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

pmid:41510117

Multivesicular body subunit 12B (MVB12B) overexpression represses proliferation and migration in bladder urothelial carcinoma.

Translational cancer research · 2025 doi:10.21037/tcr-2025-1498

Paper

partial

Experiment

partial

Data

partial

Analysis

absent

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:41510117
kind
science-record
content_hash
sha256:e472e9334104c1b971fd264b6c217b2d79c0220f61c86b352aa1ff02b5a4b43b
schema
https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json
created_at
2026-11-01T10:25:54Z
updated_at
2026-11-01T14:01:53Z
generator object · 3 fields
name
corpus-assay-engine
converter
sep_to_sci_v1
source_package_schema
urn:bntrg:sep:1.0.0
paper object · 10 fields
state
partial
title
Multivesicular body subunit 12B (MVB12B) overexpression represses proliferation and migration in bladder urothelial carcinoma.
doi
10.21037/tcr-2025-1498
pmid
41510117
authors
null
journal
Translational cancer research
year
2025
abstract
null
claims array · 1 item
[0] object · 6 fields
id
claim-1
statement
the headline numerical result the paper states for its main finding
kind
qualitative
state
blocked
target object · 4 fields
value
null
unit
null
tolerance
null
source
null
evidence array · 0 items
gaps array · 2 items
[0]
abstract
[1]
authors
experiment object · 8 fields
state
partial
objective
the headline numerical result the paper states for its main finding
steps array · 3 items
[0] object · 13 fields
id
read_published_estimate
order
1
name
Read the published estimate and its interval from the source
kind
other
state
complete
blocked_on
null
description
The number a replication must land on, and the sentence it came from.
parameters object · 0 fields
inputs array · 1 item
[0]
source:pmid:41510117
outputs array · 1 item
[0]
the published estimate, its unit and its interval
instruments array · 0 items
reagents array · 0 items
[1] object · 13 fields
id
obtain_source_data
order
2
name
Obtain the source data behind the published result
kind
data-preparation
state
blocked
blocked_on
data:not_downloaded
description
The published result cannot be recomputed without the data the paper analysed.
parameters object · 0 fields
inputs array · 0 items
outputs array · 1 item
[0]
the source data with its provenance
instruments array · 0 items
reagents array · 0 items
[2] object · 13 fields
id
run_analysis
order
3
name
Run the analysis programme
kind
analysis
state
blocked
blocked_on
no owned computational capability is bound to this experiment
description
Re-run the paper's analysis on the source data and produce the registered result. | SEP input not carried into the asset list: materials:the source data behind the published result in pmid:41510117
parameters object · 0 fields
inputs array · 0 items
outputs array · 1 item
[0]
the registered result
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 · 3 items
[0]
step:obtain_source_data blocked on data:not_downloaded
[1]
step:run_analysis blocked on no owned computational capability is bound to this experiment
[2]
step:run_analysis input 'materials:the source data behind the published result in pmid:41510117' does not resolve to a declared asset
data object · 3 fields
state
partial
assets array · 5 items
[0] object · 15 fields
id
source:pmid:41510117
role
manuscript
format
xml
media_type
application/xml
uri
https://doi.org/10.21037/tcr-2025-1498
sha256
sha256:96e9e37f383a3f93f0353b6a8dee59fe72c6785a0fef37fff33543fdbdf9ce4e
bytes
null
access
open
state
resolved
reader
null
reader_status
reader_required
identifier
10.21037/tcr-2025-1498
version
null
note
Source read by the package builder: full_text.
structure object · 1 field
access_state
full_text
[1] object · 16 fields
id
asset:table:pmid:41510117:1
role
table
format
jats-table
media_type
application/vnd.jats.table+json
uri
null
sha256
sha256:6b396ac949a02e94092076aa06a3e7fccc979acc3d71c204fe9cd8112f5b053d
bytes
1274
access
open
state
verified
reader
read_table
reader_status
available
identifier
section[18]/table-wrap[1]#t1
version
null
note
Clinicopathological features for BLCA patients in relation to MVB12B expression level
structure object · 5 fields
pmcid
PMC12776198
section_index
18
section_title
Relationship between MVB12B expression and clinicopathologic characteristics of BLCA
row_count
28
column_count
4
table object · 8 fields
label
Table 1
caption
Clinicopathological features for BLCA patients in relation to MVB12B expression level
rows array · 28 items
[0] array · 4 items
[0]
Characteristics
[1]
Low expression of MVB12B
[2]
High expression of MVB12B
[3]
P value
[1] array · 4 items
[0]
Gender
[1]
[2]
[3]
>0.99
[2] array · 4 items
[0]
Male
[1]
152 (36.9)
[2]
152 (36.9)
[3]
[3] array · 4 items
[0]
Female
[1]
54 (13.1)
[2]
54 (13.1)
[3]
[4] array · 4 items
[0]
Age
[1]
[2]
[3]
0.32
[5] array · 4 items
[0]
≤70 years
[1]
111 (26.9)
[2]
121 (29.4)
[3]
[6] array · 4 items
[0]
>70 years
[1]
95 (23.1)
[2]
85 (20.6)
[3]
[7] array · 4 items
[0]
Pathologic T stage
[1]
[2]
[3]
0.01
[8] array · 4 items
[0]
T1
[1]
0 (0.0)
[2]
5 (1.3)
[3]
[9] array · 4 items
[0]
T2
[1]
55 (14.6)
[2]
63 (16.7)
[3]
[10] array · 4 items
[0]
T3
[1]
105 (27.8)
[2]
91 (24.1)
[3]
[11] array · 4 items
[0]
T4
[1]
38 (10.1)
[2]
21 (5.6)
[3]
[12] array · 4 items
[0]
Pathologic N stage
[1]
[2]
[3]
0.003
[13] array · 4 items
[0]
N0
[1]
107 (29.1)
[2]
131 (35.6)
[3]
[14] array · 4 items
[0]
N1
[1]
27 (7.3)
[2]
19 (5.2)
[3]
[15] array · 4 items
[0]
N2
[1]
50 (13.6)
[2]
27 (7.3)
[3]
[16] array · 4 items
[0]
N3
[1]
6 (1.6)
[2]
1 (0.3)
[3]
[17] array · 4 items
[0]
Pathologic M stage
[1]
[2]
[3]
0.14
[18] array · 4 items
[0]
M0
[1]
100 (47.2)
[2]
101 (47.6)
[3]
[19] array · 4 items
[0]
M1
[1]
8 (3.8)
[2]
3 (1.4)
[3]
[20] array · 4 items
[0]
Pathologic stage
[1]
[2]
[3]
<0.001
[21] array · 4 items
[0]
Stage I
[1]
0 (0.0)
[2]
4 (1.0)
[3]
[22] array · 4 items
[0]
Stage II
[1]
51 (12.4)
[2]
78 (19.0)
[3]
[23] array · 4 items
[0]
Stage III
[1]
70 (17.1)
[2]
72 (17.6)
[3]
[24] array · 4 items
[0]
Stage IV
[1]
85 (20.7)
[2]
50 (12.2)
[3]
[25] array · 4 items
[0]
Histologic grade
[1]
[2]
[3]
0.003
[26] array · 4 items
[0]
Low grade
[1]
4 (1.0)
[2]
17 (4.2)
[3]
[27] array · 4 items
[0]
High grade
[1]
202 (49.4)
[2]
186 (45.5)
[3]
locator
section[18]/table-wrap[1]#t1
[2] object · 16 fields
id
asset:table:pmid:41510117:2
role
table
format
jats-table
media_type
application/vnd.jats.table+json
uri
null
sha256
sha256:c41d707f046a95fa9d3576f85c8daab05be717ca42557a8f7bcd8b9f3381a699
bytes
869
access
open
state
verified
reader
read_table
reader_status
available
identifier
section[18]/table-wrap[2]#t2
version
null
note
MVB12B expression correlates with clinicopathological features in BLCA: a univariate logistic regression analysis
