: This file contains raw data that support the findings reported in Qi et. al. article titled "A brush-polymer/exendin-4 conjugate reduces blood glucose levels for up to five days and eliminates poly(ethylene glycol) antigenicity" published in Vol.1 of Nat. Biomed. Eng., 2017, doi:10.1038/s41551-016-002.<br>See full length paper here: http://www.nature.com/articles/s41551-016-0002
DOI: 10.6084/m9.figshare.3976761.v4
title: A brush-polymer/exendin-4 conjugate reduces blood glucose levels for up to five days and eliminates poly(ethylene glycol) antigenicity

description: This file contains raw data that support the findings reported in Qi et. al. article titled "A brush-polymer/exendin-4 conjugate reduces blood glucose levels for up to five days and eliminates poly(ethylene glycol) antigenicity" published in Vol.1 of Nat. Biomed. Eng., 2017, doi:10.1038/s41551-016-002.<br>See full length paper here: http://www.nature.com/articles/s41551-016-0002
DOI: 10.7910/dvn/v1rjpf/3ojplf
title: snk20151117_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3976761.v3
title: A brush-polymer/exendin-4 conjugate reduces blood glucose levels for up to five days and eliminates poly(ethylene glycol) antigenicity

description: This file contains raw data that support the findings reported in Qi et. al. article titled "A brush-polymer/exendin-4 conjugate reduces blood glucose levels for up to five days and eliminates poly(ethylene glycol) antigenicity" published in Vol.1 of Nat. Biomed. Eng., 2017, doi:10.1038/s41551-016-002.<br>See full length paper here: http://www.nature.com/articles/s41551-016-0002
DOI: 10.7910/dvn/v1rjpf/05dhp5
title: snk20150731_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/oamgmw
title: snk20160604_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/3udi0v
title: snk20160609_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/ahwfux
title: snk20160203_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3976605
title: Dataset for: A novel diffusion-tensor MRI approach for skeletal muscle fascicle length measurements.

description: Introduction: Musculoskeletal (dys-)function relies for a large part on muscle architecture which can be obtained using Diffusion Tensor MRI (DT-MRI) and fiber tractography. However, reconstructed tracts often continue along the tendon or aponeurosis when using conventional methods, thus overestimating fascicle lengths. In this study we propose a new method for semi-automatic segmentation of tendinous tissue using tract density (TD). We investigated the feasibility and repeatability of this method to quantify the mean fascicle length per muscle. Additionally, we examined whether the method facilitates measuring changes in fascicle length of lower leg muscles with different foot positions. Methods: Five healthy subjects underwent two DT-MRI scans of the right lower leg, with the foot in 15° dorsiflexion, neutral, and 30° plantarflexion positions. Repeatability of fascicle length measurements was assessed using Bland-Altman analysis. Changes in fascicle lengths between the foot positions were tested using a repeated multivariate analysis of variance (MANOVA). Results: Bland-Altman analysis showed good agreement between repeated measurements. The coefficients of variation in neutral position were 8.3%, 16.7%, 11.2% and 10.4% for Soleus (SOL), Fibularis Longus (FL), Extensor Digitorum Longus (EDL) and Tibialis Anterior (TA), respectively. The plantarflexors (SOL and FL) showed significant increase in fascicle length from plantarflexion to dorsiflexion whereas the dorsiflexors (EDL and TA) exhibited a significant decrease. Conclusions: The use of a tract density for semi-automatic segmentation of tendinous structures provides more accurate estimates of the mean fascicle length than traditional fiber tractography methods. The method shows moderate to good repeatability and allows for quantification of changes in fascicle lengths due to passive stretch.
DOI: 10.6084/m9.figshare.3976605.v1
title: Dataset for: A novel diffusion-tensor MRI approach for skeletal muscle fascicle length measurements.

description: Introduction: Musculoskeletal (dys-)function relies for a large part on muscle architecture which can be obtained using Diffusion Tensor MRI (DT-MRI) and fiber tractography. However, reconstructed tracts often continue along the tendon or aponeurosis when using conventional methods, thus overestimating fascicle lengths. In this study we propose a new method for semi-automatic segmentation of tendinous tissue using tract density (TD). We investigated the feasibility and repeatability of this method to quantify the mean fascicle length per muscle. Additionally, we examined whether the method facilitates measuring changes in fascicle length of lower leg muscles with different foot positions. Methods: Five healthy subjects underwent two DT-MRI scans of the right lower leg, with the foot in 15° dorsiflexion, neutral, and 30° plantarflexion positions. Repeatability of fascicle length measurements was assessed using Bland-Altman analysis. Changes in fascicle lengths between the foot positions were tested using a repeated multivariate analysis of variance (MANOVA). Results: Bland-Altman analysis showed good agreement between repeated measurements. The coefficients of variation in neutral position were 8.3%, 16.7%, 11.2% and 10.4% for Soleus (SOL), Fibularis Longus (FL), Extensor Digitorum Longus (EDL) and Tibialis Anterior (TA), respectively. The plantarflexors (SOL and FL) showed significant increase in fascicle length from plantarflexion to dorsiflexion whereas the dorsiflexors (EDL and TA) exhibited a significant decrease. Conclusions: The use of a tract density for semi-automatic segmentation of tendinous structures provides more accurate estimates of the mean fascicle length than traditional fiber tractography methods. The method shows moderate to good repeatability and allows for quantification of changes in fascicle lengths due to passive stretch.
DOI: 10.7910/dvn/v1rjpf/7mzlyv
title: snk20150509_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3976599
title: SMARA_SeedlingData.xlsx

