cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3641912_d2.v1
title: MOESM1 of Presenilin 1 transgene addition to amyloid precursor protein overexpressing transgenic rats increases amyloid beta 42 levels and results in loss of memory retention

description: Additional file 1: TableÂ 1. contains dataset for Northern blot analysis (see Fig.Â 2). PS1 mRNA level, serum AÎ˛42 and tissue are reported in the table.
DOI: 10.6084/m9.figshare.c.3641936_d3.v1
title: Additional file 2: Table S2. of Genetic diversity trend in Indian rice varieties: an analysis using SSR markers

description: List of hybrid rice used in the present study with year of release and pedigree. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3641942_d2.v1
title: Additional file 5: Table S2. of MAPK signaling is necessary for neurogenesis in Nematostella vectensis

description: Array data for NvsoxB(2), Nvnotch, Nvdelta, and neural genes used for transgenes or controls in qPCR experiments. (XLSX 38 kb)
DOI: 10.6084/m9.figshare.c.3641942_d5.v1
title: Additional file 15: Table S7. of MAPK signaling is necessary for neurogenesis in Nematostella vectensis

description: Primer pairs used in this study for gene cloning. (XLS 73 kb)
DOI: 10.6084/m9.figshare.22306348.v1
title: Lipkin et al. (2022) Online Supplement: Probabilistic atlases for the multiple demand (MD) and theory of mind (ToM) networks based on large-scale precision localizers.

description: This repository contains an online supplement to Lipkin et al. (2022): [Probabilistic atlas for the language network based on precision fMRI data from &gt;800 individuals]. In this supplement, we follow the methods of the original work to develop probabilistic atlases of the multiple demand (MD) and theory of mind (ToM) brain networks, based on 691 and 198 participants respectively. All methods of data collection, preprocessing and first-level modeling, and atlas creation follow identically from the original work. Descriptions of participant demographics and task versions for these updated samples can be found in the Methods PDF. The atlases are supplied as NIfTI files in the MNI volumetric format. To cite this supplement, please reference Lipkin et al. (2022) as well as this repository via the DOIs provided below.
DOI: 10.6084/m9.figshare.c.3641942_d7.v1
title: Additional file 8: Table S5. of MAPK signaling is necessary for neurogenesis in Nematostella vectensis

description: Selection of 100 genes downregulated after U0126 treatments. Selected genes that were significantly (Pâ
DOI: 10.6084/m9.figshare.c.3641942_d8.v1
title: Additional file 6: Table S3. of MAPK signaling is necessary for neurogenesis in Nematostella vectensis

description: Genes with at least a 2-fold change after U0126 treatments based on our array analysis. (XLSX 3983 kb)
DOI: 10.6084/m9.figshare.c.3641942_d10.v1
title: Additional file 1: Table S1. of MAPK signaling is necessary for neurogenesis in Nematostella vectensis

description: Dose-dependent effects of U0126 on Nvsprouty, Nvbrachyury, and Nv-fgfA1 expression. Dose-dependent effects of U0126 analyzed by in situ hybridization. Analyzed U0126 concentration as indicated in Row 1 and number of embryos with phenotype scored based on expansion/reduction of the domain of expression as indicated in the column on the right. (XLS 33 kb)
DOI: 10.6084/m9.figshare.c.3641942_d9.v1
title: Additional file 14: Table S6. of MAPK signaling is necessary for neurogenesis in Nematostella vectensis

description: Primer pairs used in this study for qPCR analysis. (XLS 53 kb)
DOI: 10.6084/m9.figshare.c.3641942_d12.v1
title: Additional file 7: Table S4. of MAPK signaling is necessary for neurogenesis in Nematostella vectensis

description: Selection of 22 genes upregulated after U0126 treatment. Selected genes that were significantly (Pâ
DOI: 10.6084/m9.figshare.c.3641990_d2.v1
title: Additional file 1: of Measuring causes of death in populations: a new metric that corrects cause-specific mortality fractions for chance

