Brain Network Measures and Spatial Lesion Distribution in a Sample of 47 Patients with Systemic Lupus Erythematosus (SLE)

Date Available

2019-11-28

Type

dataset

Data Creator

Valdés Hernández, Maria delC
Smith, Keith
Bastin, Mark
Amft, Nicole
Ralston, Stuart
Wardlaw, Joanna
Wiseman, Stewart

Publisher

University of Edinburgh. Centre for Clinical Brain Sciences

Relation (Is Referenced By)

https://www.ncbi.nlm.nih.gov/pubmed/27687026

Metadata

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Citation

Valdés Hernández, Maria del C; Smith, Keith; Bastin, Mark; Amft, Nicole; Ralston, Stuart; Wardlaw, Joanna; Wiseman, Stewart. (2019). Brain Network Measures and Spatial Lesion Distribution in a Sample of 47 Patients with Systemic Lupus Erythematosus (SLE), [dataset]. University of Edinburgh. Centre for Clinical Brain Sciences. https://doi.org/10.7488/ds/2716.

Description

This dataset corresponds to a research on network organisation of brain structural connectivity in systemic lupus erythematosus (SLE) and its putative association with lesion distribution and disease indicators. White matter hyperintensity (WMH) segmentation and connectomics were performed in 47 patients with SLE from structural and diffusion magnetic resonance imaging (MRI) data. Network nodes were divided into hierarchical tiers based on numbers of connections. From each tier, and globally, brain network metrics were extracted for each patient. Voxel-based analyses of the spatial distribution of WMH in relation to disease indicators and network measures were also conducted. The data comprise all lesion distribution maps from the sample, the raw results (in nifti-1 format) of the voxel-based analyses of the WMH distribution in relation to disease indicators and network parameters, the MATLAB code to process the data, and the excel spreadsheets with the brain network metrics.

Description of the contents of this dataset and the methods used to obtain it (571.5Kb)

Graphical overview of the contents of the data that conform this dataset and the methods used to derive it (1.278Mb)

Microsoft Excel Worksheet (.xlsx) with the values of the network parameters (general and by tiers) for each patient (20.48Kb)

4D volume of the white matter hyperintensity masks of the patients that conform the sample, in nifti-1-gzip format (1.452Mb)

White matter hyperintensities probability distribution map of the sample in nifti-1-gzip format (698.0Kb)

Example MATLAB script to generate the 4D array of WMH by concatenating all WMH masks from all patients, once they are in the study template space. The output from this script is used as input in Example_voxelwise_comparison_between_group_maps.m (3.369Kb)

Example MATLAB script to determine the voxel-wise statistical differences between groups of probability maps. It uses the functions robust4Dranksum and robust4Dkruskalwallis, which are part of this dataset, and others for manipulating the image files, from BRIClib (www.sourceforge.net/projects/bric1936) (5.495Kb)

MATLAB function that takes a 4D array formed by sequentially concatenating 3D arrays (i.e. volumes), and a numeric vector with values corresponding to the groups to which each volume belongs to (see Figure 2 and example script provided), and performs the Kruskal-Wallis test between the groups of 3D volumes. Then, corrects the results against type 1 error and gives the 3D volumes of the p-values from 1) the Kruskal-Wallis test and 2) false discovery rate correction (1.083Kb)

MATLAB function that takes a 4D array formed by sequentially concatenating 3D arrays (i.e. volumes), and a logic vector with values corresponding to the group to which each volume belongs to (see Figure 2 and example script provided), and performs the Wilcoxon rank sum test between two groups of 3D volumes. Then, corrects the results against type 1 error, giving as outputs the 3D volumes of the p-values from 1) the Wilcoxon's ranksum test and 2) false discovery rate correction (1.444Kb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the brain network general assortativity (1.819Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the brain network general average degree (1.849Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the complement C3 protein (from blood samples) (1.811Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the complement C4 protein (from blood samples) (1.811Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the ratio between total and HDL cholesterol (1.815Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the brain network general clustering coefficient (1.822Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the D-dimer marker of fibrinolysis(from blood samples) (1.643Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the brain network general degree variance (1.841Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the double-stranded DNA (from blood samples) (1.818Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the F8 von Willebrand factor (from blood samples) (1.602Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the Fatigue Scale Scores (1.849Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the Hospital Anxiety Scale Scores (1.838Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the Hospital Depression Scale Scores (1.812Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the hierarchical complexity of the global brain connectome network (1.862Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and homocysteine (from blood samples) (1.626Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and having (vs. not having) hypertension (1.846Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the anticardiolipin IgG (from blood samples) (1.795Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the anticardiolipin IgM (from blood samples) (1.819Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and disease duration (1.872Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the global brain network modularity (1.825Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the Systemic Lupus Erythematosus Disease Activity Index 2000 (1.778Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and the Systemic Lupus International Collaborating Clinics scores (1.855Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and smoking (never/recent/long-term current) (1.840Mb)

