← All .science files
pmid:37942135
Analysis of damage-associated molecular patterns in amyotrophic lateral sclerosis based on ScRNA-seq and bulk RNA-seq data.
Yue Shi · Ruixia Zhu
Frontiers in neuroscience · 2023 doi:10.3389/fnins.2023.1259742
Paper
complete
Experiment
partial
Data
partial
Analysis
partial
Execution
absent
Execution evidence has not yet been added to this .science file. Explore its methods, data and open questions to plan the next step.
Record details sci_version · id · kind · revision · content_hash · schema · created_at · updated_at · generator
paper object · 10 fields
authors array · 2 items
claims array · 1 item
gaps array · 0 items
experiment object · 8 fields
steps array · 3 items
[0] object · 13 fields
parameters object · 0 fields
inputs array · 1 item
outputs array · 1 item
instruments array · 0 items
reagents array · 0 items
[1] object · 13 fields
parameters object · 0 fields
inputs array · 1 item
outputs array · 1 item
instruments array · 0 items
reagents array · 0 items
[2] object · 13 fields
parameters object · 0 fields
inputs array · 1 item
outputs array · 1 item
instruments array · 0 items
reagents array · 0 items
materials array · 0 items
instruments array · 0 items
reagents array · 0 items
conditions object · 0 fields
gaps array · 1 item
data object · 3 fields
assets array · 5 items
[0] object · 15 fields
structure object · 4 fields
[1] object · 15 fields
structure object · 15 fields
sample_accessions array · 741 items
[2] object · 15 fields
structure object · 15 fields
sample_accessions array · 376 items
[3] object · 15 fields
structure object · 15 fields
sample_accessions array · 1117 items
[4] object · 15 fields
structure object · 15 fields
sample_accessions array · 66 items
gaps array · 8 items
analysis object · 4 fields
methods array · 3 items
[0] object · 10 fields
dsl_operations array · 0 items
missing_operations array · 1 item
parameters object · 0 fields
data_shapes array · 1 item
[1] object · 10 fields
dsl_operations array · 1 item
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[2] object · 10 fields
dsl_operations array · 1 item
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
targets array · 0 items
gaps array · 1 item
capability object · 3 fields
requirements array · 1 item
[0] object · 6 fields
assay_families array · 9 items
gaps array · 0 items
readiness object · 8 fields
axes object · 3 fields
method object · 5 fields
required_operations array · 0 items
missing_operations array · 1 item
capability object · 4 fields
data object · 6 fields
accessions array · 4 items
resolved_accessions array · 4 items
statements array · 1 item
can_run object · 3 fields
dsl_operations array · 0 items
assets array · 2 items
steps array · 0 items
must_build object · 5 fields
dsl_operations array · 1 item
[0] object · 3 fields
converters array · 0 items
readers array · 0 items
capabilities array · 0 items
data_gaps array · 1 item
gaps array · 0 items
review object · 5 fields
machine_critique object · 5 fields
reader object · 5 fields
evidence_check object · 2 fields
usage object · 3 fields
stages array · 1 item
[0] object · 4 fields
gaps array · 3 items
provenance object · 7 fields
entities array · 3 items
activities array · 3 items
[0] object · 4 fields
used array · 3 items
[0] object · 3 fields
[1] object · 3 fields
[2] object · 3 fields
[1] object · 4 fields
agents array · 2 items
lineage object · 4 fields
gaps array · 14 items
assays array · 3 items
[0] object · 11 fields
required_operations array · 0 items
source_hashes object · 1 field
evidence array · 4 items
[1] object · 11 fields
required_operations array · 0 items
source_hashes object · 1 field
evidence array · 4 items
[2] object · 11 fields
required_operations array · 0 items
source_hashes object · 1 field
evidence array · 1 item
Complete file
{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:37942135", "kind": "science-record", "revision": 4, "content_hash": "sha256:3dff4653203bebf87d7d8ee14d59e9f6007f9e6793b40df3d740d58a6cc76e63", "created_at": "2026-11-01T19:02:50Z", "updated_at": "2026-11-01T22:10:37Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Analysis of damage-associated molecular patterns in amyotrophic lateral sclerosis based on ScRNA-seq and bulk RNA-seq data.", "doi": "10.3389/fnins.2023.1259742", "pmid": "37942135", "authors": ["Yue Shi", "Ruixia Zhu"], "journal": "Frontiers in neuroscience", "year": 2023, "abstract": "Background: Amyotrophic Lateral Sclerosis (ALS) is a devastating neurodegenerative disorder characterized by the progressive loss of motor neurons. Despite extensive research, the exact etiology of ALS remains elusive. Emerging evidence highlights the critical role of the immune system in ALS pathogenesis and progression. Damage-Associated Molecular Patterns (DAMPs) are endogenous molecules released by stressed or damaged cells, acting as danger signals and activating immune responses. However, their specific involvement in ALS remains unclear.\nMethods: We obtained single-cell RNA sequencing (scRNA-seq) data of ALS from the primary motor cortex in the Gene Expression Omnibus (GEO) database. To better understand genes associated with DAMPs, we performed analyses on cell-cell communication and trajectory. The abundance of immune-infiltrating cells was assessed using the single-sample Gene Set Enrichment Analysis (ssGSEA) method. We performed univariate Cox analysis to construct the risk model and utilized the least absolute shrinkage and selection operator (LASSO) analysis. Finally, we identified potential small molecule drugs targeting ALS by screening the Connectivity Map database (CMap) and confirmed their potential through molecular docking analysis.\nResults: Our study annotated 10 cell types, with the expression of genes related to DAMPs predominantly observed in microglia. Analysis of intercellular communication revealed 12 ligand-receptor pairs in the pathways associated with DAMPs, where microglial cells acted as ligands. Among these pairs, the SPP1-CD44 pair demonstrated the greatest contribution. Furthermore, trajectory analysis demonstrated distinct differentiation fates of different microglial states. Additionally, we constructed a risk model incorporating four genes (TRPM2, ROCK1, HSP90AA1, and HSPA4). The validity of the risk model was supported by multivariate analysis. Moreover, external validation from dataset GSE112681 confirmed the predictive power of the model, which yielded consistent results with datasets GSE112676 and GSE112680. Lastly, the molecular docking analysis suggested that five compounds, namely mead-acid, nifedipine, nifekalant, androstenol, and hydrastine, hold promise as potential candidates for the treatment of ALS.