cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12248312.v1
title: Dataset for: The importance of incorporating landscape change for predictions of climate-induced plant phenological shifts

description: Data taken from Chisholm et al. (2020): https://doi.org/10.3389/fpls.2020.00759<br>Article abstract: Warming in the high Arctic is occurring at the fastest rate on the planet, raising concerns over how this global change driver will influence plant community composition, the timing of vegetation phenological events, and the wildlife that rely on them. In this region, as much as 50% of near-surface permafrost is composed of thermally sensitive ground ice that when melted produces substantial changes in topography and microbiome conditions. We take advantage of natural variations in permafrost melt to conduct a space-for-time study on Ellesmere Island in northern Canada. We demonstrate that phenological timing can be delayed in thermokarst areas when compared to stable ground, and that this change is a function of both shifting species composition in these vegetation communities, as well as delayed timing within species. These findings suggest that a warming climate could result in an overall broadening of blooming and leafing windows at the landscape level when these delayed timings are taken into consideration with the projected advance of phenological timings in ice-poor areas. We emphasize that the impacts of geomorphic processes on key phenological drivers are essential for enhancing our understanding of community response to climate warming in the high Arctic, with implications for ecosystem functioning and trophic interactions.
DOI: 10.6084/m9.figshare.12247067
title: Roan, ticked and spotted coat patterns in the canine are associated with a novel coat patterning region on canine CFA38

description: White coat patterning is a feature of many dog breeds and is known to be coded primarily by the gene Micropthalmia-associated transcription factor (MITF). This patterning in the coat can be modified by other factors to produce the attractive patterns termed “<i>ticked</i>” and “<i>roan</i>” that both describe the presence of flecks of color that vary in distribution and intensity within otherwise “<i>clear</i>” white markings. The appearance of the pigment in the white markings caused by <i>ticking</i> and <i>roaning</i> intensifies in the weeks after birth. We applied genome-wide association to compare English cocker spaniels of <i>roan</i> phenotype (<i>N</i>=34) with <i>parti-color</i> English cocker spaniels (<i>N</i>=9) and identified an associated locus on CFA 38.
DOI: 10.6084/m9.figshare.12247067.v1
title: Roan, ticked and spotted coat patterns in the canine are associated with a novel coat patterning region on canine CFA38

description: White coat patterning is a feature of many dog breeds and is known to be coded primarily by the gene Micropthalmia-associated transcription factor (MITF). This patterning in the coat can be modified by other factors to produce the attractive patterns termed “<i>ticked</i>” and “<i>roan</i>” that both describe the presence of flecks of color that vary in distribution and intensity within otherwise “<i>clear</i>” white markings. The appearance of the pigment in the white markings caused by <i>ticking</i> and <i>roaning</i> intensifies in the weeks after birth. We applied genome-wide association to compare English cocker spaniels of <i>roan</i> phenotype (<i>N</i>=34) with <i>parti-color</i> English cocker spaniels (<i>N</i>=9) and identified an associated locus on CFA 38.
DOI: 10.6084/m9.figshare.12246911
title: Additional file 7 of Mapping DNA interaction landscapes in psoriasis susceptibility loci highlights KLF4 as a target gene in 9q31

description: Additional file 7 : Table S7. RNA-seq data: all normalised counts across the three cell lines. Table S8. Lists of expressed genes intersecting psoriasis bait fragments. Table S9. Enrichment of TFBSs among psoriasis GWAS SNPs interacting with promoters of active genes, using SNP2TFBS tool. Table S10. Differentially expressed genes between unstimulated and stimulated (IFNg) HaCaT cells. Table S11. GO term enrichments for DE genes in stimulation experiment. Table S12. DE genes interacting with psoriasis baits in unstimulated and stimulated HaCaT cells.
DOI: 10.6084/m9.figshare.12246905
title: Additional file 5 of Mapping DNA interaction landscapes in psoriasis susceptibility loci highlights KLF4 as a target gene in 9q31

description: Additional file 5 : Table S3. Validation analysis of known eQTLs within the CHi-C data. Tables S4-6. CHi-C interactions between psoriasis loci and gene promoters with associated expression data. For each locus, the top interaction is shown between the psoriasis bait fragment and the gene promoter fragment in HaCaT unstimulated (S4), stimulated (S5) and My-La (S6).
DOI: 10.6084/m9.figshare.12246911.v1
title: Additional file 7 of Mapping DNA interaction landscapes in psoriasis susceptibility loci highlights KLF4 as a target gene in 9q31

description: Additional file 7 : Table S7. RNA-seq data: all normalised counts across the three cell lines. Table S8. Lists of expressed genes intersecting psoriasis bait fragments. Table S9. Enrichment of TFBSs among psoriasis GWAS SNPs interacting with promoters of active genes, using SNP2TFBS tool. Table S10. Differentially expressed genes between unstimulated and stimulated (IFNg) HaCaT cells. Table S11. GO term enrichments for DE genes in stimulation experiment. Table S12. DE genes interacting with psoriasis baits in unstimulated and stimulated HaCaT cells.
DOI: 10.6084/m9.figshare.12246893
title: Additional file 8 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 8. 3D printer file (“Articulated_arm_base_plate_2.stl”) for generating the plastic base plate for the Articulated arm that supports the feeding system’s microcontroller housing (part 2). Two machine screws are needed to fasten this part to the unused door hinge mounting holes located at the top of the mini-refrigerator [41].
DOI: 10.6084/m9.figshare.12246899
title: Additional file 9 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 9. 3D printer file (“tubing_holder_base.stl”) for generating the base of the plastic food line clamp for the IR feeding sensor (part 1) [41].
DOI: 10.6084/m9.figshare.12246905.v1
title: Additional file 5 of Mapping DNA interaction landscapes in psoriasis susceptibility loci highlights KLF4 as a target gene in 9q31

description: Additional file 5 : Table S3. Validation analysis of known eQTLs within the CHi-C data. Tables S4-6. CHi-C interactions between psoriasis loci and gene promoters with associated expression data. For each locus, the top interaction is shown between the psoriasis bait fragment and the gene promoter fragment in HaCaT unstimulated (S4), stimulated (S5) and My-La (S6).
DOI: 10.6084/m9.figshare.12246890
title: Additional file 7 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 7. 3D printer file (“Articulated_arm_base_plate_1.stl”) for generating the plastic base plate for the articulated arm that supports the feeding system’s microcontroller housing (part 1). This part is fastened to the microcontroller using industrial grade, double stick foam tape [41].
DOI: 10.6084/m9.figshare.12246893.v1
title: Additional file 8 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 8. 3D printer file (“Articulated_arm_base_plate_2.stl”) for generating the plastic base plate for the Articulated arm that supports the feeding system’s microcontroller housing (part 2). Two machine screws are needed to fasten this part to the unused door hinge mounting holes located at the top of the mini-refrigerator [41].
DOI: 10.6084/m9.figshare.12246884
title: Additional file 6 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 6. 3D printer file (“LCD_Bezel_98.stl”) for generating the plastic bezel for the LCD displays. This part is held in place using cyanoacrylic glue [41].
DOI: 10.6084/m9.figshare.12246899.v1
title: Additional file 9 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 9. 3D printer file (“tubing_holder_base.stl”) for generating the base of the plastic food line clamp for the IR feeding sensor (part 1) [41].
DOI: 10.6084/m9.figshare.12246878
title: Additional file 5 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 5. Arduino Uno sketch (“Aquarium_feeding_controller.ino” firmware program) needed to run the feeding system microcontroller [41].
DOI: 10.6084/m9.figshare.12246881
title: Additional file 1 of Mapping DNA interaction landscapes in psoriasis susceptibility loci highlights KLF4 as a target gene in 9q31

description: Additional file 1 : Table S1. Psoriasis SNPs included in the capture design. Table S2. CHi-C library metrics.
DOI: 10.6084/m9.figshare.12246890.v1
title: Additional file 7 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 7. 3D printer file (“Articulated_arm_base_plate_1.stl”) for generating the plastic base plate for the articulated arm that supports the feeding system’s microcontroller housing (part 1). This part is fastened to the microcontroller using industrial grade, double stick foam tape [41].
DOI: 10.6084/m9.figshare.12246875
title: Additional file 4 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 4. Fritzing diagram (“Feeding_controller2.ino” circuit diagram) for wiring the feeding system microcontroller circuits, along with its specific connections to various peripheral devices (e.g., the AC power relays, peristaltic pump controller, capacitance food level sensor for the reservoir, and IR feeding line sensor), as well as the Walchem 900 controller. See Additional file 2 for the list of parts and suppliers [41].
DOI: 10.6084/m9.figshare.12246878.v1
title: Additional file 5 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 5. Arduino Uno sketch (“Aquarium_feeding_controller.ino” firmware program) needed to run the feeding system microcontroller [41].
DOI: 10.6084/m9.figshare.12246881.v1
title: Additional file 1 of Mapping DNA interaction landscapes in psoriasis susceptibility loci highlights KLF4 as a target gene in 9q31