description: We examined seedling survival and net growth for three years in contrasting canopy type (closed canopy vs. gap) and neighbor density (clipped versus unclipped) environments for northern, central and southern populations of sugar maple (<i>Acer saccharum</i>) representing a climate-of-origin gradient, experimentally planted from Arkansas, USA to Ontario, Canada at ten forested sites along a 1,700 km transect spanning beyond the species’ range.
DOI: 10.6084/m9.figshare.3976599.v1
title: SMARA_SeedlingData.xlsx

description: We examined seedling survival and net growth for three years in contrasting canopy type (closed canopy vs. gap) and neighbor density (clipped versus unclipped) environments for northern, central and southern populations of sugar maple (<i>Acer saccharum</i>) representing a climate-of-origin gradient, experimentally planted from Arkansas, USA to Ontario, Canada at ten forested sites along a 1,700 km transect spanning beyond the species’ range.
DOI: 10.7910/dvn/v1rjpf/juzv7v
title: snk20150111_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/h7b0k1
title: snk20160608_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/v0wdaj
title: snk20160628_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/b2gjin
title: snk20160606_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3976521
title: Portal Rodent Trapping Forecasts on September 30, 2016

description: This is a forecast made for the upcoming September 30 - October 2 rodent trapping at the long-term Portal research site in southern Arizona. Three models were used to achieve forecasts with 90% prediction intervals. Forecasts are for the site as a whole (total means across all plots, all treatment types).<br>Two naive models using the defaults in the forecast package in R were used to create forecasts for the total granivore captures (species="Total") over the next 12 trapping periods, the first being tomorrow.<br>The "Forecast" modelforecast(abundances$total,h=12,level=0.95,BoxCox.lambda(0),allow.multiplicative.trend=T)<br>The "AutoArima" modelforecast(auto.arima(abundances$total,lambda = 0),h=12,level=0.95,fan=T)<br>Species-level predictions, as well as another total captures prediction, were made using the tscount package in R.<br>The "NegBinom Time Series" model, by species (species codes are the first letter of the genus and species)<br>model=tsglm(abundances[[s]],model=list(past_obs=1,past_mean=11),distr="nbinom")<br>predict(model,12,level=0.9)
DOI: 10.7910/dvn/v1rjpf/rna3hx
title: snk20161024_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3976587.v3
title: Distance-based, online Bioinformatics training in Africa - the H3ABioNet experience.pdf

description: Presented at the ECCB2016, den Haag, NL, Sept 2016<br><br>Africa is not unique in its need for basic bioinformatics training for individuals from a molecular biology background. However, unique logistical challenges in Africa, most notably access to bioinformatics expertise and internet stability, must be addressed in order to meet this need on the continent. H3ABioNet (www.h3abionet.org), the Pan African Bioinformatics Network for H3Africa, has therefore developed an innovative, free Introduction to bioinformatics course taking these challenges into account. A distance-based learning model has been selected for this 3 month course (July-September 2016) to increase access to expert African and European Bioinformatics trainers covering several bioinformatics topics, including: databases and resources; genomics; Linux; sequence alignment; and phylogenetics. <br><br>Classrooms with a total of &gt;350 participants are hosted at 20 institutions, across 11 African countries, in order to provide local administrative and academic support. Classroom selection was based on certain infrastructure criteria, including: computer resources; Internet access; and availability of local teaching assistants. Although lectures are delivered live to remote sites via an online platform, to ensure that classroom success does not rely on stable Internet, classrooms can watch pre-recorded and pre-downloaded lecture videos, as well as work through practical assignments on the lecture content, during biweekly contact sessions. Lecture recordings are available on the course website http://training.h3abionet.org/IBT_2016/. While trainers are available via video conferencing to take questions during contact sessions, online ‘question and discussion’ forums, hosted on the course management platform, are also available. This distance based model, developed for a resource limited setting, could easily be adapted to other settings.<br><br>
DOI: 10.7910/dvn/v1rjpf/umkybi
title: snk20160217_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/mth1vp
title: snk20160226_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/2ttypo
title: snk20150311_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3976407
title: Alarmins and Clinical Outcomes After Major Abdominal Surgery—A Prospective Study