\nConclusion: Taken together, our study demonstrated that DAMP entities were predominantly observed in microglial cells within the context of ALS. The utilization of a prognostic risk model can accurately predict ALS patient survival. Additionally, genes related to DAMPs may present viable drug targets for ALS therapy.", "claims": [{"id": "claim-data-access", "statement": "The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding author.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37942135", "locator": "sections[22] \"Data availability statement\" paragraph 2", "quote": "The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding author."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "The risk score exhibited excellent predictive accuracy for overall survival in these subjects, with an area under the curve (AUC) of 0.74 and 0.78 for 3-year and 5-year overall survival, respectively (Figure 6E).", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:37942135"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. This lane did not download the dataset or read its licence.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE112676"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "blocked", "blocked_on": "method:group_comparison_wilcoxon", "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE112676"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": ["step:run_analysis blocked on method:group_comparison_wilcoxon"]}, "data": {"state": "partial", "assets": [{"id": "source:pmid:37942135", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.3389/fnins.2023.1259742", "sha256": "sha256:fd589497327427af7778ab485a35827d53d5053f63f7fcdbbd416d181ed591cc", "bytes": 60694, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.3389/fnins.2023.1259742", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC10628000", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE112676", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE112676", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE112676", "version": null, "note": "The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding author.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding author.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM3076582", "GSM3076584", "GSM3076586", "GSM3076588", "GSM3076590", "GSM3076592", "GSM3076593", "GSM3076595", "GSM3076597", "GSM3076598", "GSM3076600", "GSM3076602", "GSM3076604", "GSM3076607", "GSM3076608", "GSM3076611", "GSM3076613", "GSM3076615", "GSM3076617", "GSM3076619", "GSM3076622", "GSM3076624", "GSM3076627", "GSM3076629", "GSM3076631", "GSM3076633", "GSM3076635", "GSM3076637", "GSM3076640", "GSM3076642", "GSM3076644", "GSM3076647", "GSM3076649", "GSM3076651", "GSM3076653", "GSM3076655", "GSM3076657", "GSM3076659", "GSM3076661", "GSM3076662", "GSM3076665", "GSM3076667", "GSM3076669", "GSM3076671", "GSM3076673", "GSM3076675", "GSM3076677", "GSM3076679", "GSM3076681", "GSM3076683", "GSM3076686", "GSM3076688", "GSM3076690", "GSM3076692", "GSM3076693", "GSM3076695", "GSM3076697", "GSM3076699", "GSM3076701", "GSM3076702", "GSM3076704", "GSM3076706", "GSM3076708", "GSM3076710", "GSM3076712", "GSM3076714", "GSM3076716", "GSM3076718", "GSM3076720", "GSM3076722", "GSM3076725", "GSM3076727", "GSM3076729", "GSM3076731", "GSM3076733", "GSM3076735", "GSM3076737", "GSM3076739", "GSM3076741", "GSM3076743", "GSM3076746", "GSM3076749", "GSM3076751", "GSM3076753", "GSM3076755", "GSM3076757", "GSM3076758", "GSM3076760", "GSM3076762", "GSM3076763", "GSM3076765", "GSM3076767", "GSM3076768", "GSM3076770", "GSM3076771", "GSM3076772", "GSM3076774", "GSM3076775", "GSM3076777", "GSM3076779", "GSM3076780", "GSM3076782", "GSM3076784", "GSM3076786", "GSM3076788", "GSM3076789", "GSM3076793", "GSM3076794", "GSM3076796", "GSM3076798", "GSM3076800", "GSM3076806", "GSM3076808", "GSM3076810", "GSM3076812", "GSM3076813", "GSM3076815", "GSM3076817", "GSM3076818", "GSM3076820", "GSM3076821", "GSM3076823", "GSM3076824", "GSM3076826", "GSM3076828", "GSM3076830", "GSM3076832", "GSM3076834", "GSM3076836", "GSM3076837", "GSM3076839", "GSM3076842", "GSM3076843", "GSM3076845", "GSM3076847", "GSM3076849", "GSM3076851", "GSM3076854", "GSM3076856", "GSM3076858", "GSM3076860", "GSM3076862", "GSM3076863", "GSM3076865", "GSM3076867", "GSM3076869", "GSM3076871", "GSM3076873", "GSM3076875", "GSM3076877", "GSM3076879", "GSM3076880", "GSM3076882", "GSM3076884", "GSM3076886", "GSM3076888", "GSM3076889", "GSM3076891", "GSM3076893", "GSM3076895", "GSM3076897", "GSM3076899", "GSM3076901", "GSM3076903", "GSM3076905", "GSM3076907", "GSM3076910", "GSM3076911", "GSM3076913", "GSM3076916", "GSM3076918", "GSM3076920", "GSM3076923", "GSM3076925", "GSM3076927", "GSM3076929", "GSM3076931", "GSM3076933", "GSM3076935", "GSM3076937", "GSM3076939", "GSM3076941", "GSM3076943", "GSM3076945", "GSM3076947", "GSM3076949", "GSM3076951", "GSM3076955", "GSM3076956", "GSM3076958", "GSM3076959", "GSM3076961", "GSM3076963", "GSM3076964", "GSM3076966", "GSM3076969", "GSM3076971", "GSM3076972", "GSM3076974", "GSM3076976", "GSM3076978", "GSM3076980", "GSM3076982", "GSM3076984", "GSM3076985", "GSM3076986", "GSM3076989", "GSM3076991", "GSM3076994", "GSM3076997", "GSM3076999", "GSM3077002", "GSM3077004", "GSM3077006", "GSM3077008", "GSM3077015", "GSM3077018", "GSM3077022", "GSM3077024", "GSM3077027", "GSM3077030", "GSM3077032", "GSM3077035", "GSM3077037", "GSM3077039", "GSM3077042", "GSM3077044", "GSM3077047", "GSM3077050", "GSM3077052", "GSM3077055", "GSM3077059", "GSM3077061", "GSM3077063", "GSM3077066", "GSM3077068", "GSM3077071", "GSM3077073", "GSM3077076", "GSM3077079", "GSM3077081", "GSM3077084", "GSM3077086", "GSM3077088", "GSM3077090", "GSM3077093", "GSM3077096", "GSM3077098", "GSM3077101", "GSM3077103", "GSM3077105", "GSM3077107", "GSM3077110", "GSM3077112", "GSM3077114", "GSM3077117", "GSM3077119", "GSM3077122", "GSM3077124", "GSM3077129", "GSM3077133", "GSM3077134", "GSM3077136", "GSM3077138", "GSM3077141", "GSM3077143", "GSM3077146", "GSM3077148", "GSM3077150", "GSM3077153", "GSM3077156", "GSM3077158", "GSM3077160", "GSM3077162", "GSM3077165", "GSM3077170", "GSM3077172", "GSM3077174", "GSM3077177", "GSM3077179", "GSM3077189", "GSM3077192", "GSM3077194", "GSM3077196", "GSM3077199", "GSM3077201", "GSM3077203", "GSM3077205", "GSM3077209", "GSM3077211", "GSM3077213", "GSM3077215", "GSM3077217", "GSM3077219", "GSM3077221", "GSM3077224", "GSM3077227", "GSM3077229", "GSM3077231", "GSM3077240", "GSM3077244", "GSM3077246", "GSM3077248", "GSM3077251", "GSM3077253", "GSM3077254", "GSM3077256", "GSM3077259", "GSM3077261", "GSM3077266", "GSM3077269", "GSM3077272", "GSM3077274", "GSM3077276", "GSM3077278", "GSM3077281", "GSM3077283", "GSM3077285", "GSM3077287", "GSM3077290", "GSM3077293", "GSM3077295", "GSM3077300", "GSM3077303", "GSM3077305", "GSM3077307", "GSM3077311", "GSM3077313", "GSM3077315", "GSM3077318", "GSM3077321", "GSM3077323", "GSM3077325", "GSM3077330", "GSM3077332", "GSM3077334", "GSM3077336", "GSM3077338", "GSM3077340", "GSM3077342", "GSM3077344", "GSM3077350", "GSM3077352", "GSM3077355", "GSM3077357", "GSM3077359", "GSM3077361", "GSM3077364", "GSM3077366", "GSM3077368", "GSM3077370", "GSM3077372", "GSM3077374", "GSM3077377", "GSM3077380", "GSM3077383", "GSM3077386", "GSM3077388", "GSM3077391", "GSM3077393", "GSM3077396", "GSM3077398", "GSM3077401", "GSM3077404", "GSM3077406", "GSM3077408", "GSM3077410", "GSM3077412", "GSM3077414", "GSM3077416", "GSM3077419", "GSM3077422", "GSM3077424", "GSM3077425", "GSM3077426", "GSM3077428", "GSM3077430", "GSM3077441", "GSM3077449", "GSM3077452", "GSM3077454", "GSM3077456", "GSM3077459", "GSM3077461", "GSM3077464", "GSM3077467", "GSM3077469", "GSM3077473", "GSM3077476", "GSM3077483", "GSM3077485", "GSM3077487", "GSM3077489", "GSM3077492", "GSM3077495", "GSM3077497", "GSM3077500", "GSM3077505", "GSM3077508", "GSM3077510", "GSM3077512", "GSM3077514", "GSM3077517", "GSM3077520", "GSM3077522", "GSM3077533", "GSM3077536", "GSM3077539", "GSM3077542", "GSM3077544", "GSM3077551", "GSM3077556", "GSM3077559", "GSM3077561", "GSM3077563", "GSM3077566", "GSM3077568", "GSM3077571", "GSM3077573", "GSM3077575", "GSM3077577", "GSM3077579", "GSM3077582", "GSM3077589", "GSM3077591", "GSM3077594", "GSM3077597", "GSM3077599", "GSM3077601", "GSM3077604", "GSM3077607", "GSM3077609", "GSM3077611", "GSM3077614", "GSM3077616", "GSM3077619", "GSM3077621", "GSM3077623", "GSM3077625", "GSM3077627", "GSM3077630", "GSM3077633", "GSM3077636", "GSM3077638", "GSM3077641", "GSM3077643", "GSM3077647", "GSM3077650", "GSM3077652", "GSM3077655", "GSM3077658", "GSM3077660", "GSM3077663", "GSM3077665", "GSM3077668", "GSM3077670", "GSM3077673", "GSM3077675", "GSM3077677", "GSM3077679", "GSM3077682", "GSM3077684", "GSM3077689", "GSM3077692", "GSM3077694", "GSM3077696", "GSM3077698", "GSM3077701", "GSM3077704", "GSM3077707", "GSM3077710", "GSM3077712", "GSM3077714", "GSM3077716", "GSM3077719", "GSM3077721", "GSM3077724", "GSM3077727", "GSM3077729", "GSM3077732", "GSM3077734", "GSM3077736", "GSM3077739", "GSM3077741", "GSM3077748", "GSM3077750", "GSM3077753", "GSM3077757", "GSM3077760", "GSM3077767", "GSM3077770", "GSM3077773", "GSM3077776", "GSM3077778", "GSM3077780", "GSM3077787", "GSM3077790", "GSM3077792", "GSM3077794", "GSM3077796", "GSM3077799", "GSM3077801", "GSM3077804", "GSM3077807", "GSM3077810", "GSM3077813", "GSM3077816", "GSM3077818", "GSM3077820", "GSM3077822", "GSM3077825", "GSM3077827", "GSM3077830", "GSM3077833", "GSM3077836", "GSM3077838", "GSM3077841", "GSM3077843", "GSM3077846", "GSM3077849", "GSM3077851", "GSM3077853", "GSM3077856", "GSM3077859", "GSM3077863", "GSM3077867", "GSM3077871", "GSM3077874", "GSM3077878", "GSM3077881", "GSM3077884", "GSM3077886", "GSM3077889", "GSM3077894", "GSM3077896", "GSM3077899", "GSM3077901", "GSM3077904", "GSM3077906", "GSM3077909", "GSM3077911", "GSM3077914", "GSM3077916", "GSM3077919", "GSM3077921", "GSM3077923", "GSM3077925", "GSM3077928", "GSM3077930", "GSM3077934", "GSM3077936", "GSM3077939", "GSM3077942", "GSM3077944", "GSM3077947", "GSM3077950", "GSM3077952", "GSM3077954", "GSM3077957", "GSM3077963", "GSM3077966", "GSM3077969", "GSM3077971", "GSM3077975", "GSM3077977", "GSM3077979", "GSM3077982", "GSM3077984", "GSM3077986", "GSM3077989", "GSM3077991", "GSM3077994", "GSM3077997", "GSM3077999", "GSM3078002", "GSM3078004", "GSM3078006", "GSM3078009", "GSM3078011", "GSM3078013", "GSM3078014", "GSM3078017", "GSM3078021", "GSM3078024", "GSM3078026", "GSM3078029", "GSM3078031", "GSM3078033", "GSM3078036", "GSM3078038", "GSM3078041", "GSM3078045", "GSM3078047", "GSM3078049", "GSM3078056", "GSM3078064", "GSM3078066", "GSM3078068", "GSM3078071", "GSM3078077", "GSM3078079", "GSM3078082", "GSM3078084", "GSM3078087", "GSM3078090", "GSM3078095", "GSM3078097", "GSM3078099", "GSM3078101", "GSM3078103", "GSM3078105", "GSM3078111", "GSM3078113", "GSM3078116", "GSM3078118", "GSM3078121", "GSM3078123", "GSM3078126", "GSM3078128", "GSM3078137", "GSM3078139", "GSM3078141", "GSM3078144", "GSM3078147", "GSM3078149", "GSM3078152", "GSM3078154", "GSM3078156", "GSM3078159", "GSM3078161", "GSM3078166", "GSM3078169", "GSM3078171", "GSM3078174", "GSM3078176", "GSM3078178", "GSM3078181", "GSM3078188", "GSM3078190", "GSM3078192", "GSM3078195", "GSM3078198", "GSM3078200", "GSM3078201", "GSM3078210", "GSM3078212", "GSM3078216", "GSM3078218", "GSM3078221", "GSM3078225", "GSM3078227", "GSM3078230", "GSM3078232", "GSM3078234", "GSM3078237", "GSM3078239", "GSM3078242", "GSM3078244", "GSM3078247", "GSM3078250", "GSM3078252", "GSM3078255", "GSM3078258", "GSM3078261", "GSM3078263", "GSM3078266", "GSM3078268", "GSM3078271", "GSM3078279", "GSM3078281", "GSM3078285", "GSM3078287", "GSM3078290", "GSM3078292", "GSM3078294", "GSM3078297", "GSM3078299", "GSM3078304", "GSM3078306", "GSM3078314", "GSM3078316", "GSM3078326", "GSM3078329", "GSM3078331", "GSM3078335", "GSM3078342", "GSM3078345", "GSM3078348", "GSM3078351", "GSM3078353", "GSM3078355", "GSM3078357", "GSM3078360", "GSM3078362", "GSM3078364", "GSM3078366", "GSM3078368", "GSM3078370", "GSM3078372", "GSM3078374", "GSM3078378", "GSM3078380", "GSM3078383", "GSM3078385", "GSM3078387", "GSM3078390", "GSM3078399", "GSM3078407", "GSM3078417", "GSM3078419", "GSM3078422", "GSM3078425", "GSM3078429", "GSM3078432", "GSM3078439", "GSM3078441", "GSM3078444", "GSM3078447", "GSM3078457", "GSM3078459", "GSM3078461", "GSM3078468", "GSM3078471", "GSM3078473", "GSM3078476", "GSM3078478", "GSM3078481", "GSM3078483", "GSM3078485", "GSM3078487", "GSM3078489", "GSM3078491", "GSM3078494", "GSM3078495", "GSM3078497", "GSM3078499", "GSM3078502", "GSM3078503", "GSM3078505", "GSM3078507", "GSM3078510"], "sample_count": 741, "group_sizes": null, "group_sizes_basis": null, "platform": "6947", "taxon": "Homo sapiens", "title": "Whole blood transcriptome analysis in amyotrophic lateral sclerosis: a biomarker study [HT12_V3]", "resolution_checked_at": "2026-11-01T19:09:46Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "data:geo:GSE112680", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE112680", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE112680", "version": null, "note": "The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding author.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding author.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM3079737", "GSM3079740", "GSM3079742", "GSM3079744", "GSM3079746", "GSM3079749", "GSM3079751", "GSM3079753", "GSM3079756", "GSM3079758", "GSM3079760", "GSM3079762", "GSM3079763", "GSM3079765", "GSM3079768", "GSM3079770", "GSM3079772", "GSM3079774", "GSM3079776", "GSM3079779", "GSM3079781", "GSM3079783", "GSM3079785", "GSM3079787", "GSM3079789", "GSM3079792", "GSM3079794", "GSM3079796", "GSM3079799", "GSM3079801", "GSM3079803", "GSM3079805", "GSM3079807", "GSM3079812", "GSM3079819", "GSM3079821", "GSM3079823", "GSM3079824", "GSM3079826", "GSM3079827", "GSM3079829", "GSM3079831", "GSM3079832", "GSM3079834", "GSM3079835", "GSM3079837", "GSM3079838", "GSM3079840", "GSM3079841", "GSM3079843", "GSM3079845", "GSM3079849", "GSM3079851", "GSM3079853", "GSM3079855", "GSM3079857", "GSM3079859", "GSM3079861", "GSM3079863", "GSM3079864", "GSM3079865", "GSM3079866", "GSM3079867", "GSM3079868", "GSM3079869", "GSM3079870", "GSM3079871", "GSM3079872", "GSM3079873", "GSM3079874", "GSM3079875", "GSM3079876", "GSM3079877", "GSM3079878", "GSM3079879", "GSM3079880", "GSM3079881", "GSM3079882", "GSM3079883", "GSM3079884", "GSM3079885", "GSM3079886", "GSM3079887", "GSM3079888", "GSM3079889", "GSM3079890", "GSM3079891", "GSM3079892", "GSM3079893", "GSM3079894", "GSM3079895", "GSM3079896", "GSM3079897", "GSM3079898", "GSM3079899", "GSM3079900", "GSM3079901", "GSM3079902", "GSM3079903", "GSM3079904", "GSM3079905", "GSM3079906", "GSM3079907", "GSM3079908", "GSM3079909", "GSM3079910", "GSM3079911", "GSM3079912", "GSM3079913", "GSM3079914", "GSM3079915", "GSM3079916", "GSM3079917", "GSM3079918", "GSM3079919", "GSM3079920", "GSM3079921", "GSM3079922", "GSM3079923", "GSM3079924", "GSM3079925", "GSM3079926", "GSM3079927", "GSM3079928", "GSM3079929", "GSM3079930", "GSM3079931", "GSM3079932", "GSM3079933", "GSM3079934", "GSM3079935", "GSM3079936", "GSM3079937", "GSM3079938", "GSM3079939", "GSM3079940", "GSM3079941", "GSM3079942", "GSM3079943", "GSM3079944", "GSM3079945", "GSM3079946", "GSM3079947", "GSM3079948", "GSM3079949", "GSM3079950", "GSM3079951", "GSM3079952", "GSM3079953", "GSM3079954", "GSM3079955", "GSM3079956", "GSM3079957", "GSM3079958", "GSM3079959", "GSM3079960", "GSM3079961", "GSM3079962", "GSM3079963", "GSM3079964", "GSM3079965", "GSM3079966", "GSM3079967", "GSM3079968", "GSM3079969", "GSM3079970", "GSM3079971", "GSM3079972", "GSM3079973", "GSM3079974", "GSM3079975", "GSM3079976", "GSM3079977", "GSM3079978", "GSM3079979", "GSM3079980", "GSM3079981", "GSM3079982", "GSM3079983", "GSM3079984", "GSM3079985", "GSM3079986", "GSM3079987", "GSM3079988", "GSM3079989", "GSM3079990", "GSM3079991", "GSM3079992", "GSM3079993", "GSM3079994", "GSM3079995", "GSM3079996", "GSM3079997", "GSM3079998", "GSM3079999", "GSM3080000", "GSM3080001", "GSM3080002", "GSM3080003", "GSM3080004", "GSM3080005", "GSM3080006", "GSM3080007", "GSM3080008", "GSM3080009", "GSM3080010", "GSM3080011", "GSM3080012", "GSM3080013", "GSM3080014", "GSM3080015", "GSM3080016", "GSM3080017", "GSM3080018", "GSM3080019", "GSM3080020", "GSM3080021", "GSM3080022", "GSM3080023", "GSM3080024", "GSM3080025", "GSM3080026", "GSM3080027", "GSM3080028", "GSM3080029", "GSM3080030", "GSM3080031", "GSM3080032", "GSM3080033", "GSM3080034", "GSM3080035", "GSM3080036", "GSM3080037", "GSM3080038", "GSM3080039", "GSM3080040", "GSM3080041", "GSM3080042", "GSM3080043", "GSM3080044", "GSM3080045", "GSM3080046", "GSM3080047", "GSM3080048", "GSM3080049", "GSM3080050", "GSM3080051", "GSM3080052", "GSM3080053", "GSM3080054", "GSM3080055", "GSM3080056", "GSM3080057", "GSM3080058", "GSM3080059", "GSM3080060", "GSM3080061", "GSM3080062", "GSM3080063", "GSM3080064", "GSM3080065", "GSM3080066", "GSM3080067", "GSM3080068", "GSM3080069", "GSM3080070", "GSM3080071", "GSM3080072", "GSM3080073", "GSM3080074", "GSM3080075", "GSM3080076", "GSM3080077", "GSM3080078", "GSM3080079", "GSM3080080", "GSM3080081", "GSM3080082", "GSM3080083", "GSM3080084", "GSM3080085", "GSM3080086", "GSM3080087", "GSM3080088", "GSM3080089", "GSM3080090", "GSM3080091", "GSM3080092", "GSM3080093", "GSM3080094", "GSM3080095", "GSM3080096", "GSM3080097", "GSM3080098", "GSM3080099", "GSM3080100", "GSM3080101", "GSM3080102", "GSM3080103", "GSM3080104", "GSM3080105", "GSM3080106", "GSM3080107", "GSM3080108", "GSM3080109", "GSM3080110", "GSM3080111", "GSM3080112", "GSM3080113", "GSM3080114", "GSM3080115", "GSM3080116", "GSM3080117", "GSM3080118", "GSM3080119", "GSM3080120", "GSM3080121", "GSM3080122", "GSM3080123", "GSM3080124", "GSM3080125", "GSM3080126", "GSM3080127", "GSM3080128", "GSM3080129", "GSM3080130", "GSM3080131", "GSM3080132", "GSM3080133", "GSM3080134", "GSM3080135", "GSM3080136", "GSM3080137", "GSM3080138", "GSM3080139", "GSM3080140", "GSM3080141", "GSM3080142", "GSM3080143", "GSM3080144", "GSM3080145", "GSM3080146", "GSM3080147", "GSM3080148", "GSM3080149", "GSM3080150", "GSM3080151", "GSM3080152", "GSM3080153", "GSM3080154", "GSM3080155", "GSM3080156", "GSM3080157", "GSM3080158", "GSM3080159", "GSM3080160", "GSM3080161", "GSM3080162", "GSM3080163", "GSM3080164", "GSM3080165", "GSM3080166", "GSM3080167", "GSM3080168", "GSM3080169", "GSM3080170", "GSM3080171", "GSM3080172", "GSM3080173", "GSM3080174", "GSM3080175", "GSM3080176", "GSM3080177", "GSM3080178", "GSM3080179", "GSM3080180"], "sample_count": 376, "group_sizes": null, "group_sizes_basis": null, "platform": "10558", "taxon": "Homo sapiens", "title": "Whole blood transcriptome analysis in amyotrophic lateral sclerosis: a biomarker study [HT12_V4]", "resolution_checked_at": "2026-11-01T19:09:46Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "data:geo:GSE112681", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE112681", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE112681", "version": null, "note": "The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding author.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding author.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM3076582", "GSM3076584", "GSM3076586", "GSM3076588", "GSM3076590", "GSM3076592", "GSM3076593", "GSM3076595", "GSM3076597", "GSM3076598", "GSM3076600", "GSM3076602", "GSM3076604", "GSM3076607", "GSM3076608", "GSM3076611", "GSM3076613", "GSM3076615", "GSM3076617", "GSM3076619", "GSM3076622", "GSM3076624", "GSM3076627", "GSM3076629", "GSM3076631", "GSM3076633", "GSM3076635", "GSM3076637", "GSM3076640", "GSM3076642", "GSM3076644", "GSM3076647", "GSM3076649", "GSM3076651", "GSM3076653", "GSM3076655", "GSM3076657", "GSM3076659", "GSM3076661", "GSM3076662", "GSM3076665", "GSM3076667", "GSM3076669", "GSM3076671", "GSM3076673", "GSM3076675", "GSM3076677", "GSM3076679", "GSM3076681", "GSM3076683", "GSM3076686", "GSM3076688", "GSM3076690", "GSM3076692", "GSM3076693", "GSM3076695", "GSM3076697", "GSM3076699", "GSM3076701", "GSM3076702", "GSM3076704", "GSM3076706", "GSM3076708", "GSM3076710", "GSM3076712", "GSM3076714", "GSM3076716", "GSM3076718", "GSM3076720", "GSM3076722", "GSM3076725", "GSM3076727", "GSM3076729", "GSM3076731", "GSM3076733", "GSM3076735", "GSM3076737", "GSM3076739", "GSM3076741", "GSM3076743", "GSM3076746", "GSM3076749", "GSM3076751", "GSM3076753", "GSM3076755", "GSM3076757", "GSM3076758", "GSM3076760", "GSM3076762", "GSM3076763", "GSM3076765", "GSM3076767", "GSM3076768", "GSM3076770", "GSM3076771", "GSM3076772", "GSM3076774", "GSM3076775", "GSM3076777", "GSM3076779", "GSM3076780", "GSM3076782", "GSM3076784", "GSM3076786", "GSM3076788", "GSM3076789", "GSM3076793", "GSM3076794", "GSM3076796", "GSM3076798", "GSM3076800", "GSM3076806", "GSM3076808", "GSM3076810", "GSM3076812", "GSM3076813", "GSM3076815", "GSM3076817", "GSM3076818", "GSM3076820", "GSM3076821", "GSM3076823", "GSM3076824", "GSM3076826", "GSM3076828", "GSM3076830", "GSM3076832", "GSM3076834", "GSM3076836", "GSM3076837", "GSM3076839", "GSM3076842", "GSM3076843", "GSM3076845", "GSM3076847", "GSM3076849", "GSM3076851", "GSM3076854", "GSM3076856", "GSM3076858", "GSM3076860", "GSM3076862", "GSM3076863", "GSM3076865", "GSM3076867", "GSM3076869", "GSM3076871", "GSM3076873", "GSM3076875", "GSM3076877", "GSM3076879", "GSM3076880", "GSM3076882", "GSM3076884", "GSM3076886", "GSM3076888", "GSM3076889", "GSM3076891", "GSM3076893", "GSM3076895", "GSM3076897", "GSM3076899", "GSM3076901", "GSM3076903", "GSM3076905", "GSM3076907", "GSM3076910", "GSM3076911", "GSM3076913", "GSM3076916", "GSM3076918", "GSM3076920", "GSM3076923", "GSM3076925", "GSM3076927", "GSM3076929", "GSM3076931", "GSM3076933", "GSM3076935", "GSM3076937", "GSM3076939", "GSM3076941", "GSM3076943", "GSM3076945", "GSM3076947", "GSM3076949", "GSM3076951", "GSM3076955", "GSM3076956", "GSM3076958", "GSM3076959", "GSM3076961", "GSM3076963", "GSM3076964", "GSM3076966", "GSM3076969", "GSM3076971", "GSM3076972", "GSM3076974", "GSM3076976", "GSM3076978", "GSM3076980", "GSM3076982", "GSM3076984", "GSM3076985", "GSM3076986", "GSM3076989", "GSM3076991", "GSM3076994", "GSM3076997", "GSM3076999", "GSM3077002", "GSM3077004", "GSM3077006", "GSM3077008", "GSM3077015", "GSM3077018", "GSM3077022", "GSM3077024", "GSM3077027", "GSM3077030", "GSM3077032", "GSM3077035", "GSM3077037", "GSM3077039", "GSM3077042", "GSM3077044", "GSM3077047", "GSM3077050", "GSM3077052", "GSM3077055", "GSM3077059", "GSM3077061", "GSM3077063", "GSM3077066", "GSM3077068", "GSM3077071", "GSM3077073", "GSM3077076", "GSM3077079", "GSM3077081", "GSM3077084", "GSM3077086", "GSM3077088", "GSM3077090", "GSM3077093", "GSM3077096", "GSM3077098", "GSM3077101", "GSM3077103", "GSM3077105", "GSM3077107", "GSM3077110", "GSM3077112", "GSM3077114", "GSM3077117", "GSM3077119", "GSM3077122", "GSM3077124", "GSM3077129", "GSM3077133", "GSM3077134", "GSM3077136", "GSM3077138", "GSM3077141", "GSM3077143", "GSM3077146", "GSM3077148", "GSM3077150", "GSM3077153", "GSM3077156", "GSM3077158", "GSM3077160", "GSM3077162", "GSM3077165", "GSM3077170", "GSM3077172", "GSM3077174", "GSM3077177", "GSM3077179", "GSM3077189", "GSM3077192", "GSM3077194", "GSM3077196", "GSM3077199", "GSM3077201", "GSM3077203", "GSM3077205", "GSM3077209", "GSM3077211", "GSM3077213", "GSM3077215", "GSM3077217", "GSM3077219", "GSM3077221", "GSM3077224", "GSM3077227", "GSM3077229", "GSM3077231", "GSM3077240", "GSM3077244", "GSM3077246", "GSM3077248", "GSM3077251", "GSM3077253", "GSM3077254", "GSM3077256", "GSM3077259", "GSM3077261", "GSM3077266", "GSM3077269", "GSM3077272", "GSM3077274", "GSM3077276", "GSM3077278", "GSM3077281", "GSM3077283", "GSM3077285", "GSM3077287", "GSM3077290", "GSM3077293", "GSM3077295", "GSM3077300", "GSM3077303", "GSM3077305", "GSM3077307", "GSM3077311", "GSM3077313", "GSM3077315", "GSM3077318", "GSM3077321", "GSM3077323", "GSM3077325", "GSM3077330", "GSM3077332", "GSM3077334", "GSM3077336", "GSM3077338", "GSM3077340", "GSM3077342", "GSM3077344", "GSM3077350", "GSM3077352", "GSM3077355", "GSM3077357", "GSM3077359", "GSM3077361", "GSM3077364", "GSM3077366", "GSM3077368", "GSM3077370", "GSM3077372", "GSM3077374", "GSM3077377", "GSM3077380", "GSM3077383", "GSM3077386", "GSM3077388", "GSM3077391", "GSM3077393", "GSM3077396", "GSM3077398", "GSM3077401", "GSM3077404", "GSM3077406", "GSM3077408", "GSM3077410", "GSM3077412", "GSM3077414", "GSM3077416", "GSM3077419", "GSM3077422", "GSM3077424", "GSM3077425", "GSM3077426", "GSM3077428", "GSM3077430", "GSM3077441", "GSM3077449", "GSM3077452", "GSM3077454", "GSM3077456", "GSM3077459", "GSM3077461", "GSM3077464", "GSM3077467", "GSM3077469", "GSM3077473", "GSM3077476", "GSM3077483", "GSM3077485", "GSM3077487", "GSM3077489", "GSM3077492", "GSM3077495", "GSM3077497", "GSM3077500", "GSM3077505", "GSM3077508", "GSM3077510", "GSM3077512", "GSM3077514", "GSM3077517", "GSM3077520", "GSM3077522", "GSM3077533", "GSM3077