Corpus Engine Towards a reproducible .science file.
← All .science files

pmid:41345421

SPP1/OPN Alleviates Post-Intracerebral Hemorrhage Depression and Cognitive Impairment via Nrf2/BDNF Signaling Activation in Mice.

Pengpeng Li · Yangyang Gao · Shiqing Du · Zhengqian Mu · Zhenxing Tao · Xuqi Zhang · Xudong Zhao

CNS neuroscience & therapeutics · 2025 doi:10.1002/cns.70680

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
id
pmid:41345421
kind
science-record
content_hash
sha256:eb665204e8a651f7c4ad5372ea7a93a8b217995076dfbcd2ad95d31b92a1050c
schema
https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json
created_at
2026-11-01T20:31:21Z
updated_at
2026-11-01T22:15:07Z
generator object · 2 fields
name
corpus-assay-engine
run_id
reading-sci-2026-11-01
paper object · 10 fields
state
complete
title
SPP1/OPN Alleviates Post-Intracerebral Hemorrhage Depression and Cognitive Impairment via Nrf2/BDNF Signaling Activation in Mice.
doi
10.1002/cns.70680
pmid
41345421
authors array · 7 items
[0]
Pengpeng Li
[1]
Yangyang Gao
[2]
Shiqing Du
[3]
Zhengqian Mu
[4]
Zhenxing Tao
[5]
Xuqi Zhang
[6]
Xudong Zhao
journal
CNS neuroscience & therapeutics
year
2025
abstract
BACKGROUND: Post-stroke depression represents a prevalent neuropsychiatric complication following intracerebral hemorrhage (ICH), yet its underlying mechanisms remain less understood compared to ischemic stroke. METHODS: This translational investigation employed a multi-omics approach, combining bioinformatics analysis of depression-related (GSE214921) and ICH-related (GSE18193) datasets from the GEO database with experimental validation. Using a collagenase-induced striatal ICH murine model, we evaluated the effects of intranasal administration of osteopontin (OPN, encoded by SPP1) through neurobehavioral tests, histopathological evaluation, and molecular biology techniques. RESULTS: Integrated bioinformatics analysis identified the SPP1 signaling pathway as a potential key regulator in post-ICH depression pathogenesis. In vivo, OPN treatment produced sustained neurobehavioral improvements at 28 days post-ICH, significantly ameliorating neurological deficits, mitigating anxiety-depressive behaviors, and enhancing spatial learning-memory performance. Histopathological evaluation revealed OPN's multifaceted neuroprotective effects, including attenuated hippocampal neuroinflammation, preserved Nissl body integrity, and restored dendritic arborization complexity. Mechanistically, OPN exerted its therapeutic effects through activation of the Nrf2/BDNF signaling axis, as pharmacological inhibition of Nrf2 with ML385 completely abrogated both neuroprotection and BDNF upregulation. CONCLUSION: Our study is the first to demonstrate the critical role of SPP1 signaling in post-ICH depression through modulation of the Nrf2/BDNF pathway, providing novel therapeutic targets for clinical management of this debilitating neuropsychiatric sequela.
claims array · 3 items
[0] object · 6 fields
id
claim-method
statement
Mortality rates were compared using the chi‐squared test.
kind
methodological
target
null
evidence array · 1 item
[0] object · 3 fields
asset
source:pmid:41345421
locator
sections[22] "Statistical Analysis" paragraph 2
quote
Mortality rates were compared using the chi‐squared test.
state
complete
[1] object · 6 fields
id
claim-data-access
statement
The datasets generated and/or analyzed during the current study are available from the corresponding author on reasonable request.
kind
methodological
target
null
evidence array · 1 item
[0] object · 3 fields
asset
source:pmid:41345421
locator
sections[38] "Data Availability Statement" paragraph 2
quote
The datasets generated and/or analyzed during the current study are available from the corresponding author on reasonable request.
state
complete
[2] object · 6 fields
id
claim-target-result
statement
Although the OPN intervention group demonstrated a non‐significant reduction in mortality compared to the control cohort, this difference did not reach statistical significance (p > 0.05, Figure S1).
kind
quantitative
target object · 4 fields
value
0.05
unit
p-value
tolerance
null
source
Although the OPN intervention group demonstrated a non‐significant reduction in mortality compared to the control cohort, this difference did not reach statistical significance (p > 0.05, Figure S1).
evidence array · 1 item
[0] object · 3 fields
asset
source:pmid:41345421
locator
sections[25] "Effect of OPN on Mortality After ICH" paragraph 2
quote
Although the OPN intervention group demonstrated a non‐significant reduction in mortality compared to the control cohort, this difference did not reach statistical significance (p > 0.05, Figure S1).
state
complete
gaps array · 0 items
experiment object · 8 fields
state
partial
objective
Although the OPN intervention group demonstrated a non‐significant reduction in mortality compared to the control cohort, this difference did not reach statistical significance (p > 0.05, Figure S1).
steps array · 3 items
[0] object · 13 fields
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.
parameters object · 0 fields
inputs array · 1 item
[0]
source:pmid:41345421
outputs array · 1 item
[0]
the published estimate and its evidence
instruments array · 0 items
reagents array · 0 items
[1] object · 13 fields
id
obtain_source_data
order
2
name
Obtain the source data from the named repository
kind
data-preparation
state
blocked
blocked_on
data:accession_absent
description
The GEO series accession resolves and its sample accessions are listed. This lane did not download the dataset or read its licence.
parameters object · 0 fields
inputs array · 0 items
outputs array · 1 item
[0]
the source data with its repository provenance
instruments array · 0 items
reagents array · 0 items
[2] object · 13 fields
id
run_analysis
order
3
name
Run the published analysis
kind
analysis
state
complete
blocked_on
null
description
Apply the paper's statistical method to the resolved series and compare the result with the published target.
parameters object · 0 fields
inputs array · 0 items
outputs array · 1 item
[0]
the replicated result and its comparison
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
[0]
step:obtain_source_data blocked on data:accession_absent
data object · 3 fields
state
partial
assets array · 1 item
[0] object · 15 fields
id
source:pmid:41345421
role
manuscript
format
xml
media_type
application/xml
uri
https://doi.org/10.1002/cns.70680
sha256
sha256:1479818762e9874857016783849a57c065cba2c892920f95f3f895caf1aaaab7
bytes
47805
access
open
state
resolved
reader
null
reader_status
reader_required
identifier
10.1002/cns.70680
version
null
note
Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.
structure object · 4 fields
pmcid
PMC12678055
source
europe_pmc_fulltext
coverage
whole_body_without_references
text_hash_scope
rendered_section_body
gaps array · 0 items
analysis object · 4 fields
state
partial
methods array · 2 items
[0] object · 10 fields
id
method-1
family
group_comparison
specific
anova
label
Group comparison
dsl_operations array · 4 items
[0]
group_summary
[1]
welch_t
[2]
bootstrap_mean_difference
[3]
group_comparison_anova
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[0]
two_or_more_groups_continuous
evidence object · 3 fields
score
0.8
band
high
quote
ANOVA
[1] object · 10 fields
id
method-2
family
null
specific
null
label
Chi‐squared test
dsl_operations array · 0 items
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 0 items
evidence object · 3 fields
score
1
band
verbatim
quote
Mortality rates were compared using the chi‐squared test.
targets array · 1 item
[0] object · 8 fields
id
target-published-estimate
claim_id
claim-target-result
operation
bootstrap_mean_difference
unit
p-value
tolerance
null
state
complete
note
The threshold the paper applied to its own result, as the paper states it. A run that reproduces the effect is judged against this threshold.
gaps array · 1 item
[0]
method.reader_named_unmapped
capability object · 3 fields
state
complete
requirements array · 1 item
[0] object · 6 fields
capability_id
capability:computational_analysis
label
Computational analysis platform
assay_families array · 9 items
[0]
meta_analysis
[1]
machine_learning
[2]
survival_analysis
[3]
statistical_regression
[4]
pca
[5]
molecular_docking
[6]
network_analysis
[7]
differential_expression
[8]
gwas
candidate
Automated Assays Laravel application and simulated adapters
gaps array · 0 items
readiness object · 8 fields
state
blocked
tier
R4
blocked_on
data:accession_absent
axes object · 3 fields
method object · 5 fields
tier
R1
expressible
true
required_operations array · 4 items
[0]
group_summary
[1]
welch_t
[2]
bootstrap_mean_difference
[3]
group_comparison_anova
missing_operations array · 0 items
basis
The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: anova.
capability object · 4 fields
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 object · 6 fields
tier
R4
reachable
false
accessions array · 0 items
resolved_accessions array · 0 items
statements array · 1 item
[0]
The datasets generated and/or analyzed during the current study are available from the corresponding author on reasonable request.
basis
The paper names no accession to its source data, so the data has to come from the authors.
can_run object · 3 fields
dsl_operations array · 4 items
[0]
group_summary
[1]
welch_t
[2]
bootstrap_mean_difference
[3]
group_comparison_anova
assets array · 1 item
[0]
source:pmid:41345421
steps array · 1 item
[0]
run_analysis
must_build object · 5 fields
dsl_operations array · 0 items
converters array · 0 items
readers array · 0 items
capabilities array · 0 items
data_gaps array · 1 item
[0]
data:geo:None
gaps array · 1 item
[0]
data:accession_absent
review object · 5 fields
state
partial
machine_critique object · 5 fields
kind
extraction_review
reader object · 5 fields
model
MiniMax-M3.1-Flash
provider
minimax
provider_family
minimax
read_at
2026-11-01T20:07:12Z
independence
single_reader
evidence_check object · 2 fields
method
verbatim
availability
verbatim
calls
5
usage object · 3 fields
prompt_tokens
12480
completion_tokens
969
cached_tokens
264
stages array · 1 item
[0] object · 4 fields
id
extraction
state
complete
reader
MiniMax-M3.1-Flash
provider
minimax
gaps array · 3 items
[0]
review.independent_reader
[1]
review.machine_critique
[2]
review.human_critique
execution object · 5 fields
state
absent
status
not_run
mode
null
runs array · 0 items
gaps array · 1 item
[0]
execution.not_run
provenance object · 7 fields
entities array · 3 items
[0] object · 3 fields
id
pmid:41345421
type
paper
label
pmid:41345421
[1] object · 3 fields
id
source:pmid:41345421
type
manuscript
label
PMID 41345421 full text
[2] object · 3 fields
id
data:geo:None
type
dataset
label
GEO None
activities array · 3 items
[0] object · 4 fields
id
activity-reading-sci-2026-11-01
type
classification
used array · 3 items
[0] object · 3 fields
id
pmid:41345421
type
paper
label
pmid:41345421
[1] object · 3 fields
id
source:pmid:41345421
type
manuscript
label
PMID 41345421 full text
[2] object · 3 fields
id
data:geo:None
type
dataset
label
GEO None
agent
agent:corpus-assay-engine
[1] object · 4 fields
id
activity-read-41345421
type
extraction
used array · 1 item
[0]
source:pmid:41345421
agent
agent:minimax-reader
[2] object · 4 fields
id
activity-resolve-None
type
accession_resolution
used array · 1 item
[0]
data:geo:None
agent
agent:corpus-assay-engine
agents array · 2 items
[0] object · 3 fields
id
agent:corpus-assay-engine
type
software
label
Corpus assay engine
[1] object · 3 fields
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 object · 4 fields
parent_id
pmid:41345421
parent_hash
sha256:c110a676c43fa8fcb0eb133ea296b8e627861fd206c83bc79b6eb826948e2a40
fork_of
null
gaps array · 6 items
[0]
execution.not_run
[1]
method.reader_named_unmapped
[2]
review.human_critique
[3]
review.independent_reader
[4]
review.machine_critique
[5]
step:obtain_source_data blocked on data:accession_absent
assays array · 2 items
[0] object · 11 fields
role
data_generation
definition_id
animal_model
definition_version
99e1195c7d6f
required_operations array · 0 items
support_state
partial
source_hashes object · 1 field
assay_lexicon
99e1195c7d6f
confidence
0.99
evidence array · 4 items
[0]
mpairment via Nrf2/BDNF Signaling Activation in Mice.