description: Supplementary text 2 Python script.
DOI: 10.6084/m9.figshare.c.3642017_d1.v1
title: Additional file 2: Table S1. of Circuits of cancer drivers revealed by convergent misregulation of transcription factor targets across tumor types

description: List of families of driver TFs. (XLS 11 kb)
DOI: 10.6084/m9.figshare.c.3642017_d2.v1
title: Additional file 5: Table S7. of Circuits of cancer drivers revealed by convergent misregulation of transcription factor targets across tumor types

description: Overlap between sets of significant targets of a TF in pairs of tumor types. (XLS 69 kb)
DOI: 10.6084/m9.figshare.c.3642017_d3.v1
title: Additional file 7: Table S11.  of Circuits of cancer drivers revealed by convergent misregulation of transcription factor targets across tumor types

description: Mutual exclusivity of alterations of driver TF circuits. (XLS 24 kb)
DOI: 10.6084/m9.figshare.c.3642017_d5.v1
title: Additional file 3: Table S2. of Circuits of cancer drivers revealed by convergent misregulation of transcription factor targets across tumor types

description: Relative enrichment of driver TFs domains for somatic mutations across approximately 7,000 tumors. (XLS 79 kb)
DOI: 10.6084/m9.figshare.c.3642017_d6.v1
title: Additional file 6: Table S8.  of Circuits of cancer drivers revealed by convergent misregulation of transcription factor targets across tumor types

description: Driver circuits involving a TF and a partner driver tested across 15 tumor types. (XLS 49 kb)
DOI: 10.6084/m9.figshare.c.3642020_d1.v1
title: Additional file 2: of Crowdsourced direct-to-consumer genomic analysis of a family quartet

description: Genome Trax table with homozygous deleterious SNPs and their associated disease. (XLSX 41 kb)
DOI: 10.6084/m9.figshare.c.3642017_d7.v1
title: Additional file 4: Table S6. of Circuits of cancer drivers revealed by convergent misregulation of transcription factor targets across tumor types

description: List of significant targets detected across 15 TCGA cohorts (XLS 466 kb)
DOI: 10.6084/m9.figshare.c.3642020_d2.v1
title: Additional file 3: of Crowdsourced direct-to-consumer genomic analysis of a family quartet

description: Table summary of ingenuity analysis results. (XLS 96 kb)
DOI: 10.7266/9xvjnrf5
title: Remote sensing data and drone imagery obtained by UAS, Mississippi Sound, 2022-09-12 to 2022-09-16
DOI: 10.6084/m9.figshare.c.3642080_d2.v1
title: Additional file 1: Sheet 1. of A multi-factorial analysis of response to warfarin in a UK prospective cohort

description: Interaction coefficients of drugs known to be interacting with warfarin. Drugs known to interact with warfarin were classified according to their effect on warfarin dosing, with a plus sign for potentiating drugs, and minus for the opposite effect, the absolute value representing the scale of the effect. When several of these drugs were used concomitantly the sum of these coefficients was used. Sheet 2. List of all concomitant drugs taken by patients. Sheet 3. Top signals from linear regressions on SMWD. P values marked with an asterisk were obtained from the regression only adjusting for non-genetic factors, while other P values where obtained from a multiple regression after conditioning on rs9923231, rs1799853 and rs1057910. Sheet 4. Top signals from logistic regressions on INR &gt;4 during first week of treatment. P values marked with an asterisk were obtained from the regression only adjusting for non-genetic factors, while other P values where obtained from a multiple regression after conditioning on rs2288004 and rs1072753. P values for rs9923231, CYP2C9 *2 and *3 are reported, albeit they were not the most statistically significant signals in their respective region. 95 % confidence intervals for odds ratios are indicated in parentheses. (XLSX 28 kb)
DOI: 10.6084/m9.figshare.c.3642119_d1.v1
title: Additional file 2: of Herpes labialis and Nigerian dental health care providers: knowledge, attitudes, behaviors, and refusal to treat

description: Database for the study.Â (XLSX 19Â kb)
DOI: 10.6084/m9.figshare.c.3642128_d1.v1
title: MOESM2 of Experimental bluetongue virus superinfection in calves previously immunized with bluetongue virus serotype 8