536", "GSM3077539", "GSM3077542", "GSM3077544", "GSM3077551", "GSM3077556", "GSM3077559", "GSM3077561", "GSM3077563", "GSM3077566", "GSM3077568", "GSM3077571", "GSM3077573", "GSM3077575", "GSM3077577", "GSM3077579", "GSM3077582", "GSM3077589", "GSM3077591", "GSM3077594", "GSM3077597", "GSM3077599", "GSM3077601", "GSM3077604", "GSM3077607", "GSM3077609", "GSM3077611", "GSM3077614", "GSM3077616", "GSM3077619", "GSM3077621", "GSM3077623", "GSM3077625", "GSM3077627", "GSM3077630", "GSM3077633", "GSM3077636", "GSM3077638", "GSM3077641", "GSM3077643", "GSM3077647", "GSM3077650", "GSM3077652", "GSM3077655", "GSM3077658", "GSM3077660", "GSM3077663", "GSM3077665", "GSM3077668", "GSM3077670", "GSM3077673", "GSM3077675", "GSM3077677", "GSM3077679", "GSM3077682", "GSM3077684", "GSM3077689", "GSM3077692", "GSM3077694", "GSM3077696", "GSM3077698", "GSM3077701", "GSM3077704", "GSM3077707", "GSM3077710", "GSM3077712", "GSM3077714", "GSM3077716", "GSM3077719", "GSM3077721", "GSM3077724", "GSM3077727", "GSM3077729", "GSM3077732", "GSM3077734", "GSM3077736", "GSM3077739", "GSM3077741", "GSM3077748", "GSM3077750", "GSM3077753", "GSM3077757", "GSM3077760", "GSM3077767", "GSM3077770", "GSM3077773", "GSM3077776", "GSM3077778", "GSM3077780", "GSM3077787", "GSM3077790", "GSM3077792", "GSM3077794", "GSM3077796", "GSM3077799", "GSM3077801", "GSM3077804", "GSM3077807", "GSM3077810", "GSM3077813", "GSM3077816", "GSM3077818", "GSM3077820", "GSM3077822", "GSM3077825", "GSM3077827", "GSM3077830", "GSM3077833", "GSM3077836", "GSM3077838", "GSM3077841", "GSM3077843", "GSM3077846", "GSM3077849", "GSM3077851", "GSM3077853", "GSM3077856", "GSM3077859", "GSM3077863", "GSM3077867", "GSM3077871", "GSM3077874", "GSM3077878", "GSM3077881", "GSM3077884", "GSM3077886", "GSM3077889", "GSM3077894", "GSM3077896", "GSM3077899", "GSM3077901", "GSM3077904", "GSM3077906", "GSM3077909", "GSM3077911", "GSM3077914", "GSM3077916", "GSM3077919", "GSM3077921", "GSM3077923", "GSM3077925", "GSM3077928", "GSM3077930", "GSM3077934", "GSM3077936", "GSM3077939", "GSM3077942", "GSM3077944", "GSM3077947", "GSM3077950", "GSM3077952", "GSM3077954", "GSM3077957", "GSM3077963", "GSM3077966", "GSM3077969", "GSM3077971", "GSM3077975", "GSM3077977", "GSM3077979", "GSM3077982", "GSM3077984", "GSM3077986", "GSM3077989", "GSM3077991", "GSM3077994", "GSM3077997", "GSM3077999", "GSM3078002", "GSM3078004", "GSM3078006", "GSM3078009", "GSM3078011", "GSM3078013", "GSM3078014", "GSM3078017", "GSM3078021", "GSM3078024", "GSM3078026", "GSM3078029", "GSM3078031", "GSM3078033", "GSM3078036", "GSM3078038", "GSM3078041", "GSM3078045", "GSM3078047", "GSM3078049", "GSM3078056", "GSM3078064", "GSM3078066", "GSM3078068", "GSM3078071", "GSM3078077", "GSM3078079", "GSM3078082", "GSM3078084", "GSM3078087", "GSM3078090", "GSM3078095", "GSM3078097", "GSM3078099", "GSM3078101", "GSM3078103", "GSM3078105", "GSM3078111", "GSM3078113", "GSM3078116", "GSM3078118", "GSM3078121", "GSM3078123", "GSM3078126", "GSM3078128", "GSM3078137", "GSM3078139", "GSM3078141", "GSM3078144", "GSM3078147", "GSM3078149", "GSM3078152", "GSM3078154", "GSM3078156", "GSM3078159", "GSM3078161", "GSM3078166", "GSM3078169", "GSM3078171", "GSM3078174", "GSM3078176", "GSM3078178", "GSM3078181", "GSM3078188", "GSM3078190", "GSM3078192", "GSM3078195", "GSM3078198", "GSM3078200", "GSM3078201", "GSM3078210", "GSM3078212", "GSM3078216", "GSM3078218", "GSM3078221", "GSM3078225", "GSM3078227", "GSM3078230", "GSM3078232", "GSM3078234", "GSM3078237", "GSM3078239", "GSM3078242", "GSM3078244", "GSM3078247", "GSM3078250", "GSM3078252", "GSM3078255", "GSM3078258", "GSM3078261", "GSM3078263", "GSM3078266", "GSM3078268", "GSM3078271", "GSM3078279", "GSM3078281", "GSM3078285", "GSM3078287", "GSM3078290", "GSM3078292", "GSM3078294", "GSM3078297", "GSM3078299", "GSM3078304", "GSM3078306", "GSM3078314", "GSM3078316", "GSM3078326", "GSM3078329", "GSM3078331", "GSM3078335", "GSM3078342", "GSM3078345", "GSM3078348", "GSM3078351", "GSM3078353", "GSM3078355", "GSM3078357", "GSM3078360", "GSM3078362", "GSM3078364", "GSM3078366", "GSM3078368", "GSM3078370", "GSM3078372", "GSM3078374", "GSM3078378", "GSM3078380", "GSM3078383", "GSM3078385", "GSM3078387", "GSM3078390", "GSM3078399", "GSM3078407", "GSM3078417", "GSM3078419", "GSM3078422", "GSM3078425", "GSM3078429", "GSM3078432", "GSM3078439", "GSM3078441", "GSM3078444", "GSM3078447", "GSM3078457", "GSM3078459", "GSM3078461", "GSM3078468", "GSM3078471", "GSM3078473", "GSM3078476", "GSM3078478", "GSM3078481", "GSM3078483", "GSM3078485", "GSM3078487", "GSM3078489", "GSM3078491", "GSM3078494", "GSM3078495", "GSM3078497", "GSM3078499", "GSM3078502", "GSM3078503", "GSM3078505", "GSM3078507", "GSM3078510", "GSM3079737", "GSM3079740", "GSM3079742", "GSM3079744", "GSM3079746", "GSM3079749", "GSM3079751", "GSM3079753", "GSM3079756", "GSM3079758", "GSM3079760", "GSM3079762", "GSM3079763", "GSM3079765", "GSM3079768", "GSM3079770", "GSM3079772", "GSM3079774", "GSM3079776", "GSM3079779", "GSM3079781", "GSM3079783", "GSM3079785", "GSM3079787", "GSM3079789", "GSM3079792", "GSM3079794", "GSM3079796", "GSM3079799", "GSM3079801", "GSM3079803", "GSM3079805", "GSM3079807", "GSM3079812", "GSM3079819", "GSM3079821", "GSM3079823", "GSM3079824", "GSM3079826", "GSM3079827", "GSM3079829", "GSM3079831", "GSM3079832", "GSM3079834", "GSM3079835", "GSM3079837", "GSM3079838", "GSM3079840", "GSM3079841", "GSM3079843", "GSM3079845", "GSM3079849", "GSM3079851", "GSM3079853", "GSM3079855", "GSM3079857", "GSM3079859", "GSM3079861", "GSM3079863", "GSM3079864", "GSM3079865", "GSM3079866", "GSM3079867", "GSM3079868", "GSM3079869", "GSM3079870", "GSM3079871", "GSM3079872", "GSM3079873", "GSM3079874", "GSM3079875", "GSM3079876", "GSM3079877", "GSM3079878", "GSM3079879", "GSM3079880", "GSM3079881", "GSM3079882", "GSM3079883", "GSM3079884", "GSM3079885", "GSM3079886", "GSM3079887", "GSM3079888", "GSM3079889", "GSM3079890", "GSM3079891", "GSM3079892", "GSM3079893", "GSM3079894", "GSM3079895", "GSM3079896", "GSM3079897", "GSM3079898", "GSM3079899", "GSM3079900", "GSM3079901", "GSM3079902", "GSM3079903", "GSM3079904", "GSM3079905", "GSM3079906", "GSM3079907", "GSM3079908", "GSM3079909", "GSM3079910", "GSM3079911", "GSM3079912", "GSM3079913", "GSM3079914", "GSM3079915", "GSM3079916", "GSM3079917", "GSM3079918", "GSM3079919", "GSM3079920", "GSM3079921", "GSM3079922