description: Additional file 1 : Table S1. Psoriasis SNPs included in the capture design. Table S2. CHi-C library metrics.
DOI: 10.6084/m9.figshare.12246884.v1
title: Additional file 6 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 6. 3D printer file (“LCD_Bezel_98.stl”) for generating the plastic bezel for the LCD displays. This part is held in place using cyanoacrylic glue [41].
DOI: 10.6084/m9.figshare.12246875.v1
title: Additional file 4 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 4. Fritzing diagram (“Feeding_controller2.ino” circuit diagram) for wiring the feeding system microcontroller circuits, along with its specific connections to various peripheral devices (e.g., the AC power relays, peristaltic pump controller, capacitance food level sensor for the reservoir, and IR feeding line sensor), as well as the Walchem 900 controller. See Additional file 2 for the list of parts and suppliers [41].
DOI: 10.6084/m9.figshare.12246854
title: Additional file 18 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 18. 3D printer file (“Skimmer_control_box_lid.stl”:) for generating the plastic lid for the protein skimmer control circuit’s housing (part 2, see Additional file 17) [41]. Once assembled, this lid is held in place using silicone cement.
DOI: 10.6084/m9.figshare.12246857
title: Additional file 12 of Mapping DNA interaction landscapes in psoriasis susceptibility loci highlights KLF4 as a target gene in 9q31

description: Additional file 12 : Table S13. Differentially expressed genes between HaCaT cells containing dCas9 P300 with scrambled guide or 9q31.2 Pool 3 guide in CRISPRa experiment. Table S14. GO term enrichments for DE genes in CRISPRa experiment. Table S15. STRING results for DE genes in CRISPRa experiments. Table S16. TF binding sites in DE genes (LISA result). Table S17. Annotated variants in LD with rs10979182 in 9q31.2.
DOI: 10.6084/m9.figshare.12246854.v1
title: Additional file 18 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 18. 3D printer file (“Skimmer_control_box_lid.stl”:) for generating the plastic lid for the protein skimmer control circuit’s housing (part 2, see Additional file 17) [41]. Once assembled, this lid is held in place using silicone cement.
DOI: 10.6084/m9.figshare.12246857.v1
title: Additional file 12 of Mapping DNA interaction landscapes in psoriasis susceptibility loci highlights KLF4 as a target gene in 9q31