description: Additional file 2. Cumulative clinical scores. Cumulative clinical scores after the first BTV8 challenge in NV and V animals, BTV1/BTV15 superinfection and BTV1 and BTV15 single infections. Sd: Standard deviation.
DOI: 10.6084/m9.figshare.c.3642182_d1.v1
title: Additional file 4: of Origin and higher-level diversification of acariform mites – evidence from nuclear ribosomal genes, extensive taxon sampling, and secondary structure alignment

description: Trees obtained in analyses using different partitions and nucleotide models; Internode certainty measures for 3- and 2-partition phylogenetic analyses. A-F: Tree topologies for analyses combining stem and loop regions, all data partitions, and assigning 6A and 7A models for stem and GTR + I + G models for loops. Bootstrap proportion values are given for each node. G: For each node, Internode Certainty (IC) and Internode Certainty All (ICA) indices are shown on ML trees inferred from stem and loop (A) or all regions (B). IC is followed by ICA. (RAR 368 kb)
DOI: 10.6084/m9.figshare.c.3642182_d2.v1
title: Additional file 5: of Origin and higher-level diversification of acariform mites â   evidence from nuclear ribosomal genes, extensive taxon sampling, and secondary structure alignment

description: R script for the Bayesian Relative Rates test. This script implements a Bayesian Relative Rates Test [116], i.e. sums of the branch lengths from a node ancestral to the node of interest and its tips for postburnin trees sampled from the posterior. It provides an estimate of the mean, 95Â % credible interval, maximum and minimum values for each terminal. (R 6Â kb)
DOI: 10.6084/m9.figshare.c.3642182_d3.v1
title: Additional file 3: of Origin and higher-level diversification of acariform mites â   evidence from nuclear ribosomal genes, extensive taxon sampling, and secondary structure alignment

description: Assessing convergence of MCMC analyses. Plots of LnL of the stationary phase of the Bayesian analyses and ESS values for parameter estimates. (RAR 600Â kb)
DOI: 10.6084/m9.figshare.c.3642182_d4.v1
title: Additional file 2: of Origin and higher-level diversification of acariform mites – evidence from nuclear ribosomal genes, extensive taxon sampling, and secondary structure alignment

description: Secondary structure alignments. A-B: Two FASTA files containing consensus secondary structure alignments of the 18S and 28S genes. Secondary structure notations masks: brackets “()”, “{}”, and “&lt; &gt;“ indicate paired sites; dots “.” indicate unpaired sites, and asterisks “*” indicate regions of ambiguous alignment (RAAs). Notations for stems and variable regions follow [91] and [92, 93] for the SSU variable region 4 (V4). Length variation for each RAAs is also given separately. (RAR 211 kb)
DOI: 10.6084/m9.figshare.c.3642182_d5.v1
title: Additional file 1: of Origin and higher-level diversification of acariform mites – evidence from nuclear ribosomal genes, extensive taxon sampling, and secondary structure alignment

description: Sampling data and taxonomy. Systematic classification of terminals and GenBank accession numbers for sequences and collection information for newly sequenced species and their accession numbers in the CT-UFMG (Coleção taxonômica da Universidade Federal de Minas Gerais) and MZSP (Museu de Zoologia da Universidade de São Paulo). (RAR 93 kb)
DOI: 10.6084/m9.figshare.c.3642185_d2.v1
title: MOESM4 of In the belly of the beast: resolving stomach tag data to link temperature, acceleration and feeding in white sharks (Carcharodon carcharias)

description: Additional file 4. fft_rot.m. Matlab function for fast fourier analysis called out from Jorgensen2015_AI3_maximize_tailbeat.m. This file can be viewed by an text editor, and run in Matlab.
DOI: 10.6084/m9.figshare.c.3642185_d1.v1
title: MOESM1 of In the belly of the beast: resolving stomach tag data to link temperature, acceleration and feeding in white sharks (Carcharodon carcharias)