structure object · 5 fields
pmcid
PMC12776198
section_index
18
section_title
Relationship between MVB12B expression and clinicopathologic characteristics of BLCA
row_count
8
column_count
4
table object · 8 fields
label
Table 2
caption
MVB12B expression correlates with clinicopathological features in BLCA: a univariate logistic regression analysis
rows array · 8 items
[0] array · 4 items
[0]
Characteristics
[1]
Total (n)
[2]
OR (95% CI)
[3]
P value
[1] array · 4 items
[0]
Gender (female vs. male)
[1]
412
[2]
1.000 (0.645–1.551)
[3]
>0.99
[2] array · 4 items
[0]
Age (>70 vs. ≤70 years)
[1]
412
[2]
0.821 (0.556–1.212)
[3]
0.32
[3] array · 4 items
[0]
Pathologic T stage (T3 & T4 vs. T1 & T2)
[1]
378
[2]
0.633 (0.411–0.977)
[3]
0.04
[4] array · 4 items
[0]
Pathologic N stage (N1 & N2 & N3 vs. N0)
[1]
368
[2]
0.463 (0.298–0.718)
[3]
<0.001
[5] array · 4 items
[0]
Pathologic M stage (M1 vs. M0)
[1]
212
[2]
0.371 (0.096–1.440)
[3]
0.15
[6] array · 4 items
[0]
Pathologic stage (stage III & IV vs. stage I & II)
[1]
410
[2]
0.490 (0.321–0.747)
[3]
<0.001
[7] array · 4 items
[0]
Histologic grade (high grade vs. low grade)
[1]
409
[2]
0.217 (0.072–0.656)
[3]
0.007
locator
section[18]/table-wrap[2]#t2
[3] object · 16 fields
id
asset:table:pmid:41510117:3
role
table
format
jats-table
media_type
application/vnd.jats.table+json
uri
null
sha256
sha256:a6690e53d144fdb3709d7b39eb3e6dbf0b21917f0a3afb431fea94bc243130ac
bytes
825
access
open
state
verified
reader
read_table
reader_status
available
identifier
section[20]/table-wrap[1]#t3
version
null
note
The relationship between the expression of MVB12B and clinical features of BLCA
structure object · 5 fields
pmcid
PMC12776198
section_index
20
section_title
MVB12B expression is significantly decreased in BLCA cell lines and tissues
row_count
16
column_count
4
table object · 8 fields
label
Table 3
caption
The relationship between the expression of MVB12B and clinical features of BLCA
rows array · 16 items
[0] array · 4 items
[0]
Characteristics
[1]
Positive
[2]
Negative
[3]
P value
[1] array · 4 items
[0]
Gender
[1]
[2]
[3]
0.57
[2] array · 4 items
[0]
Male
[1]
22 (34.9)
[2]
22 (34.9)
[3]
[3] array · 4 items
[0]
Female
[1]
11 (17.5)
[2]
8 (12.7)
[3]
[4] array · 4 items
[0]
Age
[1]
[2]
[3]
0.69
[5] array · 4 items
[0]
≤70 years
[1]
25 (39.7)
[2]
24 (38.1)
[3]
[6] array · 4 items
[0]
>70 years
[1]
8 (12.7)
[2]
6 (9.5)
[3]
[7] array · 4 items
[0]
Pathologic stage
[1]
[2]
[3]
0.28
[8] array · 4 items
[0]
Stage I & II
[1]
26 (41.3)
[2]
20 (31.7)
[3]
[9] array · 4 items
[0]
Stage III & IV
[1]
7 (11.1)
[2]
10 (15.9)
[3]
[10] array · 4 items
[0]
Histologic grade
[1]
[2]
[3]
0.03
[11] array · 4 items
[0]
Low grade
[1]
12 (19.0)
[2]
3 (4.8)
[3]
[12] array · 4 items
[0]
High grade
[1]
21 (33.3)
[2]
27 (42.9)
[3]
[13] array · 3 items
[0]
BLCA vs. non-tumor
[1]
[2]
0.04
[14] array · 4 items
[0]
BLCA
[1]
33 (40.7)
[2]
30 (37.0)
[3]
[15] array · 4 items
[0]
Non-tumor
[1]
15 (18.5)
[2]
3 (3.7)
[3]
locator
section[20]/table-wrap[1]#t3
[4] object · 16 fields
id
asset:table:pmid:41510117:4
role
table
format
jats-table
media_type
application/vnd.jats.table+json
uri
null
sha256
sha256:1fd4897e0c5f0d76028864501d220b09e53a70197a82bca517d74bc64dc2424b
bytes
2729
access
open
state
verified
reader
read_table
reader_status
available
identifier
section[22]/table-wrap[1]#t4
version
null
note
Functions and corresponding scores of MVB12B-interacting proteins
structure object · 5 fields
pmcid
PMC12776198
section_index
22
section_title
PPI network and GSEA of MVB12B
row_count
11
column_count
3
table object · 8 fields
label
Table 4
caption
Functions and corresponding scores of MVB12B-interacting proteins
rows array · 11 items
[0] array · 3 items
[0]
Protein
[1]
Function
[2]
Combined score
[1] array · 3 items
[0]
TSG101
[1]
Component of the ESCRT-I complex, a regulator of vesicular trafficking process. Binds to ubiquitinated cargo proteins and is required for the sorting of endocytic ubiquitinated cargos into MVBs. May be involved in cell growth and differentiation. Acts as a negative growth regulator
[2]
0.999
[2] array · 3 items
[0]
VPS25
[1]
Component of the ESCRT-II complex, which is required for MVB formation and sorting of endosomal cargo proteins into MVBs. The MVB pathway mediates delivery of transmembrane proteins into the lumen of the lysosome for degradation
[2]
0.954
[3] array · 3 items
[0]
VPS37B
[1]
Component of the ESCRT-I complex, a regulator of vesicular trafficking process. Required for the sorting of endocytic ubiquitinated cargos into MVBs. May be involved in cell growth and differentiation
[2]
0.997
[4] array · 3 items
[0]
VPS37C
[1]
Component of the ESCRT-I complex, a regulator of vesicular trafficking process. Required for the sorting of endocytic ubiquitinated cargos into MVBs. May be involved in cell growth and differentiation
[2]
0.978
[5] array · 3 items
[0]
VPS37A
[1]
Component of the ESCRT-I complex, a regulator of vesicular trafficking process. Required for the sorting of endocytic ubiquitinated cargos into MVBs. May be involved in cell growth and differentiation
[2]
0.992
[6] array · 3 items
[0]
VPS37D
[1]
Component of the ESCRT-I complex, a regulator of vesicular trafficking process. Required for the sorting of endocytic ubiquitinated cargos into MVBs. May be involved in cell growth and differentiation
[2]
0.975
[7] array · 3 items
[0]
SNF8
[1]
Component of the ESCRT-II, which is required for MVB formation and sorting of endosomal cargo proteins into MVBs. The MVB pathway mediates delivery of transmembrane proteins into the lumen of the lysosome for degradation
[2]
0.954
[8] array · 3 items
[0]
VPS36
[1]
Component of the ESCRT-II complex, which is required for MVB formation and sorting of endosomal cargo proteins into MVBs. The MVB pathway mediates delivery of transmembrane proteins into the lumen of the lysosome for degradation. Its ability to bind ubiquitin probably plays a role in endosomal sorting of ubiquitinated cargo proteins by ESCRT complexes
[2]
0.957
[9] array · 3 items
[0]
UBAP1
[1]
Component of the ESCRT-I complex, a regulator of vesicular trafficking process. Binds to ubiquitinated cargo proteins and is required for the sorting of endocytic ubiquitinated cargos into MVBs. Plays a role in the proteasomal degradation of ubiquitinated cell-surface proteins, such as EGFR and BST2
[2]
0.966
[10] array · 3 items
[0]
VPS28
[1]
Component of the ESCRT-I complex, a regulator of vesicular trafficking process
[2]
0.999
locator
section[22]/table-wrap[1]#t4
gaps array · 1 item
[0]
asset:source:pmid:41510117 not verified
analysis object · 4 fields
state
absent
methods array · 0 items
targets array · 0 items
gaps array · 2 items