Nifti-1-gzip-formatted 3D volume of the voxel-based association (B-values) between WMH and total cholesterol (from blood samples) (1.808Mb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.01 from the voxel-wise comparison of the WMH spatial distribution of patients of high vs. low total/HDL cholesterol ratios. The values of each voxel are equal to 1 – p-value (78.81Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.05 from the voxel-wise comparison of the WMH spatial distribution of patients of high vs. low total/HDL cholesterol ratios. The values of each voxel are equal to 1 – p-value (86.94Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.01 from the voxel-wise comparison of the WMH spatial distribution of patients of high vs. low/normal total cholesterol. The values of each voxel are equal to 1 – p-value (78.61Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.05 from the voxel-wise comparison of the WMH spatial distribution of patients of high vs. low/normal total cholesterol. The values of each voxel are equal to 1 – p-value (82.52Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.01 from the voxel-wise comparison of the WMH spatial distribution of patients of long vs. short disease duration. The values of each voxel are equal to 1 – p-value (77.89Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.05 from the voxel-wise comparison of the WMH spatial distribution of patients of long vs. short disease duration. The values of each voxel are equal to 1 – p-value (79.99Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.01 from the voxel-wise comparison of the WMH spatial distribution of patients of high vs. low fatigue scale scores. The values of each voxel are equal to 1 – p-value (78.79Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.05 from the voxel-wise comparison of the WMH spatial distribution of patients of high vs. low fatigue scale scores. The values of each voxel are equal to 1 – p-value (86.97Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.01 from the voxel-wise comparison of the WMH spatial distribution of patients of different fatigue scale scores grouped by quartiles. The values of each voxel are equal to 1 – p-value (78.40Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.05 from the voxel-wise comparison of the WMH spatial distribution of patients of different fatigue scale scores grouped by quartiles. The values of each voxel are equal to 1 – p-value (82.92Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.01 from the voxel-wise comparison of the WMH spatial distribution of patients of high vs. low homocysteine values. The values of each voxel are equal to 1 – p-value (78.91Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.05 from the voxel-wise comparison of the WMH spatial distribution of patients of high vs. low homocysteine values. The values of each voxel are equal to 1 – p-value (83.38Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.01 from the voxel-wise comparison of the WMH spatial distribution of patients who have (vs. those who do not have) hypertension. The values of each voxel are equal to 1 – p-value (91.42Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.05 from the voxel-wise comparison of the WMH spatial distribution of patients who have (vs. those who do not have) hypertension. The values of each voxel are equal to 1 – p-value (184.0Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.01 from the voxel-wise comparison of the WMH spatial distribution of patients with different SLEDAI scores (0-4). The values of each voxel are equal to 1 – p-value (79.08Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.05 from the voxel-wise comparison of the WMH spatial distribution of patients with different SLEDAI scores (0-4). The values of each voxel are equal to 1 – p-value (80.74Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.01 from the voxel-wise comparison of the WMH spatial distribution of patients with different SLICC scores (0-5). The values of each voxel are equal to 1 – p-value (101.3Kb)

Nifti-1-gzip-formatted 3D volume of the p-values less than 0.05 from the voxel-wise comparison of the WMH spatial distribution of patients with different SLICC scores (0-5). The values of each voxel are equal to 1 – p-value (106.4Kb)

Nifti-1-gzip-formatted 3D volume of the p-values from the voxel-wise comparison of the WMH spatial distribution of patients of high vs. low total/HDL cholesterol ratios after type 1 error correction (FDR). The values of each voxel are equal to 1 – p-value (2.368Mb)

Nifti-1-gzip-formatted 3D volume of the p-values from the voxel-wise comparison of the WMH spatial distribution of patients of high vs. low/normal total cholesterol after type 1 error correction (FDR). The values of each voxel are equal to 1 – p-value (2.309Mb)

Nifti-1-gzip-formatted 3D volume of the p-values from the voxel-wise comparison of the WMH spatial distribution of patients of long vs. short disease duration after type 1 error correction (FDR). The values of each voxel are equal to 1 – p-value (2.308Mb)

Nifti-1-gzip-formatted 3D volume of the p-values from the voxel-wise comparison of the WMH spatial distribution of patients of high vs. low fatigue scale scores after type 1 error correction (FDR). The values of each voxel are equal to 1 – p-value (2.366Mb)

Nifti-1-gzip-formatted 3D volume of the p-values from the voxel-wise comparison of the WMH spatial distribution of patients of different fatigue scale scores grouped by quartiles after type 1 error correction (FDR). The values of each voxel are equal to 1 – p-value (2.319Mb)

Nifti-1-gzip-formatted 3D volume of the p-values from the voxel-wise comparison of the WMH spatial distribution of patients of high vs. low homocysteine values after type 1 error correction (FDR). The values of each voxel are equal to 1 – p-value (2.292Mb)