description: Additional file 1. Jorgensen2015_AI1_time_window.m. Matlab routine for analyzing depth time series to determine time window over which average body position is prone relative to earthâ  s gravity. It requires some user inputs for specific values unique to individual datasets and computer pathways. This file can be viewed by an text editor, and run in Matlab.
DOI: 10.6084/m9.figshare.c.3642185_d3.v1
title: MOESM2 of In the belly of the beast: resolving stomach tag data to link temperature, acceleration and feeding in white sharks (Carcharodon carcharias)

description: Additional file 2. Jorgensen2015_AI2_find_up.m. Matlab routine for transforming X, Y, Z acceleration data to orient Z axis vertically with respect to earthâ  s gravity. Requires definition of time window for parsing data based on results in Jorgensen2015_AI1_time_window.m. This file can be viewed by an text editor, and run in Matlab.
DOI: 10.6084/m9.figshare.c.3642185_d4.v1
title: MOESM7 of In the belly of the beast: resolving stomach tag data to link temperature, acceleration and feeding in white sharks (Carcharodon carcharias)

description: Additional file 7. rotz3.m. Matlab function for three dimensional coordinate transformation called out from Jorgensen2015_AI3_maximize_tailbeat.m. This file can be viewed by an text editor, and run in Matlab.
DOI: 10.6084/m9.figshare.c.3642185_d5.v1
title: MOESM5 of In the belly of the beast: resolving stomach tag data to link temperature, acceleration and feeding in white sharks (Carcharodon carcharias)

description: Additional file 5. roty3.m. Matlab function for three dimensional coordinate transformation called out from Jorgensen2015_AI3_maximize_tailbeat.m. This file can be viewed by an text editor, and run in Matlab.
DOI: 10.6084/m9.figshare.c.3642188_d1.v1
title: Additional file 2: of Monitoring the impact of a national school based deworming programme on soil-transmitted helminths in Kenya: the first three years, 2012 â   2014

description: School-level datasets from each of the survey rounds. Dataset1_02072016. (XLSX 84 kb)
DOI: 10.6084/m9.figshare.c.3642185_d7.v1
title: MOESM6 of In the belly of the beast: resolving stomach tag data to link temperature, acceleration and feeding in white sharks (Carcharodon carcharias)

description: Additional file 6. rotx3.m. Matlab function for three dimensional coordinate transformation called out from Jorgensen2015_AI3_maximize_tailbeat.m. This file can be viewed by an text editor, and run in Matlab. ***Additional file 7 â   rotz3.m. Matlab function for three dimensional coordinate transformation called out from Jorgensen2015_AI3_maximize_tailbeat.m. This file can be viewed by an text editor, and run in Matlab.
DOI: 10.6084/m9.figshare.c.3642185_d6.v1
title: MOESM3 of In the belly of the beast: resolving stomach tag data to link temperature, acceleration and feeding in white sharks (Carcharodon carcharias)

description: Additional file 3. Jorgensen2015_AI3_maximize_tailbeat.m. Matlab routine for transforming X, Y, Z acceleration data to orient Y axis perpendicular a swimming sharkâ  s prone body (and perpendicular to earthâ  s gravity) by aligning Y axis parallel with maximum swaying acceleration. Requires X, Y, Z data transformed from Jorgensen2015_AI2_find_up.m. This file can be viewed by an text editor, and run in Matlab.
DOI: 10.6084/m9.figshare.c.3642200_d1.v1
title: MOESM2 of Effect of topically applied Saccharomyces boulardii on the healing of acute porcine wounds: a preliminary study

description: Additional file 2. Wound microbiology.
DOI: 10.5519/qd.5lrs9nm1
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (17 records)
DOI: 10.6084/m9.figshare.c.3642233_d1.v1
title: Additional file 1: of MIA: Mutual Information Analyzer, a graphic user interface program that calculates entropy, vertical and horizontal mutual information of molecular sequence sets

description: Drosophila-Adh data. (XLSX 153 kb)
DOI: 10.6084/m9.figshare.c.3642257_d3.v1
title: Additional file 7 of Testing for carryover effects after cessation of treatments: a design approach

description: Was used to simulate trials which included both crossover, parallel, and control arms when diagnosis is determined by using the BP measurements without error. (R 5 kb)
DOI: 10.6084/m9.figshare.c.3642257_d2.v1
title: Additional file 4 of Testing for carryover effects after cessation of treatments: a design approach

description: Was used to simulate crossover trials. (R 5 kb)
DOI: 10.6084/m9.figshare.c.3642257_d1.v1
title: Additional file 5 of Testing for carryover effects after cessation of treatments: a design approach

description: Was used to simulate crossover trials where diagnosis is defined using the BP measurements without error. (R 5 kb)
DOI: 10.6084/m9.figshare.c.3642257_d6.v1
title: Additional file 2 of Testing for carryover effects after cessation of treatments: a design approach

description: Was used to simulate parallel trials where diagnosis is defined using the BP measurements without error. (R 5 kb)
DOI: 10.6084/m9.figshare.c.3642257_d4.v1
title: Additional file 1 of Testing for carryover effects after cessation of treatments: a design approach

description: Was used to simulate parallel trials. (R 5 kb)
DOI: 10.6084/m9.figshare.c.3642257_d5.v1
title: Additional file 6 of Testing for carryover effects after cessation of treatments: a design approach

description: Was used to simulate trials which included both crossover, parallel, and control arms. (R 3 kb)
DOI: 10.6084/m9.figshare.c.3642257_d7.v1
title: Additional file 3 of Testing for carryover effects after cessation of treatments: a design approach

description: Was used to simulate parallel trials where the lower bound of the inclusion criteria varied. (R 4 kb)
DOI: 10.6084/m9.figshare.c.3642263_d1.v1
title: Additional file 7: of Combining powers of linkage and association mapping for precise dissection of QTL controlling resistance to gray leaf spot disease in maize (Zea mays L.)

description: Marker-assisted selection-suitable markers identified by SDvEP method. The file contains several tabs. Each tab is dedicated to one of the MAS-suitable markers. Each tab contains two images. The image on the left shows how a putative GLS resistance allele discriminated by a MAS-suitable marker is well-conserved in DAS-001 (GLS resistant parent of DH population) and absent in 109 GLS susceptible lines. The image on the right shows that a putative GLS resistance allele conserved in DAS-001 was also found in several other GLS resistance lines with a genetic background different from DAS-001. (XLSX 114 kb)
DOI: 10.6084/m9.figshare.c.3642260_d4.v1
title: Additional file 3: of Restriction site free cloning (RSFC) plasmid family for seamless, sequence independent cloning in Pichia pastoris

description: Plasmid sequences of the constructs used in this study in Genbank format.
DOI: 10.6084/m9.figshare.c.3642260_d5.v1
title: Additional file 5: of Restriction site free cloning (RSFC) plasmid family for seamless, sequence independent cloning in Pichia pastoris

description: Table S1. Primers used in this study and detailed plasmid construction. Primers used for creating the S. pombe and P. pastoris plasmids are separated. Also primers for construction of the plasmids are separated from primers for sequencing and insertion of GOIs. In addition separate spreadsheets are providing information on the exact construction of the plasmids by listing the PCR products and restriction enzymes used for assembly.
DOI: 10.6084/m9.figshare.c.3642281_d5.v1
title: Additional file 4: Table S5. of Gene expression meta-analysis reveals immune response convergence on the IFNÎł-STAT1-IRF1 axis and adaptive immune resistance mechanisms in lymphoma

description: Lists of correlated genes for selected focus genes. (XLSX 16708 kb)
DOI: 10.6084/m9.figshare.c.3642281_d6.v1
title: Additional file 12: Table S3. of Gene expression meta-analysis reveals immune response convergence on the IFNÎł-STAT1-IRF1 axis and adaptive immune resistance mechanisms in lymphoma