", "GSM3079923", "GSM3079924", "GSM3079925", "GSM3079926", "GSM3079927", "GSM3079928", "GSM3079929", "GSM3079930", "GSM3079931", "GSM3079932", "GSM3079933", "GSM3079934", "GSM3079935", "GSM3079936", "GSM3079937", "GSM3079938", "GSM3079939", "GSM3079940", "GSM3079941", "GSM3079942", "GSM3079943", "GSM3079944", "GSM3079945", "GSM3079946", "GSM3079947", "GSM3079948", "GSM3079949", "GSM3079950", "GSM3079951", "GSM3079952", "GSM3079953", "GSM3079954", "GSM3079955", "GSM3079956", "GSM3079957", "GSM3079958", "GSM3079959", "GSM3079960", "GSM3079961", "GSM3079962", "GSM3079963", "GSM3079964", "GSM3079965", "GSM3079966", "GSM3079967", "GSM3079968", "GSM3079969", "GSM3079970", "GSM3079971", "GSM3079972", "GSM3079973", "GSM3079974", "GSM3079975", "GSM3079976", "GSM3079977", "GSM3079978", "GSM3079979", "GSM3079980", "GSM3079981", "GSM3079982", "GSM3079983", "GSM3079984", "GSM3079985", "GSM3079986", "GSM3079987", "GSM3079988", "GSM3079989", "GSM3079990", "GSM3079991", "GSM3079992", "GSM3079993", "GSM3079994", "GSM3079995", "GSM3079996", "GSM3079997", "GSM3079998", "GSM3079999", "GSM3080000", "GSM3080001", "GSM3080002", "GSM3080003", "GSM3080004", "GSM3080005", "GSM3080006", "GSM3080007", "GSM3080008", "GSM3080009", "GSM3080010", "GSM3080011", "GSM3080012", "GSM3080013", "GSM3080014", "GSM3080015", "GSM3080016", "GSM3080017", "GSM3080018", "GSM3080019", "GSM3080020", "GSM3080021", "GSM3080022", "GSM3080023", "GSM3080024", "GSM3080025", "GSM3080026", "GSM3080027", "GSM3080028", "GSM3080029", "GSM3080030", "GSM3080031", "GSM3080032", "GSM3080033", "GSM3080034", "GSM3080035", "GSM3080036", "GSM3080037", "GSM3080038", "GSM3080039", "GSM3080040", "GSM3080041", "GSM3080042", "GSM3080043", "GSM3080044", "GSM3080045", "GSM3080046", "GSM3080047", "GSM3080048", "GSM3080049", "GSM3080050", "GSM3080051", "GSM3080052", "GSM3080053", "GSM3080054", "GSM3080055", "GSM3080056", "GSM3080057", "GSM3080058", "GSM3080059", "GSM3080060", "GSM3080061", "GSM3080062", "GSM3080063", "GSM3080064", "GSM3080065", "GSM3080066", "GSM3080067", "GSM3080068", "GSM3080069", "GSM3080070", "GSM3080071", "GSM3080072", "GSM3080073", "GSM3080074", "GSM3080075", "GSM3080076", "GSM3080077", "GSM3080078", "GSM3080079", "GSM3080080", "GSM3080081", "GSM3080082", "GSM3080083", "GSM3080084", "GSM3080085", "GSM3080086", "GSM3080087", "GSM3080088", "GSM3080089", "GSM3080090", "GSM3080091", "GSM3080092", "GSM3080093", "GSM3080094", "GSM3080095", "GSM3080096", "GSM3080097", "GSM3080098", "GSM3080099", "GSM3080100", "GSM3080101", "GSM3080102", "GSM3080103", "GSM3080104", "GSM3080105", "GSM3080106", "GSM3080107", "GSM3080108", "GSM3080109", "GSM3080110", "GSM3080111", "GSM3080112", "GSM3080113", "GSM3080114", "GSM3080115", "GSM3080116", "GSM3080117", "GSM3080118", "GSM3080119", "GSM3080120", "GSM3080121", "GSM3080122", "GSM3080123", "GSM3080124", "GSM3080125", "GSM3080126", "GSM3080127", "GSM3080128", "GSM3080129", "GSM3080130", "GSM3080131", "GSM3080132", "GSM3080133", "GSM3080134", "GSM3080135", "GSM3080136", "GSM3080137", "GSM3080138", "GSM3080139", "GSM3080140", "GSM3080141", "GSM3080142", "GSM3080143", "GSM3080144", "GSM3080145", "GSM3080146", "GSM3080147", "GSM3080148", "GSM3080149", "GSM3080150", "GSM3080151", "GSM3080152", "GSM3080153", "GSM3080154", "GSM3080155", "GSM3080156", "GSM3080157", "GSM3080158", "GSM3080159", "GSM3080160", "GSM3080161", "GSM3080162", "GSM3080163", "GSM3080164", "GSM3080165", "GSM3080166", "GSM3080167", "GSM3080168", "GSM3080169", "GSM3080170", "GSM3080171", "GSM3080172", "GSM3080173", "GSM3080174", "GSM3080175", "GSM3080176", "GSM3080177", "GSM3080178", "GSM3080179", "GSM3080180"], "sample_count": 1117, "group_sizes": null, "group_sizes_basis": null, "platform": "6947;10558", "taxon": "Homo sapiens", "title": "Whole blood transcriptome analysis in amyotrophic lateral sclerosis: a biomarker study", "resolution_checked_at": "2026-11-01T19:09:46Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "data:geo:GSE174332", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE174332", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE174332", "version": null, "note": "The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding author.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding author.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM5292143", "GSM5292144", "GSM5292145", "GSM5292146", "GSM5292147", "GSM5292148", "GSM5292149", "GSM5292150", "GSM5292151", "GSM5292152", "GSM5292153", "GSM5292154", "GSM5292155", "GSM5292156", "GSM5292157", "GSM5292158", "GSM5292159", "GSM5292160", "GSM5292161", "GSM5292162", "GSM5292163", "GSM5292164", "GSM5292165", "GSM5292166", "GSM5292167", "GSM5292168", "GSM5292169", "GSM5292170", "GSM5292171", "GSM5292172", "GSM5292173", "GSM5292174", "GSM5292175", "GSM5292176", "GSM5292177", "GSM5292178", "GSM5292179", "GSM5292180", "GSM5292181", "GSM5292182", "GSM5292183", "GSM5292184", "GSM5292185", "GSM5292186", "GSM5292187", "GSM5292188", "GSM5292189", "GSM5292190", "GSM5292191", "GSM5292192", "GSM5292193", "GSM5292194", "GSM5292195", "GSM5292196", "GSM5292197", "GSM5292198", "GSM5292199", "GSM5292200", "GSM5292201", "GSM5292202", "GSM5292203", "GSM5292204", "GSM5292205", "GSM5292206", "GSM5292207", "GSM5292208"], "sample_count": 66, "group_sizes": null, "group_sizes_basis": null, "platform": "24676", "taxon": "Homo sapiens", "title": "Single-cell dissection of the primary motor cortex in ALS and FTLD patients.", "resolution_checked_at": "2026-11-01T19:09:46Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}], "gaps": ["asset:data:geo:GSE112676 not downloaded", "asset:data:geo:GSE112676 licence not read", "asset:data:geo:GSE112680 not downloaded", "asset:data:geo:GSE112680 licence not read", "asset:data:geo:GSE112681 not downloaded", "asset:data:geo:GSE112681 licence not read", "asset:data:geo:GSE174332 not downloaded", "asset:data:geo:GSE174332 licence not read"]}, "analysis": {"state": "partial", "methods": [{"id": "method-1", "family": "group_comparison", "specific": "wilcoxon", "label": "Group comparison", "dsl_operations": [], "missing_operations": ["group_comparison_wilcoxon"], "expressible": false, "parameters": {}, "data_shapes": ["two_or_more_groups_continuous"], "evidence": {"score": 0.8, "band": "high", "quote": "Wilcoxon"}}, {"id": "method-2", "family": "survival_analysis", "specific": "cox_proportional_hazards", "label": "Survival