Nifti-1-gzip-formatted 3D volume of the p-values from the voxel-wise comparison of the WMH spatial distribution of patients who have (vs. those who do not have) hypertension after type 1 error correction (FDR). The values of each voxel are equal to 1 – p-value (2.310Mb)

Nifti-1-gzip-formatted 3D volume of the p-values from the voxel-wise comparison of the WMH spatial distribution of patients with different SLEDAI scores (0-4) after type 1 error correction (FDR). The values of each voxel are equal to 1 – p-value (2.075Mb)

Nifti-1-gzip-formatted 3D volume of the p-values from the voxel-wise comparison of the WMH spatial distribution of patients with different SLICC scores (0-5) after type 1 error correction (FDR). The values of each voxel are equal to 1 – p-value (2.224Mb)

Nifti-1-gzip-formatted 3D volume of the p-values from the voxel-wise comparison of the WMH spatial distribution of patients with different smoking records (never/previous/current long-term) after type 1 error correction (FDR). The values of each voxel are equal to 1 – p-value (2.320Mb)

Nifti-1-gzip-formatted 3D volume of the p-values from the voxel-wise comparison of the WMH spatial distribution of patients with different smoking records (never/previous/current long-term) before type 1 error correction (FDR). The values of each voxel are equal to 1 – p-value (802.4Kb)

WMH distribution map of the patients with high total/HDL cholesterol ratio (610.8Kb)

WMH distribution map of the patients with high total cholesterol (621.2Kb)

WMH distribution map of the patients with high HDL cholesterol (535.8Kb)

WMH distribution map of the patients with high LDL cholesterol (535.8Kb)

WMH distribution map of the patients with high homocysteine levels (596.6Kb)

WMH distribution map of the patients with low homocysteine levels (217.1Kb)

WMH distribution map of the hypertensive patients (482.0Kb)

WMH distribution map of the patients with low/normal total/HDL cholesterol ratio (304.1Kb)

WMH distribution map of the patients with normal/low cholesterol in blood (288.7Kb)

WMH distribution map of the patients with low/normal HDL cholesterol in blood (394.6Kb)

WMH distribution map of the patients with low/normal LDL cholesterol in blood (394.6Kb)

WMH distribution map of normotensive patients (469.5Kb)

WMH distribution map of the patients with low fatigue scale scores (607.2Kb)

WMH distribution map of the patients with high fatigue scale scores (331.8Kb)

WMH distribution map of the patients with fatigue scale scores in the first quartile (499.0Kb)

WMH distribution map of the patients with fatigue scale scores in the second quartile (317.8Kb)

WMH distribution map of the patients with fatigue scale scores in the third quartile (98.56Kb)

WMH distribution map of the patients with fatigue scale scores in the fourth quartile (306.6Kb)

WMH distribution map of the patients with long disease duration (554.6Kb)

WMH distribution map of the patients with short disease duration (395.2Kb)

WMH distribution map of the patients with SLEDAI scores equal to 0 (287.3Kb)

WMH distribution map of the patients with SLEDAI scores equal to 1 (50.69Kb)

WMH distribution map of the patients with SLEDAI scores equal to 2 (472.7Kb)

WMH distribution map of the patients with SLEDAI scores equal to 3 (130.8Kb)

WMH distribution map of the patients with SLEDAI scores equal to 4 (346.4Kb)

WMH distribution map of the patients with F8c values in the first quartile (344.1Kb)

WMH distribution map of the patients with F8c values in the second quartile (122.6Kb)

WMH distribution map of the patients with F8c values in the third quartile (211.6Kb)

WMH distribution map of the patients with F8c values in the fourth quartile (423.9Kb)

WMH distribution map of the patients with low values of von Willebrand Factor Antigen (389.5Kb)

WMH distribution map of the patients with high values of von Willebrand Factor Antigen (474.6Kb)

WMH distribution map of the patients with values of von Willebrand Factor Antigen in the first quartile (362.4Kb)

WMH distribution map of the patients with values of von Willebrand Factor Antigen in the second quartile (120.9Kb)

WMH distribution map of the patients with values of von Willebrand Factor Antigen in the third quartile (134.4Kb)

WMH distribution map of the patients with values of von Willebrand Factor Antigen in the fourth quartile (443.9Kb)

WMH distribution map of the patients with high values of F8c (508.3Kb)

WMH distribution map of the patients with high values of interleukin 6 (IL-6) inhibitor (274.4Kb)

WMH distribution map of the patients with low/normal values of F8c (361.3Kb)

WMH distribution map of the patients with normal/low values of interleukin 6 (IL-6) inhibitor (554.6Kb)

Readme file with the description of the files that conform this dataset, in pdf format (236.2Kb)

Readme file with the description of the files that conform this dataset, in Microsoft Word XML format (15.92Kb)

license_text (17.00Kb)

The following licence files are associated with this item: