Spatial pattern-driven interpretable model and biological correlates in brain glioblastoma-lymphoma differentiation.
The 2 matches
- [1] § STAR★Methods › Method details › Radiomics and spatial feature extraction ↔ neuroHarmonize/harmonizationApply.py, lines 10–116 · score 0.69 · neuroCombat, spline, harmonisation, covariates, training, variable
- [2] § STAR★Methods › Method details › Radiomics and spatial feature extraction ↔ neuroHarmonize/harmonizationLearn.py, lines 10–78 · score 0.65 · neuroCombat, harmonisation, adjustment, covariates, variable, batch
Paper
Loaded from Europe PMC by your browser, not stored by OSCR: doi.org · Europe PMC
The paper is loaded when this pane is shown.
The authors' code
Python · 257 lines · 9.4 KB · MIT · 1 match
- import os
- import pickle
- import numpy as np
- import pandas as pd
- import nibabel as nib
- from statsmodels.gam.api import BSplines
- from neuroCombat.neuroCombat import make_design_matrix, adjust_data_final
- import copy
- def harmonizationApply(data, covars, model, return_stand_mean=False):
- """
- Applies harmonization model with neuroCombat functions to new data.
- Arguments
- ---------
- data : a numpy array
- data to harmonize with ComBat, dimensions are N_samples x N_features
- covars : a pandas DataFrame
- contains covariates to control for during harmonization
- all covariates must be encoded numerically (no categorical variables)
- must contain a single column "SITE" with site labels for ComBat
- dimensions are N_samples x (N_covariates + 1)
- model : a dictionary of model parameters
- the output of a call to harmonizationLearn()
- Returns
- -------
- bayes_data : a numpy array
- harmonized data, dimensions are N_samples x N_features
- """
- # transpose data as per ComBat convention
- data = data.T
- # prep covariate data
- batch_col = covars.columns.get_loc('SITE')
- isTrainSite = covars['SITE'].isin(model['SITE_labels'])
- cat_cols = []
- num_cols = [covars.columns.get_loc(c) for c in covars.columns if c!='SITE']
- covars = np.array(covars, dtype='object')
- if "ref_level" in model["info_dict"]:
- ref_level = model["info_dict"]["ref_level"]
- else:
- ref_level = None
- # load the smoothing model
- smooth_model = model['smooth_model']
- smooth_cols = smooth_model['smooth_cols']
- ### additional setup code from neuroCombat implementation:
- # convert training SITEs in batch col to integers
- site_dict = dict(zip(model['SITE_labels'], np.arange(len(model['SITE_labels']))))
- covars[:,batch_col] = np.vectorize(site_dict.get)(covars[:,batch_col],-1)
- # compute samples_per_batch for training data
- sample_per_batch = [np.sum(covars[:,batch_col]==i) for i in list(site_dict.values())]
- sample_per_batch = np.asarray(sample_per_batch)
- # create dictionary that stores batch info
- batch_levels = np.unique(list(site_dict.values()),return_counts=False)
- info_dict = {
- 'batch_levels': batch_levels.astype('int'),
- 'n_batch': len(batch_levels),
- 'n_sample': int(covars.shape[0]),
- 'sample_per_batch': sample_per_batch.astype('int'),
- 'batch_info': [list(np.where(covars[:,batch_col]==idx)[0]) for idx in batch_levels],
- 'ref_level': ref_level
- }
- covars[~isTrainSite, batch_col] = 0
- covars[:,batch_col] = covars[:,batch_col].astype(int)
- ###
- # isolate array of data in training site
- # apply ComBat without re-learning model parameters
- design = make_design_matrix(covars, batch_col, cat_cols, num_cols, ref_level)
- design[~isTrainSite,0:len(model['SITE_labels'])] = np.nan
- ### additional setup if smoothing is performed
- if smooth_model['perform_smoothing']:
- # create cubic spline basis for smooth terms
- X_spline = covars[:, smooth_cols].astype(float)
- bs_basis = smooth_model['bsplines_constructor'].transform(X_spline)
- # construct formula and dataframe required for gam
- formula = 'y ~ '
- df_gam = {}
- for b in batch_levels:
- formula = formula + 'x' + str(b) + ' + '
- df_gam['x' + str(b)] = design[:, b]
- for c in num_cols:
- if c not in smooth_cols:
- formula = formula + 'c' + str(c) + ' + '
- df_gam['c' + str(c)] = covars[:, c].astype(float)
- formula = formula[:-2] + '- 1'
- df_gam = pd.DataFrame(df_gam)
- # for matrix operations, a modified design matrix is required
- design = np.concatenate((df_gam, bs_basis), axis=1)
- ###
- s_data, stand_mean, var_pooled, mod_mean = applyStandardizationAcrossFeatures(data, design, info_dict, model)
- if sum(isTrainSite)==0:
- bayes_data = np.full(s_data.shape,np.nan)
- else:
- bayes_data = adjust_data_final(s_data, design, model['gamma_star'], model['delta_star'],
- stand_mean, mod_mean, var_pooled, info_dict, data)
- bayes_data[:,~isTrainSite] = np.nan
- # transpose data to return to original shape
- stand_mean = stand_mean.T
- bayes_data = bayes_data.T
- #return either bayes_data or both
- if return_stand_mean:
- return bayes_data, stand_mean
- else:
- return bayes_data
- def applyStandardizationAcrossFeatures(X, design, info_dict, model):
- """
- The original neuroCombat function standardize_across_features plus
- necessary modifications.
- This function will apply a pre-trained harmonization model to new data.
- """
- n_batch = info_dict['n_batch']
- n_sample = info_dict['n_sample']
- sample_per_batch = info_dict['sample_per_batch']
- B_hat = model['B_hat']
- stand_mean = model['stand_mean'][:, [0]]
- var_pooled = model['var_pooled']
- # new code in neuroCombat to compute model mean
- if design is not None:
- tmp = copy.deepcopy(design)
- tmp[:,range(0,n_batch)] = 0
- mod_mean = np.transpose(np.dot(tmp, B_hat))
- s_data = ((X- stand_mean - mod_mean) / np.dot(np.sqrt(var_pooled), np.ones((1, n_sample))))
- return s_data, stand_mean, var_pooled, mod_mean
- def applyModelOne(data, covars, model, return_stand_mean=False):
- """
- Utility function to apply model to one data point.
- """
- if data.shape[0]>1:
- raise ValueError('Argument `data` contains more than one sample!')
- if covars.shape[0]>1:
- raise ValueError('Argument `covars` contains more than one sample!')
- if model['smooth_model']['perform_smoothing']:
- raise NotImplementedError(
- '[neuroHarmonize] applyModelOne does not support models trained with '
- 'smooth_terms. Use flattenNIFTIs + harmonizationApply instead.')
- # transpose data as per ComBat convention
- X = data.T
- # prep covariate data
- batch_labels = model['SITE_labels']
- batch_i = covars.SITE.to_numpy()[0]
- isTrainSite = covars['SITE'].isin(model['SITE_labels'])
- if batch_i not in batch_labels:
- # raise ValueError('Site Label "%s" not in the training set. Check `covars` argument.' % batch_i)
- batch_level_i = np.array([0])
- else:
- batch_level_i = np.argwhere(batch_i==batch_labels)[0]
- if "ref_level" in model["info_dict"]:
- ref_level = model["info_dict"]["ref_level"]
- else:
- ref_level = None
- batch_col = covars.columns.get_loc('SITE')
- cat_cols = []
- num_cols = [covars.columns.get_loc(c) for c in covars.columns if c!='SITE']
- covars = np.array(covars, dtype='object')
- # convert batch col to integer
- covars[:,batch_col] = np.unique(covars[:,batch_col],return_inverse=True)[-1]
- # apply design matrix construction (needs to be modified)
- # design_i = make_design_matrix(covars, batch_col, cat_cols, num_cols)
- design_i = make_design_matrix(covars, batch_col, cat_cols, num_cols, ref_level)
- # encode batches as in larger dataset
- design_i_batch = np.zeros((1, len(batch_labels)))
- design_i_batch[:, batch_level_i] = 1
- design_i = np.concatenate((design_i_batch, design_i[:, 1:]), axis=1)
- design_i[~isTrainSite,0:len(model['SITE_labels'])] = np.nan
- # additional setup with batch info
- n_sample = 1
- sample_per_batch = 1
- D = design_i
- n_batch = len(batch_labels)
- j = batch_level_i[0]
- B_hat = model['B_hat']
- stand_mean = model['stand_mean'][:, [0]]
- var_pooled = model['var_pooled']
- # new code in neuroCombat to compute model mean
- if design_i is not None:
- tmp = copy.deepcopy(design_i)
- tmp[:,range(0,n_batch)] = 0
- mod_mean = np.transpose(np.dot(tmp, B_hat))
- s_data = (X- stand_mean - mod_mean) / np.dot(np.sqrt(var_pooled), np.ones((1, n_sample)))
- if sum(isTrainSite)==0:
- bayesdata = np.full(s_data.shape,np.nan)
- else:
- # adjust_data_final
- batch_design = D[:,:n_batch]
- bayesdata = s_data
- gamma_star = np.array(model['gamma_star'])
- delta_star = np.array(model['delta_star'])
- dsq = np.sqrt(delta_star[j, :])
- dsq = dsq.reshape((len(dsq), 1))
- denom = np.dot(dsq, np.ones((1, sample_per_batch)))
- numer = np.array(bayesdata - np.dot(batch_design, gamma_star).T)
- bayesdata = numer / denom
- vpsq = np.sqrt(var_pooled).reshape((len(var_pooled), 1))
- bayesdata = bayesdata * np.dot(vpsq, np.ones((1, n_sample))) + stand_mean + mod_mean
- # preserve original data for reference batch (mirrors adjust_data_final)
- if ref_level is not None and batch_level_i[0] == ref_level:
- bayesdata = X
- # return either bayesdata or both
- if return_stand_mean:
- # Return the complete reference (stand_mean + mod_mean) for NIFTI output
- reference_mean = stand_mean + mod_mean
- return bayesdata.T, reference_mean.T
- else:
- return bayesdata.T
- # return bayesdata.T
- def loadHarmonizationModel(file_name):
- """
- For loading model contents, this function will load a model specified
- by file_name using the pickle package.
- """
- if not os.path.exists(file_name):
- raise ValueError('Model file does not exist: %s. Did you run `saveHarmonizationModel`?' % file_name)
- in_file = open(file_name,'rb')
- model = pickle.load(in_file)
- in_file.close()
- return model
harmonizationApply.py at commit 89ef77f, under MIT · at the source
Overview
- Department of Radiology, Jinling Clinical Medical College, Nanjing Medical University, Nanjing 210002, China
- Department of Radiology, The Affiliated Taizhou People’s Hospital of Nanjing Medical University, Taizhou School of Clinical Medicine, Nanjing Medical University, Taizhou 225300, China
- Department of Radiology, Jinling Clinical Medical College, Nanjing University of Chinese Medicine, Nanjing 210002, China
- Department of Radiology, Jinling Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing 210002, China
- Department of Radiology, General Hospital of Center Theater of PLA, Wuhan 430070, China
- Department of Radiology, Xiangya Hospital, Central South University, Changsha 410008, China
- Department of Radiology, Nanjing Drum Tower Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing 210008, China
- Department of Radiology, West China Hospital of Sichuan University, Chengdu 610041, China
- The Clinical Hospital of Chengdu Brain Science Institute, School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 611731, China
- Department of Radiology, Third Affiliated Hospital of Soochow University, Changzhou 213003, China
- Movement Control and Neuroplasticity Research Group, Biomedical Sciences, KU Leuven, 3001 Leuven, Belgium
Abstract
Glioblastoma (GBM) and primary central nervous system lymphoma (PCNSL) often exhibit overlapping appearances on routine MRI, complicating pre-treatment diagnosis. In 1,109 patients from five centers, we constructed standard-space tumor probabilistic maps and derived atlas-anchored spatial features to augment conventional radiomics. The spatial radiomics classifier outperformed radiomics alone (external test area under the ROC curve [AUC], 0.98) with acceptable calibration and decision curve benefit, and SHapley Additive exPlanations (SHAP)-enabled anatomy-grounded interpretation. Aligning tumor localization with the Allen Human Brain Atlas and a normative functional connectome linked GBM-enriched territories to developmental-oncogenic programs and network hubness, whereas PCNSL-enriched territories showed immune-inflammatory/
Reproduced under the paper's license (CC BY), from the paper cited above.
Repositories
Its files are read in the Code ↔ Paper reader above, with 2 matches between paragraphs and lines of code.
JLhos-fmri/SPLSM_version1.0
7ec072a17c4804036eea90f163f075289d755038, 4 August 2023Availability: 1 check, the latest on 27 September 2026: the link answers
- 27 September 2026: the link answers
59 files
- CFAT.m, MATLAB, 130 lines
- CFA_CheckData.m, MATLAB, 266 lines
- CFA_CheckNormROI.m, MATLAB, 214 lines
- CFA_CheckNormROI_batch.m
, MATLAB, 198 lines - CFA_Checkandrun.m, MATLAB, 486 lines
- CFA_MakeRes.m, MATLAB, 1,442 lines
- CFA_MakeRes_Clustercorre
cted.m , MATLAB, 221 lines - CFA_MakeRes_Clustercorre
cted_vlsm.m , MATLAB, 272 lines - CFA_ReGroupData.m, MATLAB, 1,018 lines
- CFA_ReOrientDataForAna.m
, MATLAB, 88 lines - CFA_RunAllJob.m, MATLAB, 513 lines
- CFA_RunAllJob2.m, MATLAB, 287 lines
- CFA_TransToBCBLQT.m, MATLAB, 14 lines
- CFA_inout.m, MATLAB, 788 lines
- CFA_template.m, MATLAB, 564 lines
- CSVfiletoNifti.m, MATLAB, 15 lines
- Chi2testOR.m, MATLAB, 14 lines
- ClincFreq_AffVolStat.m, MATLAB, 88 lines
- ClincFreq_AffVolume.m, MATLAB, 128 lines
- ClincFreq_CalCentNum.m, MATLAB, 65 lines
- ClincFreq_CalClinWeiLoca
tion.m , MATLAB, 76 lines - ClincFreq_CalHeatNum.m, MATLAB, 106 lines
- ClincFreq_CalWeiCent.m, MATLAB, 80 lines
- ClincFreq_CentNumStat.m, MATLAB, 142 lines
- ClincFreq_CentPointForVo
lume_pre.m , MATLAB, 97 lines - ClincFreq_Chi2test.m, MATLAB, 13 lines
- ClincFreq_ClinWeiLocatio
nStat.m , MATLAB, 265 lines - ClincFreq_D2V.m, MATLAB, 90 lines
- ClincFreq_HeatNumStat.m, MATLAB, 418 lines
- ClincFreq_Hist.m, MATLAB, 69 lines
- ClincFreq_Norm2MNI_CT_cl
inc.m , MATLAB, 33 lines - ClincFreq_Norm2MNI_EPI.m
, MATLAB, 58 lines - ClincFreq_Norm2MNI_T1_cl
inc.m , MATLAB, 32 lines - ClincFreq_Norm2MNI_T2.m, MATLAB, 58 lines
- ClincFreq_Norm2MNI_withT
1_clinc.m , MATLAB, 49 lines - ClincFreq_VLSM.m, MATLAB, 54 lines
- ClincFreq_WeiCentStat.m, MATLAB, 91 lines
- Clinc_permtest.m, MATLAB, 180 lines
- Clinc_permtest_heatnum.m
, MATLAB, 267 lines - DynamicBC_write_NIFTI.m, MATLAB, 19 lines
- Dynamic_read_dir_NIFTI.m
, MATLAB, 45 lines - Dynamic_read_dir_NIFTI_s
parse.m , MATLAB, 46 lines - ExtClustInfo_CWL.m, MATLAB, 353 lines
- NormJobmat/
test.m , MATLAB, 1 line - PermClusterInfo.m, MATLAB, 44 lines
- SPLSM.m, MATLAB, 133 lines
- VLSM_clusterPermutation.