description: Ranked list of genes contributing to shared meta-profiles of COO-classified and COO-unclassified DLBCL. (XLSX 38 kb)
DOI: 10.6084/m9.figshare.c.3642281_d16.v1
title: Additional file 16: Table S4. of Gene expression meta-analysis reveals immune response convergence on the IFNÎł-STAT1-IRF1 axis and adaptive immune resistance mechanisms in lymphoma

description: Details for survival/outcome data related to the linear score. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.c.3642281_d17.v1
title: Additional file 5: Table S1. of Gene expression meta-analysis reveals immune response convergence on the IFNÎł-STAT1-IRF1 axis and adaptive immune resistance mechanisms in lymphoma

description: Lists of Meta-profile genes differentially expressed between DLBCL COO classes. (XLSX 2318 kb)
DOI: 10.6084/m9.figshare.c.3642281_d18.v1
title: Additional file 17: Table S6. of Gene expression meta-analysis reveals immune response convergence on the IFNÎł-STAT1-IRF1 axis and adaptive immune resistance mechanisms in lymphoma

description: Signature and ontology enrichments for the leading edge of most correlated genes for each focus gene context. (XLSX 2731 kb)
DOI: 10.6084/m9.figshare.c.3642281_d19.v1
title: Additional file 6: Table S2. of Gene expression meta-analysis reveals immune response convergence on the IFNÎł-STAT1-IRF1 axis and adaptive immune resistance mechanisms in lymphoma

description: Lists of enriched gene signature and gene ontology terms for COO-classified and COO-unclassified meta-profiles. (XLSX 2848 kb)
DOI: 10.6084/m9.figshare.c.3642320_d6.v1
title: Additional file 3: Table S3. of Transcriptome profiling of soybean (Glycine max) roots challenged with pathogenic and non-pathogenic isolates of Fusarium oxysporum

description: Expression levels of soybean predicted genes. Gene expression values are reported for all soybean predicted genes in control and inoculated Forrest genotype with non-pathogenic (FO36) and pathogenic (FO40) isolates of F. oxysporum at 72 and 96Â h post inoculation (hpi). Genes modulated at the different conditions in response to each isolate and time-point are provided in separate sheets for easier access. (XLSX 15482Â kb)
DOI: 10.6084/m9.figshare.c.3642320_d9.v1
title: Additional file 9: Table S9. of Transcriptome profiling of soybean (Glycine max) roots challenged with pathogenic and non-pathogenic isolates of Fusarium oxysporum

description: Details of the real-time RT-PCR analysis. The file contains: the sequence ID of each gene analysed by real-time RT-PCR and the corresponding primer pairs used for the amplification (FOR = forward primer, REV = reverse primer). (XLS 29 kb)
DOI: 10.6084/m9.figshare.c.3642320_d5.v1
title: Additional file 6: Table S6. of Transcriptome profiling of soybean (Glycine max) roots challenged with pathogenic and non-pathogenic isolates of Fusarium oxysporum

description: Expression levels and annotation results of soybean highly differentially expressed genes (HDEGs) modulated by inoculation with non-pathogenic (FO36) and pathogenic (FO40) isolates of F. oxysporum at 72 and 96Â h post inoculation (hpi). HDEGs were identified using QuasiSeq package using a Qvalue &lt;0.05. The fold changes and functional annotations are reported for each gene. HDEGs modulated at the different conditions in response to each isolate and time-point are provided in separate sheets for easier access. (XLSX 3049Â kb)
DOI: 10.6084/m9.figshare.c.3642320_d7.v1
title: Additional file 5: Table S5. of Transcriptome profiling of soybean (Glycine max) roots challenged with pathogenic and non-pathogenic isolates of Fusarium oxysporum

description: GO and Mercator bin enrichment results for FO36 and FO40 at both times post inoculation (72 and 96 hpi). (XLSX 334Â kb)
DOI: 10.6084/m9.figshare.c.3642326_d1.v1
title: Additional file 2: of Comparison of an automatic analysis and a manual analysis of conjunctival microcirculation in a sheep model of haemorrhagic shock

description: Raw data of microcirculatory analysis of individual videos. (XLSX 14 kb)