cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.2220541
title: Effects of heap-bioleaching plant on physicochemical index and microbial community of the nearby river

description: The Zijinshan heap-bioleaching plant started the operation by the end of 2005, since a river named Ting River near the heap-bioleaching system, there was raising concern about the acidophiles and metal ion migration into this river. In this research, 72 liquid samples and 9 ore heap samples were collected, the distribution of acidophiles in Ting River were investigated by clone libraries, two key acidophiles included genus <i>Acidithiobacillus</i>, <i>Leptospirillum</i> were assayed by real-time polymerase chain reaction, and physicochemical characteristics of the samples were analyzed. The clone libraries results showed that 1291 OTUs were got from 3669 sequences, and these 1291 OTUs belonged to 16 phyla and 166 genera. There was more community structure similar between the samples of 2012 year and 2013 year. The detected bioleaching microorganisms emerged the obvious changing trend of increasing in the period 2009 to 2012, and emerged the decreasing trend in the period 2012 to 2013 on whole. During the period 2009 to 2013, the dissolved copper emerged the decreasing trend, but the dissolved iron emerged the increased trend on the whole. The changes trend of dissolved copper and iron did not relate with the bioleaching microbes.<br>
DOI: 10.6084/m9.figshare.2229988.v1
title: 7T TRT - Brain masks

description: Brain mask derived from structural (T1) images using CBSTools (https://www.nitrc.org/projects/cbs-tools/) SPECTRE 2010 tool. Code available here: https://github.com/nipy/nipype/blob/0.11.0/examples/smri_cbs_skullstripping.py<br>WARNING: some masks will require manual corrections.<br>Raw dataset described in http://www.nature.com/articles/sdata201454
DOI: 10.6084/m9.figshare.2885308.v293
title: UNH-RVAT 3-D SST RANS simulation results

description: Results from simulating the UNH-RVAT cross-flow turbine in three dimensions using the k-omega SST RANS model in OpenFOAM 2.3.x (590d57f32fed). See the link below for case files and download instructions.
DOI: 10.6084/m9.figshare.2220541.v1
title: Effects of heap-bioleaching plant on physicochemical index and microbial community of the nearby river

description: The Zijinshan heap-bioleaching plant started the operation by the end of 2005, since a river named Ting River near the heap-bioleaching system, there was raising concern about the acidophiles and metal ion migration into this river. In this research, 72 liquid samples and 9 ore heap samples were collected, the distribution of acidophiles in Ting River were investigated by clone libraries, two key acidophiles included genus <i>Acidithiobacillus</i>, <i>Leptospirillum</i> were assayed by real-time polymerase chain reaction, and physicochemical characteristics of the samples were analyzed. The clone libraries results showed that 1291 OTUs were got from 3669 sequences, and these 1291 OTUs belonged to 16 phyla and 166 genera. There was more community structure similar between the samples of 2012 year and 2013 year. The detected bioleaching microorganisms emerged the obvious changing trend of increasing in the period 2009 to 2012, and emerged the decreasing trend in the period 2012 to 2013 on whole. During the period 2009 to 2013, the dissolved copper emerged the decreasing trend, but the dissolved iron emerged the increased trend on the whole. The changes trend of dissolved copper and iron did not relate with the bioleaching microbes.<br>
DOI: 10.6084/m9.figshare.2951263.v302
title: UNH-RVAT 3-D Spalart--Allmaras RANS simulation results

description: Results from simulating the UNH-RVAT cross-flow turbine in three dimensions with the Spalart--Allmaras RANS model in OpenFOAM 2.3.x (590d57f32fed). See link below for case files (note: use the `SpalartAllmaras` branch), which include a script for downloading and extracting, as well as scripts for post-processing.
DOI: 10.6084/m9.figshare.2220517
title: Feasibility of quantifying arterial cerebral blood volume using multiphase alternate ascending/descending directional navigation (ALADDIN)

description: In this study, we evaluated the feasibility of a new 2D inter-slice bSSFP-based arterial spin labeling (ASL) technique termed, alternate ascending/descending directional navigation (ALADDIN), to quantify aCBV using multiphase acquisition in six healthy subjects. As a result of fitting to the proposed model, aCBV values in gray matter were in good agreement with those from literature.
DOI: 10.6084/m9.figshare.2885308.v294
title: UNH-RVAT 3-D SST RANS simulation results

description: Results from simulating the UNH-RVAT cross-flow turbine in three dimensions using the k-omega SST RANS model in OpenFOAM 2.3.x (590d57f32fed). See the link below for case files and download instructions.
DOI: 10.6084/m9.figshare.2220517.v1
title: Feasibility of quantifying arterial cerebral blood volume using multiphase alternate ascending/descending directional navigation (ALADDIN)

description: In this study, we evaluated the feasibility of a new 2D inter-slice bSSFP-based arterial spin labeling (ASL) technique termed, alternate ascending/descending directional navigation (ALADDIN), to quantify aCBV using multiphase acquisition in six healthy subjects. As a result of fitting to the proposed model, aCBV values in gray matter were in good agreement with those from literature.
DOI: 10.6084/m9.figshare.2951263.v303
title: UNH-RVAT 3-D Spalart--Allmaras RANS simulation results

description: Results from simulating the UNH-RVAT cross-flow turbine in three dimensions with the Spalart--Allmaras RANS model in OpenFOAM 2.3.x (590d57f32fed). See link below for case files (note: use the `SpalartAllmaras` branch), which include a script for downloading and extracting, as well as scripts for post-processing.
DOI: 10.6084/m9.figshare.2885308.v295
title: UNH-RVAT 3-D SST RANS simulation results

description: Results from simulating the UNH-RVAT cross-flow turbine in three dimensions using the k-omega SST RANS model in OpenFOAM 2.3.x (590d57f32fed). See the link below for case files and download instructions.
DOI: 10.6084/m9.figshare.2885308.v296
title: UNH-RVAT 3-D SST RANS simulation results

description: Results from simulating the UNH-RVAT cross-flow turbine in three dimensions using the k-omega SST RANS model in OpenFOAM 2.3.x (590d57f32fed). See the link below for case files and download instructions.
DOI: 10.6084/m9.figshare.2951263.v304
title: UNH-RVAT 3-D Spalart--Allmaras RANS simulation results

description: Results from simulating the UNH-RVAT cross-flow turbine in three dimensions with the Spalart--Allmaras RANS model in OpenFOAM 2.3.x (590d57f32fed). See link below for case files (note: use the `SpalartAllmaras` branch), which include a script for downloading and extracting, as well as scripts for post-processing.
DOI: 10.6084/m9.figshare.2951263.v305
title: UNH-RVAT 3-D Spalart--Allmaras RANS simulation results

description: Results from simulating the UNH-RVAT cross-flow turbine in three dimensions with the Spalart--Allmaras RANS model in OpenFOAM 2.3.x (590d57f32fed). See link below for case files (note: use the `SpalartAllmaras` branch), which include a script for downloading and extracting, as well as scripts for post-processing.
DOI: 10.6084/m9.figshare.2885308.v297
title: UNH-RVAT 3-D SST RANS simulation results

description: Results from simulating the UNH-RVAT cross-flow turbine in three dimensions using the k-omega SST RANS model in OpenFOAM 2.3.x (590d57f32fed). See the link below for case files and download instructions.
DOI: 10.6084/m9.figshare.2885308.v298
title: UNH-RVAT 3-D SST RANS simulation results

description: Results from simulating the UNH-RVAT cross-flow turbine in three dimensions using the k-omega SST RANS model in OpenFOAM 2.3.x (590d57f32fed). See the link below for case files and download instructions.
DOI: 10.6084/m9.figshare.2951263.v306
title: UNH-RVAT 3-D Spalart--Allmaras RANS simulation results

description: Results from simulating the UNH-RVAT cross-flow turbine in three dimensions with the Spalart--Allmaras RANS model in OpenFOAM 2.3.x (590d57f32fed). See link below for case files (note: use the `SpalartAllmaras` branch), which include a script for downloading and extracting, as well as scripts for post-processing.
DOI: 10.14469/hpc/516
title: IRC_A_TS_1 (Zsilylenol ether) (IRC)

description: Gaussian Calculation
DOI: 10.14469/hpc/517
title: IRC_A_isoTS_1 (Esilylenol ether) (IRC)

description: Gaussian Calculation
DOI: 10.14469/hpc/518
title: IRC_C_TS_1 (Zsilylenol ether) (IRC)

description: Gaussian Calculation
DOI: 10.14469/hpc/519
title: IRC_C_isoTS_1 (Esilylenol ether) (IRC)

description: Gaussian Calculation
DOI: 10.5281/zenodo.51363
title: Dataset For Boersma & Pyenson 2016 Peerj

description: DICOM files, from CT scan of type specimen (USNM 214830). The holotype was scanned using Nikon Metrology's combined 225/450kV microfocus X-ray and computed tomography (CT) walk-in vault system at Chesapeake Testing in Belcamp, Maryland, U.S.A. CT slices were collected at 0.63 mm.
DOI: 10.14469/hpc/520
title: IRC_isoB_1 (Esilylenol ether) (IRC)

description: Gaussian Calculation
DOI: 10.15468/8r2hsy
title: Sponges associated with octocorals in the Indo-Pacific, with the description of four new species

description: This dataset contains the digitized treatments in Plazi based on the original journal article Calcinai, Barbara, Bavestrello, Giorgio, Bertolino, Marco, Pica, Daniela, Wagner, Daniel, Cerrano, Carlo (2013): Sponges associated with octocorals in the Indo-Pacific, with the description of four new species. Zootaxa 3617 (1): 1-61, DOI: 10.11646/zootaxa.3617.1.1
DOI: 10.14469/hpc/521
title: IM2a_3 (pre optimisation for ts) (opt)

description: Gaussian Calculation
DOI: 10.14469/hpc/522
title: IM2b_3 (pre optimisation for ts) (opt)

description: Gaussian Calculation
DOI: 10.15468/87o9xv
title: New species of Terebellides (Polychaeta: Trichobranchidae) from the deep Southern Ocean, with a key to all described species

description: This dataset contains the digitized treatments in Plazi based on the original journal article Schüller, Myriam, Hutchings, Pat (2013): New species of Terebellides (Polychaeta: Trichobranchidae) from the deep Southern Ocean, with a key to all described species. Zootaxa 3619: 1-45, DOI: http://dx.doi.org/10.11646/zootaxa.3619.1.1
DOI: 10.15468/hbeqif
title: Review of the Blastobasinae of Costa Rica (Lepidoptera: Gelechioidea: Blastobasidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Adamski, David (2013): Review of the Blastobasinae of Costa Rica (Lepidoptera: Gelechioidea: Blastobasidae). Zootaxa 3618 (1): 1-223, DOI: http://dx.doi.org/10.11646/zootaxa.3618.1.1
DOI: 10.15468/rjoojr
title: Enderleina khazeni n. sp. (Plecoptera, Perlidae), a new stonefly from Venezuelan Guayana

description: This dataset contains the digitized treatments in Plazi based on the original journal article Derka, Tomáš, Figueroa, J. Manuel Tierno De (2013): Enderleina khazeni n. sp. (Plecoptera, Perlidae), a new stonefly from Venezuelan Guayana. Zootaxa 3619 (1): 75-78, DOI: http://dx.doi.org/10.11646/zootaxa.3619.1.5
DOI: 10.17036/6253d583-445e-4a41-8d92-6519cb2923cd
title: Pore confinement effects and stabilization of carbon nitride oligomers in macroporous silica for photocatalytic hydrogen production

description: The underlying data for the publication "Pore confinement effects and stabilization of carbon nitride oligomers in macroporous silica for photocatalytic hydrogen production"
DOI: 10.15468/kqrqnq
title: A new species of Cylindrostethus Mayr (Hemiptera, Gerromorpha, Gerridae) for the Neotropical Region, with an identification key for the species of Group 1 sensu Drake 1952

description: This dataset contains the digitized treatments in Plazi based on the original journal article Floriano, Carla Fernanda Burguez, Cavichioli, Rodney Ramiro (2013): A new species of Cylindrostethus Mayr (Hemiptera, Gerromorpha, Gerridae) for the Neotropical Region, with an identification key for the species of Group 1 sensu Drake 1952. Zootaxa 3702 (2): 187-192, DOI: http://dx.doi.org/10.11646/zootaxa.3702.2.7
DOI: 10.15468/0czsto
title: Four new species of Mesomyzostoma (Myzostomida: Annelida)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Greg W. Rousea, Deborah Lanterbecq, Mindi M. Summersa, Igor Eeckhaut (2016): Four new species of Mesomyzostoma (Myzostomida: Annelida). Journal Of Natural History 50 (1): 1-23, DOI: 10.1080/00222933.2015.1056266
DOI: 10.15468/34fm6z
title: Review of the Balkan Isophya (Orthoptera: Phaneropteridae) with particular emphasis on the Isophya modesta group and remarks on the systematics of the genus based on morphological and acoustic data

description: This dataset contains the digitized treatments in Plazi based on the original journal article Dragan P. Chobanov, Beata Grzywacz, Ionuţ Ş. Iorgu, Battal Cιplak, Maya B. Ilieva, Elżbieta Warchałowska-Śliwa (2013): Review of the Balkan Isophya (Orthoptera: Phaneropteridae) with particular emphasis on the Isophya modesta group and remarks on the systematics of the genus based on morphological and acoustic data. Zootaxa 3658 (1): 1-81, DOI: http://dx.doi.org/10.11646/zootaxa.3658.1.1
DOI: 10.15468/vjnlcq
title: Chaetotaxy of first-instar Campylothorax sabanus (Wray), and description of three new Campylothorax species from Hispaniola (Collembola, Paronellidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Felipe N. Soto-Adames (2016): Chaetotaxy of first-instar Campylothorax sabanus (Wray), and description of three new Campylothorax species from Hispaniola (Collembola, Paronellidae). Journal of Natural History 50 (25): 1583-1612, DOI: 10.1080/00222933.2016.1145272
DOI: 10.5281/zenodo.51638
title: Combat Tb Tuberculosis Genome Annotation Database

description: A Neo4j (version 2.3.3) format graph database containing annotation related to the M. tuberculosis H37Rv genome, created as part of the COMBAT TB project at the South African National Bioinformatics Institute.
DOI: 10.17632/9x4vd92rcj.1
title: Benchmark sets for variants of the Capacitated Arc Routing Problem under Time Restrictions with Intermediate Facilities

description: The dataset contains 5 benchmark test sets for the Mixed Capacitated Arc Routing Problem under Time Restrictions with Intermediate Facilities (MCARPTIF), which is a generalisation of the Capacitated Arc Routing Problem. The problem closely represents waste collection routing and caters for mixed road networks and vehicles unloading their waste at Intermediate Facilities. The dataset also contains 5 CARPTIF sets with undirected networks that only have two-way streets. The benchmark instance files of each set was compressed into a single .zip file, available for download below. Each instance file is a raw .txt file. The format of each file is given by the MCAPRTIF_benchmark_format.pdf file, also available below. Full descriptions of the benchmark sets is given by Willemse, E. J. and Joubert, J. W. (2016a). The sets are also extensively described and used by Willemse (2016). The Cen-IF-Full, Cen-IF, Cen-IF-part and Act-IF sets are based on real road networks requiring waste collection services. The Lpr-IF and mval-IF sets were derived from the sets available from http://www.uv.es/belengue/mcarp/. The bccm-IF, bccm-IF-3L, gdb-IF, and gdb-IF-3L sets were derived from sets available from http://www.uv.es/belengue/carp.html. The Cen-IF and Lpr-IF instances were first used by Willemse & Joubert (2016c). All the other sets, except for Cen-IF-Full and Cen-IF-part, were used by Willemse & Joubert (2016b). For the Cen-Full-IF, Cen-IF, Cen-Part-IF, Act-IF and Lpr-IF instances, cost data are given in seconds, and demand data in killograms. The units for the other benchmark instances are not known. References: Willemse, E. J. (2016). Heuristics for large-scale Capacitated Arc Routing Problems on mixed networks. PhD thesis, University of Pretoria, Pretoria, South Africa. Online companion available at http://ejwillemse.github.io/phd/ Willemse, E. J. and Joubert, J. W. (2016a). Benchmark sets for undirected and Mixed Capacitated Arc Routing Problems under Time Restrictions with Intermediate Facilities. Submitted to Data in Brief. Available online from http://ejwillemse.github.io/057/ Willemse, E. J. and Joubert, J. W. (2016b). Constructive heuristics for the mixed capacity arc routing problem under time restrictions with intermediate facilities. Computers & Operations Research, 68:30–62. Online companion available at http://ejwillemse.github.io/023/ Willemse, E. J. and Joubert, J. W. (2016c). Splitting procedures for the Mixed Capacitated Arc Routing Problem under Time Restrictions with Intermediate Facilities. Submitted to Operations Research Letters. Available online from http://ejwillemse.github.io/045/
DOI: 10.5281/zenodo.51705
title: Apricot-1.0 Files Required For Tutorial And Demonstration

description: This folder contains the basic files required to run the APRICOT pipeline for tutorial and demonstration purpose.

APRICOT is a computational pipeline for the identification of specific functional classes of interest in large protein sets. The pipeline uses efficient sequence-based algorithms and predictive models like signature motifs of protein families for the characterization of user-provided query proteins with specific functional features. The dynamic framework of APRICOT allows the identification of unexplored functional classes of interest in the large protein sets or the entire proteome.

The step-by-step tutorial that requires this dataset is available at: https://github.com/malvikasharan/APRICOT/blob/master/APRICOT_tutorial.md

The source codes of APRICOT are available via git https://github.com/malvikasharan/APRICOT and pip https://pypi.python.org/pypi/bio-apricot.
DOI: 10.17632/fypc7g44xc.1
title: Bubble Measure Database

description: Database of bubble measure observations as reported in the literature sparked by Smith, Vernon Lomax; Suchanek, Gerry L.; Williams, Arlington W. (1988): Bubbles, Crashes, and Endogenous Expectations in Experimental Spot Asset Markets. In: Econometrica 56 (5), S. 1119–1151. The companion paper to this database is Palan, Stefan (2013): A Review of Research into Smith, Suchanek and Williams Markets. Karl-Franzens-University Graz. Graz (Working Paper Series of the Faculty of Social and Economics Sciences, Karl-Franzens-University Graz, 2013-04).
DOI: 10.17632/fypc7g44xc.2
title: Bubble Measure Database

description: Database of bubble measure observations as reported in the literature sparked by Smith, Vernon Lomax; Suchanek, Gerry L.; Williams, Arlington W. (1988): Bubbles, Crashes, and Endogenous Expectations in Experimental Spot Asset Markets. In: Econometrica 56 (5), S. 1119–1151. The companion paper to this database is Palan, Stefan (2013): A Review of Research into Smith, Suchanek and Williams Markets. Karl-Franzens-University Graz. Graz (Working Paper Series of the Faculty of Social and Economics Sciences, Karl-Franzens-University Graz, 2013-04).
DOI: 10.17632/fypc7g44xc.3
title: Bubble Measure Database

description: Database of bubble measure observations as reported in the literature sparked by Smith, Vernon Lomax; Suchanek, Gerry L.; Williams, Arlington W. (1988): Bubbles, Crashes, and Endogenous Expectations in Experimental Spot Asset Markets. In: Econometrica 56 (5), S. 1119–1151. The companion paper to this database is Palan, Stefan (2013): A Review of Research into Smith, Suchanek and Williams Markets. Karl-Franzens-University Graz. Graz (Working Paper Series of the Faculty of Social and Economics Sciences, Karl-Franzens-University Graz, 2013-04).
DOI: 10.5281/zenodo.51671
title: Datasets And Config Files For The Chemical Navigator Tests

description: This are the datasets and config files used to test the MSc in Bioinformatics thesis at the UPF by Josep Arus-Pous. This dataset includes:


	Configuration files in HOCON format that were used for the tests (n = 250, 500 and 5000).
	Raw data file of the results of the tests, both in csv and html.
	A list of the 200 pairs of molecules selected from ZINC and used for the navigation test.
DOI: 10.14469/hpc/524
title: IRC_A_TS_1 (Zsilylenol ether) (IRC)

description: Gaussian Calculation
DOI: 10.17036/3115428d-1217-4de9-b19e-7159f76d63e0
title: Advantages of Strong Mode Coupling for Suppression of Nonlinear Distortion in Few-Mode Fibers
DOI: 10.17036/80b2ce0e-f835-4b02-b046-c28909e71128
title: On the Group Delay Statistics of Few-Mode Fibres  with Intermediate Linear Mode Coupling
DOI: 10.17036/e2d3ab9b-4ed0-4fc2-88e0-c9c5b029c4d5
title: Suppression of Nonlinear Distortion in Few-Mode Fibres using Strong Mode Coupling
DOI: 10.14469/hpc/523
title: Desilylation using sodium acetate to 5-coord intermediate TS

description: Gaussian Calculation
DOI: 10.5281/zenodo.51682
title: Map

description: maps Mem-Uhl
DOI: 10.5281/zenodo.51683
title: Coala

description: dfgh
DOI: 10.5281/zenodo.51688
title: Compound activity records associated with original publications in ChEMBL 21

description: Provided are two sets of compound activity records (set 1 and set 2) that were traced back to original publications and assembled from ChEMBL release 21. For each compound-target combination, the corresponding potency measurements and publications are provided. In addition, the list of unique publications is given for both sets 1 and 2.
DOI: 10.15468/lxjryg
title: Journal of Natural History

description: This dataset contains the digitized treatments in Plazi based on the original journal article Akira Shimizu, Raymond Wahis, Anthony C. Harris, James P. Pitts (2016): Journal of Natural History. Journal of Natural History 50 (25): 1549-1559, DOI: 10.1080/00222933.2016.1155781
DOI: 10.17632/jvphfxw32t.1
title: A new phylogeny and eDNA insight into paramyxids: an increasingly important but enigmatic clade of protistan parasites of marine invertebrates

description: Raw image files for paper submitted to International Journal of Parasitology entitled: A new phylogeny and eDNA insight into paramyxids: an increasingly important but enigmatic clade of protistan parasites of marine invertebrates
DOI: 10.14469/hpc/525
title: Desilylation using sodium acetate from 5-coord intermediate, IRC

description: Gaussian Calculation
DOI: 10.5281/zenodo.51693
title: Vcf File For A Population Of Drosophila Melanogaster

description: This file is the set of single nucleotide polymorphisms and insertion/deletions in a population of Drosophila melanoagaster. The zipped file is in a simple text file. This VCF file is part of the following larger body of work: <strong>Patterns of genetic regulation of expression variation in a natural population of Drosophila melanogaster provide evidence for buffering and GRN robustness</strong>
description: The DOI for this file is currently pending in Genetics http://www.genetics.org/.