m , MATLAB, 85 lines - VLSMsubfunc.m, MATLAB, 23 lines
- chi2test.m, MATLAB, 60 lines
- copydata2target.m, MATLAB, 33 lines
- copydata2targetwithT1.m, MATLAB, 48 lines
- cor2mni.m, MATLAB, 35 lines
- dynamicBC_Reslice.m, MATLAB, 60 lines
- getclusterinfo.m, MATLAB, 63 lines
- getclusterinfo2.m, MATLAB, 15 lines
- getinfomat.m, MATLAB, 9 lines
- mni2cor.m, MATLAB, 37 lines
- LICENSE, License, 674 lines
- README.md, Text, 2 lines
JLhos-fmri/ClinicalFrequencyAnalysisToolkit
8fcc568032378fc1709f4a01bfe7fae6bc99b025, 29 July 2022Availability: 1 check, the latest on 27 September 2026: the link answers
- 27 September 2026: the link answers
24 files
- CFAT.m, MATLAB, 114 lines
- CFA_Checkandrun.m, MATLAB, 366 lines
- CFA_MakeRes.m, MATLAB, 778 lines
- CFA_ReOrient_Single.m, MATLAB, 30 lines
- CFA_ReOrient_Twomode.m, MATLAB, 55 lines
- CFA_RunAllJob.m, MATLAB, 246 lines
- CFA_SingleGroupPval_Perm
.m , MATLAB, 55 lines - CFA_inout.m, MATLAB, 756 lines
- CFA_template.m, MATLAB, 428 lines
- ClincFreq_CalHeatNum.m, MATLAB, 95 lines
- ClincFreq_HeatNumStat.m, MATLAB, 376 lines
- ClincFreq_Norm2MNI_CT_cl
inc.m , MATLAB, 26 lines - ClincFreq_Norm2MNI_EPI.m
, MATLAB, 38 lines - ClincFreq_Norm2MNI_T1_cl
inc.m , MATLAB, 22 lines - ClincFreq_Norm2MNI_T2.m, MATLAB, 38 lines
- ClincFreq_Norm2MNI_withT
1_clinc.m , MATLAB, 30 lines - DynamicBC_write_NIFTI.m, MATLAB, 19 lines
- Dynamic_read_dir_NIFTI.m
, MATLAB, 45 lines - Dynamic_read_dir_NIFTI_s
parse.m , MATLAB, 46 lines - PermClusterInfo.m, MATLAB, 40 lines
- dynamicBC_Reslice.m, MATLAB, 60 lines
- getclusterinfo.m, MATLAB, 63 lines
- getinfomat.m, MATLAB, 9 lines
- LICENSE, License, 674 lines
rpomponio/neuroHarmonize
89ef77fa44c7c5f11113e22f766cc66a9776af71, 13 September 2026Availability: 1 check, the latest on 26 September 2026: the link answers
- 26 September 2026: the link answers
12 files
- neuroHarmonize/
__init__.py , Python, 3 lines - neuroHarmonize/
harmonizationApply.py , Python, 257 lines, 1 match - neuroHarmonize/
harmonizationLearn.py , Python, 401 lines, 1 match - neuroHarmonize/
harmonizationNIFTI.py , Python, 203 lines - setup.py, Python, 45 lines
- tests/
__init__.py , Python, 1 line - tests/
conftest.py , Python, 70 lines - tests/
test_determinism.py , Python, 197 lines - tests/
test_harmonization_consi , Python, 192 linesstency.py - tests/
test_nifti_consistency.p , Python, 197 linesy - LICENSE, License, 21 lines
- README.md, Text, 294 lines
The paper's code and data availability statement is in the Data section.
Tracing map
Proposed by the machine: these links were found in the paper and verified at the source, without human review. The map will receive a Zenodo DOI once one of the paper's authors has validated it with their ORCID.
What the map holds:
- 3 repositories of the authors' code, each at its verified commit, with its license and how the link was found in the paper;
- 90 scripts, each with its path and the digest of its content;
- 2 matches between paragraphs of the paper and lines of the code (method lexical-v1);
- neither the text of the paper nor the code itself.
Its JSON (tracing-map.json) is deposited on Zenodo with its DOI once the map is validated.
Data
No dataset and no data link were found in the paper.
Data and code availability
Data supporting the findings are provided within the article and its supplemental information. Raw center-specific MRI scans cannot be made publicly available because of ethics committee/
The Standard sPace Lesion-Symptom Mapping (SPLSM) pipeline (version 1.0 beta), developed by our team and openly available at https://
This study did not generate microarray or RNA-seq datasets, and no standalone software package was generated.
Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon reasonable request.
Reproduced under the paper's license (CC BY), from the paper cited above.
Versions
The history of this record: each version stored by the harvester or made by a correction of its authors or of the maintainers of its code, and what changed in its facts. The texts of the paper (its abstract, its availability statements) are not part of it; versions that changed only those are not listed.
Version 2, 28 September 2026
- Authors: added Zhiqiang Zhang (0000-0002-3993-7330); removed Zhiqiang Zhang
- Funding: added National Natural Science Foundation of China: 82127806, 2018YFA0701703; Nanjing Medical University; National Key Research and Development Program of China: 2018YFA0701703, 82127806
Version 1, 27 September 2026: the first record
Recorded: type, language, journal, volume, issue, pages, dates, 22 authors, 5 keywords, 58 references.
Cite
This paper
Wang, Y., Chen, H., Su, K., Li, J., Zhan, T., Kong, L., Xu, Q., Liu, G., Su, X., You, W., Xia, J., Zhang, J., Tian, W., Liao, W., Yue, Q., Zhang, B., Liao, W., Xing, W., Mantini, D., . . . Multi-Centre Cooperative Clinical Study Group for “Lesion-Phenotype Brain Mapping in Brain Tumours”. (2026). Spatial pattern-driven interpretable model and biological correlates in brain glioblastoma-lymphoma differentiation. iScience, 29(9), 117281. https://
BibTeX
@article{wang2026spatial
author = {Wang, Yi and Chen, Haohui and Su, Kaiyan and Li, Jianrui and Zhan, Tianliang and Kong, Lingyu and Xu, Qiang and Liu, Gaoping and Su, Xiaorui and You, Wei and Xia, Jianguo and Zhang, Ji and Tian, Weizhong and Liao, Wei and Yue, Qiang and Zhang, Bing and Liao, Weihua and Xing, Wei and Mantini, Dante and Lu, Guangming and Zhang, Zhiqiang and {Multi-Centre Cooperative Clinical Study Group for “Lesion-Phenotype Brain Mapping in Brain Tumours”}},