description: <i>Purpose</i>: Tissue injury causing immune response is an integral part of surgical procedure. Evaluation of the degree of surgical trauma could help to improve postoperative management and determine the clinical outcomes. <i>Materials and Methods</i>: We analyzed serum levels of alarmins, including S100A5, S100A6, S100A8, S100A9, S100A11, and S100A12; high-mobility group box 1; and heat-shock protein 70, after elective major abdominal surgery (<i>n</i> = 82). Blood samples were collected for three consecutive days after surgery. The goals were to evaluate the relationships among the serum levels of alarmins and selected surgical characteristics and to test potential of alarmins to predict the clinical outcomes. <i>Results</i>: Significant, positive correlations were found for high-mobility group box 1 with the length of surgery, blood loss, and intraoperative fluid intake for all three days of blood sampling. The protein S100A8 serum levels showed positive correlations with intensive care unit length of stay, 28-day and in-hospital mortality. The protein S100A12 serum levels had significant, positive correlations with intensive care unit length of stay, 28-day mortality, and in-hospital mortality. We did not find significant differences in alarmin levels between cancer and noncancer subjects. <i>Conclusion</i>: The high-mobility group box 1 serum levels reflect the degree of surgical injury, whereas proteins S100A8 and S100A12 might be considered good predictors of major abdominal surgery morbidity and mortality.
DOI: 10.6084/m9.figshare.3976407.v1
title: Alarmins and Clinical Outcomes After Major Abdominal Surgery—A Prospective Study

description: <i>Purpose</i>: Tissue injury causing immune response is an integral part of surgical procedure. Evaluation of the degree of surgical trauma could help to improve postoperative management and determine the clinical outcomes. <i>Materials and Methods</i>: We analyzed serum levels of alarmins, including S100A5, S100A6, S100A8, S100A9, S100A11, and S100A12; high-mobility group box 1; and heat-shock protein 70, after elective major abdominal surgery (<i>n</i> = 82). Blood samples were collected for three consecutive days after surgery. The goals were to evaluate the relationships among the serum levels of alarmins and selected surgical characteristics and to test potential of alarmins to predict the clinical outcomes. <i>Results</i>: Significant, positive correlations were found for high-mobility group box 1 with the length of surgery, blood loss, and intraoperative fluid intake for all three days of blood sampling. The protein S100A8 serum levels showed positive correlations with intensive care unit length of stay, 28-day and in-hospital mortality. The protein S100A12 serum levels had significant, positive correlations with intensive care unit length of stay, 28-day mortality, and in-hospital mortality. We did not find significant differences in alarmin levels between cancer and noncancer subjects. <i>Conclusion</i>: The high-mobility group box 1 serum levels reflect the degree of surgical injury, whereas proteins S100A8 and S100A12 might be considered good predictors of major abdominal surgery morbidity and mortality.
DOI: 10.7910/dvn/v1rjpf/0c0tqj
title: snk20150527_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/mhphhf
title: snk20150830_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/j1eypo
title: snk20160223_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/ynjmiu
title: snk20160308_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/krrayx
title: snk20150818_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/k08hk9
title: snk20160101_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3976371
title: The Turing Bombe <i>Victory</i> and the first naval Enigma decrypts

description: <i>Victory</i> was the name of the first prototype Bombe that was developed for breaking the German Enigma messages of World War II. It lacked the diagonal board and simultaneous scanning that was provided for all the later models, but these disadvantages were overcome by the ingenious use of a column menu (a special Bombe menu where the Enigma fast rotors are all in the same position) to break six days of naval traffic, 22–27 April 1940, following the pinch of material from an armed trawler <i>Schiff 26</i> (<i>Polares</i>). These were the first naval decrypts of the War, and their solution took several months to complete. No further naval breaks occurred until November. This article examines the decryption process in some detail in order to explain the difficulties, highlight the role of <i>Victory</i> in this process, and provide detailed workings of the processes. It also sheds some light on the early development of the British Bombe.
DOI: 10.7910/dvn/v1rjpf/4nlafo
title: snk20160622_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3976371.v1
title: The Turing Bombe <i>Victory</i> and the first naval Enigma decrypts

description: <i>Victory</i> was the name of the first prototype Bombe that was developed for breaking the German Enigma messages of World War II. It lacked the diagonal board and simultaneous scanning that was provided for all the later models, but these disadvantages were overcome by the ingenious use of a column menu (a special Bombe menu where the Enigma fast rotors are all in the same position) to break six days of naval traffic, 22–27 April 1940, following the pinch of material from an armed trawler <i>Schiff 26</i> (<i>Polares</i>). These were the first naval decrypts of the War, and their solution took several months to complete. No further naval breaks occurred until November. This article examines the decryption process in some detail in order to explain the difficulties, highlight the role of <i>Victory</i> in this process, and provide detailed workings of the processes. It also sheds some light on the early development of the British Bombe.
DOI: 10.7910/dvn/v1rjpf/5jzodn
title: snk20161207_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.3973734
title: portada-garcía-sevilla.pdf

description: documento complementario artículo comunicar
DOI: 10.6084/m9.figshare.3976275
title: 110 cases unstented cases

description: 110 cases unstented cases
DOI: 10.6084/m9.figshare.3973734.v1
title: portada-garcía-sevilla.pdf

description: documento complementario artículo comunicar
DOI: 10.6084/m9.figshare.3976275.v1
title: 110 cases unstented cases

description: 110 cases unstented cases
DOI: 10.7910/dvn/v1rjpf/1clfcb
title: snk20161111_03.txt.gz

description: :unav