description: Additional file 12 : Table S13. Differentially expressed genes between HaCaT cells containing dCas9 P300 with scrambled guide or 9q31.2 Pool 3 guide in CRISPRa experiment. Table S14. GO term enrichments for DE genes in CRISPRa experiment. Table S15. STRING results for DE genes in CRISPRa experiments. Table S16. TF binding sites in DE genes (LISA result). Table S17. Annotated variants in LD with rs10979182 in 9q31.2.
DOI: 10.6084/m9.figshare.12246845
title: Additional file 17 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 17. 3D printer file (“Skimmer_control_box_housing.stl”) for generating the plastic housing for the protein skimmer control circuit (part 1). Two holes must be drilled into the sides to accommodate rubber grommets for the electrical cords [41].
DOI: 10.6084/m9.figshare.12246842
title: Additional file 16 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 16. Firmware program (“ATtiny_motor_controller.ino”) for the protein skimmer control interface’s ATtiny85 microcontroller, along with specific connections to the Tunze 9004 DC motor control board and the Walchem 900 controller [41].
DOI: 10.6084/m9.figshare.12246845.v1
title: Additional file 17 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 17. 3D printer file (“Skimmer_control_box_housing.stl”) for generating the plastic housing for the protein skimmer control circuit (part 1). Two holes must be drilled into the sides to accommodate rubber grommets for the electrical cords [41].
DOI: 10.6084/m9.figshare.12246830
title: Additional file 14 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 14. Arduino Uno sketch (“Stepper_motor_controller.ino” firmware program) needed to run the peristaltic pump controller [41].
DOI: 10.6084/m9.figshare.12246842.v1
title: Additional file 16 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 16. Firmware program (“ATtiny_motor_controller.ino”) for the protein skimmer control interface’s ATtiny85 microcontroller, along with specific connections to the Tunze 9004 DC motor control board and the Walchem 900 controller [41].
DOI: 10.6084/m9.figshare.12246830.v1
title: Additional file 14 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 14. Arduino Uno sketch (“Stepper_motor_controller.ino” firmware program) needed to run the peristaltic pump controller [41].
DOI: 10.6084/m9.figshare.12246836
title: Additional file 15 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 15. Fritzing diagram (“DC_motor_controller_interface2.fzz” circuit diagram) for constructing the protein skimmer ATtiny85 control interface [41]. See Additional file 2 for the list of parts and suppliers.
DOI: 10.6084/m9.figshare.12246824
title: Additional file 13 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 13. Fritzing diagram (“Peristaltic_pump_controller.fzz” circuit diagram) for wiring the programmable peristaltic pump controller [41]. See Additional file 2 for the list of parts and suppliers.
DOI: 10.6084/m9.figshare.12246827
title: Additional file 2 of Varlociraptor: enhancing sensitivity and controlling false discovery rate in somatic indel discovery

description: Additional file 2 Snakemake Report: A Snakemake report that allows to interactively explore all figures shown in this article in the context of workflow, parameters, software versions, and code.
DOI: 10.6084/m9.figshare.12246836.v1
title: Additional file 15 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 15. Fritzing diagram (“DC_motor_controller_interface2.fzz” circuit diagram) for constructing the protein skimmer ATtiny85 control interface [41]. See Additional file 2 for the list of parts and suppliers.
DOI: 10.6084/m9.figshare.12246818
title: Additional file 12 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 12. 3D printer file (“IR_sensor_retaining_strap.stl”) for generating the plastic retaining strap for holding the IR sensor in the IR feeding sensor (see Additional file 9). Two small machine screws needed to fasten these parts are not shown [41].
DOI: 10.6084/m9.figshare.12246824.v1
title: Additional file 13 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 13. Fritzing diagram (“Peristaltic_pump_controller.fzz” circuit diagram) for wiring the programmable peristaltic pump controller [41]. See Additional file 2 for the list of parts and suppliers.
DOI: 10.6084/m9.figshare.12246812
title: Additional file 10 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 10. 3D printer file (“Tubing_holder_top.stl”) for generating the hinged top of the plastic food line clamp for the IR feeding sensor, which snaps onto the base (part 2, see Additional file 9) [41].
DOI: 10.6084/m9.figshare.12246815
title: Additional file 11 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 11. 3D printer file (“IR_LED_retaining_strap.stl”) for generating the plastic retaining strap for holding the IR LED in the IR feeding sensor (see Additional file 9). Two small machine screws needed to fasten these parts are not shown [41].
DOI: 10.6084/m9.figshare.12246818.v1
title: Additional file 12 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 12. 3D printer file (“IR_sensor_retaining_strap.stl”) for generating the plastic retaining strap for holding the IR sensor in the IR feeding sensor (see Additional file 9). Two small machine screws needed to fasten these parts are not shown [41].
DOI: 10.6084/m9.figshare.12246827.v1
title: Additional file 2 of Varlociraptor: enhancing sensitivity and controlling false discovery rate in somatic indel discovery

description: Additional file 2 Snakemake Report: A Snakemake report that allows to interactively explore all figures shown in this article in the context of workflow, parameters, software versions, and code.
DOI: 10.6084/m9.figshare.12246815.v1
title: Additional file 11 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 11. 3D printer file (“IR_LED_retaining_strap.stl”) for generating the plastic retaining strap for holding the IR LED in the IR feeding sensor (see Additional file 9). Two small machine screws needed to fasten these parts are not shown [41].
DOI: 10.6084/m9.figshare.12246812.v1
title: Additional file 10 of An automated aquatic rack system for rearing marine invertebrates

description: Additional file 10. 3D printer file (“Tubing_holder_top.stl”) for generating the hinged top of the plastic food line clamp for the IR feeding sensor, which snaps onto the base (part 2, see Additional file 9) [41].
DOI: 10.6084/m9.figshare.12246767
title: Additional file 1 of PDK1 regulates the survival of the developing cortical interneurons

description: Additional file 1. Statistical results of raw data.
DOI: 10.6084/m9.figshare.12246767.v1
title: Additional file 1 of PDK1 regulates the survival of the developing cortical interneurons

description: Additional file 1. Statistical results of raw data.
DOI: 10.6084/m9.figshare.12246593
title: Additional file 2 of Differential gene methylation and expression of HOX transcription factor family in orbitofacial neurofibroma

description: Additional file 2 Table S2. Clinicopathologic data of orbitofacial and non-orbitofacial neurofibromas.
DOI: 10.6084/m9.figshare.12246593.v1
title: Additional file 2 of Differential gene methylation and expression of HOX transcription factor family in orbitofacial neurofibroma

description: Additional file 2 Table S2. Clinicopathologic data of orbitofacial and non-orbitofacial neurofibromas.
DOI: 10.6084/m9.figshare.12246587
title: Additional file 1 of Blast2Fish: a reference-based annotation web tool for transcriptome analysis of non-model teleost fish

description: Additional file 1. The top 20 major MeSH term of different maximum target sequence settings. The top 20 major MeSH term of maximum target sequence setting 1–500 were listed in the file.
DOI: 10.6084/m9.figshare.12246590
title: Additional file 1 of Differential gene methylation and expression of HOX transcription factor family in orbitofacial neurofibroma

description: Additional file 1 Table S1. Differentiatially methylated probes and corresponding genes in orbitofacial vs. non-orbitofacial neurofibromas adjusted by age.
DOI: 10.6084/m9.figshare.12246587.v1
title: Additional file 1 of Blast2Fish: a reference-based annotation web tool for transcriptome analysis of non-model teleost fish

description: Additional file 1. The top 20 major MeSH term of different maximum target sequence settings. The top 20 major MeSH term of maximum target sequence setting 1–500 were listed in the file.
DOI: 10.6084/m9.figshare.12246590.v1
title: Additional file 1 of Differential gene methylation and expression of HOX transcription factor family in orbitofacial neurofibroma

description: Additional file 1 Table S1. Differentiatially methylated probes and corresponding genes in orbitofacial vs. non-orbitofacial neurofibromas adjusted by age.
DOI: 10.6084/m9.figshare.12246533
title: Additional file 2 of Whole-genome homozygosity mapping reveals candidate regions affecting bull fertility in US Holstein cattle

description: Additional file 2. List of ROH segments enriched in low-fertility bulls.
DOI: 10.6084/m9.figshare.12246533.v1
title: Additional file 2 of Whole-genome homozygosity mapping reveals candidate regions affecting bull fertility in US Holstein cattle

description: Additional file 2. List of ROH segments enriched in low-fertility bulls.
DOI: 10.6084/m9.figshare.12246524
title: Additional file 1 of Whole-genome homozygosity mapping reveals candidate regions affecting bull fertility in US Holstein cattle

description: Additional file 1. List of overlapping ROH detected across the entire genome.
DOI: 10.6084/m9.figshare.12246524.v1
title: Additional file 1 of Whole-genome homozygosity mapping reveals candidate regions affecting bull fertility in US Holstein cattle

description: Additional file 1. List of overlapping ROH detected across the entire genome.
DOI: 10.6084/m9.figshare.12246476
title: Additional file 2 of Socioeconomic inequalities in hospitalizations for chronic ambulatory care sensitive conditions: a systematic review of peer-reviewed literature, 1990–2018

description: Additional file 2. Data Extraction Form. Form used to extract data from eligible full-text articles.
DOI: 10.6084/m9.figshare.12246476.v1
title: Additional file 2 of Socioeconomic inequalities in hospitalizations for chronic ambulatory care sensitive conditions: a systematic review of peer-reviewed literature, 1990–2018

description: Additional file 2. Data Extraction Form. Form used to extract data from eligible full-text articles.