title = {{Spatial pattern-driven interpretable model and biological correlates in brain glioblastoma-lymphoma differentiation}},
journal = {iScience},
year = {2026},
month = aug,
volume = {29},
number = {9},
pages = {117281},
publisher = {Elsevier},
issn = {2589-0042},
doi = {10.1016/
url = {https://
pmid = {42668694},
pmcid = {PMC13524760}
}
RIS
TY - JOUR
AU - Wang, Yi
AU - Chen, Haohui
AU - Su, Kaiyan
AU - Li, Jianrui
AU - Zhan, Tianliang
AU - Kong, Lingyu
AU - Xu, Qiang
AU - Liu, Gaoping
AU - Su, Xiaorui
AU - You, Wei
AU - Xia, Jianguo
AU - Zhang, Ji
AU - Tian, Weizhong
AU - Liao, Wei
AU - Yue, Qiang
AU - Zhang, Bing
AU - Liao, Weihua
AU - Xing, Wei
AU - Mantini, Dante
AU - Lu, Guangming
AU - Zhang, Zhiqiang
AU - Multi-Centre Cooperative Clinical Study Group for “Lesion-Phenotype Brain Mapping in Brain Tumours”
TI - Spatial pattern-driven interpretable model and biological correlates in brain glioblastoma-lymphoma differentiation
T2 - iScience
J2 - iScience
PY - 2026
DA - 2026/
VL - 29
IS - 9
SP - 117281
SN - 2589-0042
PB - Elsevier
DO - 10.1016/
UR - https://
LA - en
ER -
CSL-JSON
{
"id": "10.1016/
"type": "article-journal",
"title": "Spatial pattern-driven interpretable model and biological correlates in brain glioblastoma-lymphoma differentiation",
"container-title": "iScience",
"author": [
{
"family": "Wang",
"given": "Yi"
},
{
"family": "Chen",
"given": "Haohui"
},
{
"family": "Su",
"given": "Kaiyan"
},
{
"family": "Li",
"given": "Jianrui"
},
{
"family": "Zhan",
"given": "Tianliang"
},
{
"family": "Kong",
"given": "Lingyu"
},
{
"family": "Xu",
"given": "Qiang"
},
{
"family": "Liu",
"given": "Gaoping"
},
{
"family": "Su",
"given": "Xiaorui"
},
{
"family": "You",
"given": "Wei"
},
{
"family": "Xia",
"given": "Jianguo"
},
{
"family": "Zhang",
"given": "Ji"
},
{
"family": "Tian",
"given": "Weizhong"
},
{
"family": "Liao",
"given": "Wei"
},
{
"family": "Yue",
"given": "Qiang"
},
{
"family": "Zhang",
"given": "Bing"
},
{
"family": "Liao",
"given": "Weihua"
},
{
"family": "Xing",
"given": "Wei"
},
{
"family": "Mantini",
"given": "Dante"
},
{
"family": "Lu",
"given": "Guangming"
},
{
"family": "Zhang",
"given": "Zhiqiang"
},
{
"literal": "Multi-Centre Cooperative Clinical Study Group for “Lesion-Phenotype Brain Mapping in Brain Tumours”"
}
],
"container-title-short":
"volume": "29",
"issue": "9",
"page": "117281",
"DOI": "10.1016/
"PMID": "42668694",
"PMCID": "PMC13524760",
"ISSN": "2589-0042",
"publisher": "Elsevier",
"URL": "https://
"language": "en",
"issued": {
"date-parts": [
[
2026,
8,
21
]
]
}
}
The tracing map gets a citation of its own once an author has validated it and it has a DOI.
Similar papers
The papers with a page that share the most with this one: the tools found in their code, their categories, datasets, cited references and authors, the rarest counting most.
- [1] doi:10.1038/s41586-026-10631-3 [code]
- A prognostic human brain network for diffuse midline glioma.Journal: NatureIn common: SPM, Image Processing Toolbox, NiBabel, 3 other tools, other condition, 4 references
- [2] doi:10.1038/s41598-026-56688-y [code]
- On the value of radiomics in addition to clinical measures in emotional conflict fMRI for predicting sertraline response in major depressive disorder.Journal: Scientific reportsIn common: neuroHarmonize, SPM, NiBabel, 3 other tools, 2 references
- [3] doi:10.1038/s41398-026-04426-3 [code]
- Resting-state brain age is associated with cognitive and sensorimotor abnormalities in schizophrenia spectrum disorders: a validation &
amp; longitudinal study. Journal: Translational psychiatryIn common: neuroHarmonize, neuroCombat, NiBabel, 3 other tools, 1 reference - [4] doi:10.1038/s41467-026-73072-6 [code]
- Mapping the spatiotemporal continuum of structural connectivity development across the human connectome in youth.Journal: Nature communicationsIn common: neuroHarmonize, neuroCombat, NiBabel, 3 other tools, 1 reference
- [5] doi:10.1038/s41467-026-74153-2 [code]
- Regional, functional and transcriptomic decoding of multidimensional brain structure alterations in obsessive-compulsive disorder.Journal: Nature communicationsIn common: neuroCombat, SPM, NiBabel, 3 other tools, genetics / omics, other condition, 1 reference
- [6] doi:10.1371/journal.pone.0343722 [code]
- Comprehensive methodology for sample enrichment in EEG biomarker studies for Alzheimer's risk classification.Journal: PloS oneIn common: neuroHarmonize, neuroCombat, statsmodels, 2 other tools, 1 reference
- [7] doi:10.1038/s41398-026-03965-z [code]
- Disentangling individual heterogeneity reveals robust network and molecular signatures of major depressive disorder with suicidal ideation.Journal: Translational psychiatryIn common: SPM, NiBabel, statsmodels, 3 other tools, genetics / omics, 2 references
- [8] doi:10.1016/j.nicl.2026.104012 [code]
- Structural-functional multilayer brain network properties and outcome of combined repetitive transcranial magnetic stimulation and psychotherapy for obsessive-compulsive disorder.Journal: NeuroImage. ClinicalIn common: SPM, Image Processing Toolbox, NiBabel, 4 other tools, other condition, 1 reference
- [9] doi:10.1038/s41593-026-02359-0 [code]
- The cross-site reproducibility of MRI morphometric phenotypes in psychiatric disorders.Journal: Nature neuroscienceIn common: neuroCombat, SPM, Image Processing Toolbox, 4 other tools
- [10] doi:10.1371/journal.pbio.3003856 [code]
- Aging and metabolism contribute separately to brain-body health.Journal: PLoS biologyIn common: SPM, Image Processing Toolbox, NiBabel, 4 other tools, 1 reference
Contribute
The authors of this paper can claim it, correct its record and validate its tracing map, and the maintainers of its code (its owner, or a public member of its organization) correct what it says of their repository; anyone signed in can ask for its removal. Every request goes to OSCR's own machine, which answers it; your account page follows them.
Sign in with ORCID to claim this paper as one of its authors, correct its record or validate its tracing map: when the paper's metadata lists your ORCID iD, you are recognized at once. Maintainers of its code: sign in with GitHub, then claim the repository on your account page.
Claim this paper
Correct its record
Say what each link of this record is, remove the ones that are not the paper's, add the ones that are missing. The correction becomes a new version of the record, in its Versions section.
Validate its tracing map
You validate the map as this page shows it: 3 repositories of the authors' code, each at its verified commit and with its license, 90 scripts, and 2 matches between paragraphs and code (see the Code and Map sections). It then receives a DOI on Zenodo, with you (your ORCID iD) and OSCR as its creators; the code itself is not deposited.
The map's fingerprint: sha256:671b19ed79e889e9…
Add the badge to its README
The badge links the code to this page. Copy one of these into the README of the paper's code: only you decide where it goes, and nothing is changed for you.
Markdown
[, paste the snippet at the top, then “Commit changes…” and, to review it first, “Create a new branch and start a pull request”. You open the pull request; OSCR asks for no permission.
Request its removal
To ask OSCR to remove this record, the copies of its authors' scripts or its tracing map, use the removal request page: signed in, you say who you are, what to remove and why, then review and confirm the request. Published rules decide every request (how).
Discussion, reproductions, activity
Discussion: questions and error reports about this paper and its code, from signed-in readers and its authors. It opens with sign-in.
Reproductions: reports from readers who ran the authors' code: what they reproduced, with which environment, commit and data. It opens with sign-in.
Activity: what happens around this paper: new versions of its record, its map's validation, discussions and reproductions. It opens with sign-in.