[1]
on. Using a collagenase-induced striatal ICH murine model, we evaluated the effects of intranasa
[2]
gulator in post-ICH depression pathogenesis. In vivo, OPN treatment produced sustained neurobehav
[3]
4% formaldehyde for 1–2 h. Subsequently, the rats were treated with 500 mL of mordant dye, which in
order_basis
paper_text_order:76
id
assay:1
[1] object · 11 fields
role
analysis
definition_id
group_comparison
definition_version
f2132e96ae6c7a4e
required_operations array · 4 items
[0]
group_summary
[1]
welch_t
[2]
bootstrap_mean_difference
[3]
group_comparison_anova
support_state
supported
source_hashes object · 1 field
dsl_catalogue
f2132e96ae6c7a4e
evidence array · 1 item
[0]
ANOVA
order_basis
consumes_earlier_output
id
assay:2
Complete file
{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:41345421", "kind": "science-record", "revision": 3, "content_hash": "sha256:eb665204e8a651f7c4ad5372ea7a93a8b217995076dfbcd2ad95d31b92a1050c", "created_at": "2026-11-01T20:31:21Z", "updated_at": "2026-11-01T22:15:07Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "SPP1/OPN Alleviates Post-Intracerebral Hemorrhage Depression and Cognitive Impairment via Nrf2/BDNF Signaling Activation in Mice.", "doi": "10.1002/cns.70680", "pmid": "41345421", "authors": ["Pengpeng Li", "Yangyang Gao", "Shiqing Du", "Zhengqian Mu", "Zhenxing Tao", "Xuqi Zhang", "Xudong Zhao"], "journal": "CNS neuroscience & therapeutics", "year": 2025, "abstract": "BACKGROUND: Post-stroke depression represents a prevalent neuropsychiatric complication following intracerebral hemorrhage (ICH), yet its underlying mechanisms remain less understood compared to ischemic stroke.\nMETHODS: This translational investigation employed a multi-omics approach, combining bioinformatics analysis of depression-related (GSE214921) and ICH-related (GSE18193) datasets from the GEO database with experimental validation. Using a collagenase-induced striatal ICH murine model, we evaluated the effects of intranasal administration of osteopontin (OPN, encoded by SPP1) through neurobehavioral tests, histopathological evaluation, and molecular biology techniques.\nRESULTS: Integrated bioinformatics analysis identified the SPP1 signaling pathway as a potential key regulator in post-ICH depression pathogenesis. In vivo, OPN treatment produced sustained neurobehavioral improvements at 28 days post-ICH, significantly ameliorating neurological deficits, mitigating anxiety-depressive behaviors, and enhancing spatial learning-memory performance. Histopathological evaluation revealed OPN's multifaceted neuroprotective effects, including attenuated hippocampal neuroinflammation, preserved Nissl body integrity, and restored dendritic arborization complexity. Mechanistically, OPN exerted its therapeutic effects through activation of the Nrf2/BDNF signaling axis, as pharmacological inhibition of Nrf2 with ML385 completely abrogated both neuroprotection and BDNF upregulation.\nCONCLUSION: Our study is the first to demonstrate the critical role of SPP1 signaling in post-ICH depression through modulation of the Nrf2/BDNF pathway, providing novel therapeutic targets for clinical management of this debilitating neuropsychiatric sequela.", "claims": [{"id": "claim-method", "statement": "Mortality rates were compared using the chi‐squared test.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:41345421", "locator": "sections[22] \"Statistical Analysis\" paragraph 2", "quote": "Mortality rates were compared using the chi‐squared test."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The datasets generated and/or analyzed during the current study are available from the corresponding author on reasonable request.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:41345421", "locator": "sections[38] \"Data Availability Statement\" paragraph 2", "quote": "The datasets generated and/or analyzed during the current study are available from the corresponding author on reasonable request."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Although the OPN intervention group demonstrated a non‐significant reduction in mortality compared to the control cohort, this difference did not reach statistical significance (p > 0.05, Figure S1).", "kind": "quantitative", "target": {"value": 0.05, "unit": "p-value", "tolerance": null, "source": "Although the OPN intervention group demonstrated a non‐significant reduction in mortality compared to the control cohort, this difference did not reach statistical significance (p > 0.05, Figure S1)."}, "evidence": [{"asset": "source:pmid:41345421", "locator": "sections[25] \"Effect of OPN on Mortality After ICH\" paragraph 2", "quote": "Although the OPN intervention group demonstrated a non‐significant reduction in mortality compared to the control cohort, this difference did not reach statistical significance (p > 0.05, Figure S1)."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "Although the OPN intervention group demonstrated a non‐significant reduction in mortality compared to the control cohort, this difference did not reach statistical significance (p > 0.05, Figure S1).", "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:41345421"], "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": "blocked", "blocked_on": "data:accession_absent", "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": [], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "complete", "blocked_on": null, "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": [], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": ["step:obtain_source_data blocked on data:accession_absent"]}, "data": {"state": "partial", "assets": [{"id": "source:pmid:41345421", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1002/cns.70680", "sha256": "sha256:1479818762e9874857016783849a57c065cba2c892920f95f3f895caf1aaaab7", "bytes": 47805, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1002/cns.70680", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC12678055", "source": "europe_pmc_fulltext", "coverage": "whole_body_without_references", "text_hash_scope": "rendered_section_body"}}], "gaps": []}, "analysis": {"state": "partial", "methods": [{"id": "method-1", "family": "group_comparison", "specific": "anova", "label": "Group comparison", "dsl_operations": ["group_summary", "welch_t", "bootstrap_mean_difference", "group_comparison_anova"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["two_or_more_groups_continuous"], "evidence": {"score": 0.8, "band": "high", "quote": "ANOVA"}}, {"id": "method-2", "family": null, "specific": null, "label": "Chi‐squared test", "dsl_operations": [], "missing_operations": [], "expressible": null, "parameters": {}, "data_shapes": [], "evidence": {"score": 1.0, "band": "verbatim", "quote": "Mortality rates were compared using the chi‐squared test."}}], "targets": [{"id": "target-published-estimate", "claim_id": "claim-target-result", "operation": "bootstrap_mean_difference", "expected_value": 0.05, "unit": "p-value", "tolerance": null, "state": "complete", "note": "The threshold the paper applied to its own result, as the paper states it. A run that reproduces the effect is judged against this threshold."}], "gaps": ["method.reader_named_unmapped"]}, "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": "blocked", "tier": "R4", "blocking_axis": "data", "blocked_on": "data:accession_absent", "axes": {"method": {"tier": "R1", "expressible": true, "required_operations": ["group_summary", "welch_t", "bootstrap_mean_difference", "group_comparison_anova"], "missing_operations": [], "basis": "The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: anova."}, "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": "R4", "reachable": false, "accessions": [], "resolved_accessions": [], "statements": ["The datasets generated and/or analyzed during the current study are available from the corresponding author on reasonable request."], "basis": "The paper names no accession to its source data, so the data has to come from the authors."}}, "can_run": {"dsl_operations": ["group_summary", "welch_t", "bootstrap_mean_difference", "group_comparison_anova"], "assets": ["source:pmid:41345421"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:None"]}, "gaps": ["data:accession_absent"]}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-11-01T20:07:12Z", "independence": "single_reader"}, "evidence_check": {"method": "verbatim", "availability": "verbatim"}, "calls": 5, "usage": {"prompt_tokens": 12480, "completion_tokens": 969, "cached_tokens": 264}}, "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:41345421", "type": "paper", "label": "pmid:41345421"}, {"id": "source:pmid:41345421", "type": "manuscript", "label": "PMID 41345421 full text"}, {"id": "data:geo:None", "type": "dataset", "label": "GEO None"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:41345421", "type": "paper", "label": "pmid:41345421"}, {"id": "source:pmid:41345421", "type": "manuscript", "label": "PMID 41345421 full text"}, {"id": "data:geo:None", "type": "dataset", "label": "GEO None"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-41345421", "type": "extraction", "used": ["source:pmid:41345421"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-None", "type": "accession_resolution", "used": ["data:geo:None"], "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:41345421", "parent_hash": "sha256:c110a676c43fa8fcb0eb133ea296b8e627861fd206c83bc79b6eb826948e2a40", "fork_of": null, "generation": 2}, "gaps": ["execution.not_run", "method.reader_named_unmapped", "review.human_critique", "review.independent_reader", "review.machine_critique", "step:obtain_source_data blocked on data:accession_absent"], "assays": [{"role": "data_generation", "definition_id": "animal_model", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["mpairment via Nrf2/BDNF Signaling Activation in Mice.", "on. Using a collagenase-induced striatal ICH murine model, we evaluated the effects of intranasa", "gulator in post-ICH depression pathogenesis. In vivo, OPN treatment produced sustained neurobehav", "4% formaldehyde for 1–2 h. Subsequently, the rats were treated with 500 mL of mordant dye, which in"], "order_basis": "paper_text_order:76", "id": "assay:1"}, {"role": "analysis", "definition_id": "group_comparison", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["group_summary", "welch_t", "bootstrap_mean_difference", "group_comparison_anova"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 0.8, "evidence": ["ANOVA"], "order_basis": "consumes_earlier_output", "id": "assay:2"}]}