analysis", "dsl_operations": ["cox_ph"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["time_to_event_with_censoring"], "evidence": {"score": 0.8, "band": "high", "quote": "Cox regression"}}, {"id": "method-3", "family": "survival_analysis", "specific": "log_rank_test", "label": "Survival analysis", "dsl_operations": ["logrank_test"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["time_to_event_with_censoring"], "evidence": {"score": 0.8, "band": "high", "quote": "log-rank"}}], "targets": [], "gaps": ["method.group_comparison_wilcoxon"]}, "capability": {"state": "complete", "requirements": [{"capability_id": "capability:computational_analysis", "label": "Computational analysis platform", "assay_families": ["meta_analysis", "machine_learning", "survival_analysis", "statistical_regression", "pca", "molecular_docking", "network_analysis", "differential_expression", "gwas"], "availability_state": "owned", "tier_unlocked": "R1", "candidate": "Automated Assays Laravel application and simulated adapters"}], "gaps": []}, "readiness": {"state": "complete", "tier": "R1", "blocking_axis": "none", "blocked_on": "nothing:replicable_now", "axes": {"method": {"tier": "R1", "expressible": false, "required_operations": [], "missing_operations": ["group_comparison_wilcoxon"], "basis": "The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: wilcoxon."}, "capability": {"tier": "R1", "capability_id": "capability:computational_analysis", "availability_state": "owned", "basis": "The computational analysis is owned. The physical bench the paper used is not, so a physical validation cannot be run here."}, "data": {"tier": "R1", "reachable": true, "accessions": ["GSE174332", "GSE112676", "GSE112680", "GSE112681"], "resolved_accessions": ["GSE174332", "GSE112676", "GSE112680", "GSE112681"], "statements": ["The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding author."], "basis": "The paper names GSE174332, GSE112676, GSE112680, GSE112681 in Gene Expression Omnibus (GEO) and the accession resolves in the repository. No dataset was downloaded and no licence was read."}}, "can_run": {"dsl_operations": [], "assets": ["source:pmid:37942135", "data:geo:GSE112676"], "steps": []}, "must_build": {"dsl_operations": [{"operation": "group_comparison_wilcoxon", "unlocks_papers": null, "priority": null}], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:GSE112676"]}, "gaps": []}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-11-01T18:58:41Z", "independence": "single_reader"}, "evidence_check": {"method": null, "availability": "verbatim"}, "calls": 5, "usage": {"prompt_tokens": 16789, "completion_tokens": 2957, "cached_tokens": 128}}, "human_critique": null, "stages": [{"id": "extraction", "state": "complete", "reader": "MiniMax-M3.1-Flash", "provider": "minimax"}], "gaps": ["review.independent_reader", "review.machine_critique", "review.human_critique"]}, "execution": {"state": "absent", "status": "not_run", "mode": null, "runs": [], "gaps": ["execution.not_run"]}, "provenance": {"entities": [{"id": "pmid:37942135", "type": "paper", "label": "pmid:37942135"}, {"id": "source:pmid:37942135", "type": "manuscript", "label": "PMID 37942135 full text"}, {"id": "data:geo:GSE112676", "type": "dataset", "label": "GEO GSE112676"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:37942135", "type": "paper", "label": "pmid:37942135"}, {"id": "source:pmid:37942135", "type": "manuscript", "label": "PMID 37942135 full text"}, {"id": "data:geo:GSE112676", "type": "dataset", "label": "GEO GSE112676"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-37942135", "type": "extraction", "used": ["source:pmid:37942135"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-GSE112676", "type": "accession_resolution", "used": ["data:geo:GSE112676"], "agent": "agent:corpus-assay-engine"}], "agents": [{"id": "agent:corpus-assay-engine", "type": "software", "label": "Corpus assay engine"}, {"id": "agent:minimax-reader", "type": "software", "label": "MiniMax literature reader"}], "source_run_id": "reading-sci-2026-11-01", "dsl_catalogue_fingerprint": "343fb30756ba6ec3", "capability_table_fingerprint": "2cb3e42f047d2ecf", "snapshot_id": "ba34b49490d9bfaf"}, "lineage": {"parent_id": "pmid:37942135", "parent_hash": "sha256:33a271b545ac269bff5c8b855c706a750bd7c70de35a25c0d60d8979eff12155", "fork_of": null, "generation": 3}, "gaps": ["asset:data:geo:GSE112676 licence not read", "asset:data:geo:GSE112676 not downloaded", "asset:data:geo:GSE112680 licence not read", "asset:data:geo:GSE112680 not downloaded", "asset:data:geo:GSE112681 licence not read", "asset:data:geo:GSE112681 not downloaded", "asset:data:geo:GSE174332 licence not read", "asset:data:geo:GSE174332 not downloaded", "execution.not_run", "method.group_comparison_wilcoxon", "review.human_critique", "review.independent_reader", "review.machine_critique", "step:run_analysis blocked on method:group_comparison_wilcoxon"], "assays": [{"role": "data_generation", "definition_id": "scrna_seq", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "unsupported", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["ns in amyotrophic lateral sclerosis based on ScRNA-seq and bulk RNA-seq data.", "in ALS remains unclear. Methods: We obtained single-cell RNA sequencing (scRNA-seq) data of ALS from the primary mot", "ods: We obtained single-cell RNA sequencing (scRNA-seq) data of ALS from the primary motor cortex i", "Methods Single-cell RNA sequencing data processing The study utilized GSE174332"], "order_basis": "paper_text_order:46", "id": "assay:1"}, {"role": "data_generation", "definition_id": "rna_seq", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["ateral sclerosis based on ScRNA-seq and bulk RNA-seq data.", "ns unclear. Methods: We obtained single-cell RNA sequencing (scRNA-seq) data of ALS from the primary mot", "Methods Single-cell RNA sequencing data processing The study utilized GSE174332", "(PN) with comparable sex distributions, for RNA sequencing analysis of the primary motor cortex (Pineda"], "order_basis": "paper_text_order:65", "id": "assay:2"}, {"role": "analysis", "definition_id": "group_comparison", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 0.8, "evidence": ["Wilcoxon"], "order_basis": "consumes_earlier_output", "id": "assay:3"}]}