[0]
method
[1]
targets
capability object · 3 fields
state
absent
requirements array · 0 items
gaps array · 1 item
[0]
capability
readiness object · 8 fields
state
partial
tier
null
blocked_on
null
axes object · 0 fields
can_run object · 3 fields
dsl_operations array · 0 items
assets array · 5 items
[0]
source:pmid:41510117
[1]
asset:table:pmid:41510117:1
[2]
asset:table:pmid:41510117:2
[3]
asset:table:pmid:41510117:3
[4]
asset:table:pmid:41510117:4
steps array · 1 item
[0]
read_published_estimate
must_build object · 5 fields
dsl_operations array · 0 items
converters array · 0 items
readers array · 1 item
[0]
xml
capabilities array · 0 items
data_gaps array · 1 item
[0]
source:pmid:41510117
gaps array · 1 item
[0]
corpus_record_absent
review object · 5 fields
state
partial
machine_critique object · 7 fields
status
blocked
providers array · 0 items
target_providers array · 0 items
agreement
false
disagreements array · 0 items
agreement_basis object · 2 fields
policy
decisive_fields
decisive_fields array · 4 items
[0]
work_type
[1]
number_stated
[2]
parent_value
[3]
unit
blinded
true
human_critique object · 5 fields
status
not_run
reviewer
null
signed_at
null
conflict_checked
false
commentary
null
stages array · 7 items
[0] object · 4 fields
key
target_materials
status
pending
reason
null
evidence
null
[1] object · 4 fields
key
independent_readings
status
blocked
reason
The independent readings are incomplete or disagree; the source evidence must resolve the difference.
evidence object · 1 field
provider_errors array · 4 items
[0] object · 4 fields
provider
minimax
model
null
reason
HTTP Error 429: Too Many Requests
raw_response
null
[1] object · 4 fields
provider
minimax_alt
model
null
reason
HTTP Error 429: Too Many Requests
raw_response
null
[2] object · 4 fields
provider
minimax
model
null
reason
HTTP Error 429: Too Many Requests
raw_response
null
[3] object · 4 fields
provider
minimax_alt
model
null
reason
HTTP Error 429: Too Many Requests
raw_response
null
[2] object · 4 fields
key
source_resolution
status
pending
reason
null
evidence
null
[3] object · 4 fields
key
protocol_reconstruction
status
pending
reason
null
evidence
null
[4] object · 4 fields
key
control_execution
status
pending
reason
null
evidence
null
[5] object · 4 fields
key
control_comparison
status
pending
reason
null
evidence
null
[6] object · 4 fields
key
publication
status
pending
reason
null
evidence
null
gaps array · 3 items
[0]
review.human_critique
[1]
review.machine_critique.blocked
[2]
review.machine_critique.providers
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 · 1 item
[0] object · 3 fields
id
package:ef43a86ed466fbec5f42e12bb2b6c08a6315a94c3cb2ac16de74c267989d0ba0
type
sep_package
label
SEP v1 package for pmid:41510117
activities array · 1 item
[0] object · 4 fields
id
activity:conversion:pmid:41510117
type
conversion
used array · 1 item
[0]
package:ef43a86ed466fbec5f42e12bb2b6c08a6315a94c3cb2ac16de74c267989d0ba0
agent
agent:corpus-assay-engine
agents array · 1 item
[0] object · 3 fields
id
agent:corpus-assay-engine
type
software
label
Corpus assay engine
source_run_id
run-20261023T122449232913
dsl_catalogue_fingerprint
343fb30756ba6ec3
capability_table_fingerprint
2cb3e42f047d2ecf
snapshot_id
ba34b49490d9bfaf
lineage object · 4 fields
parent_id
pmid:41510117
parent_hash
sha256:5e8d88c9659425a3f068f59fc06c92cca3905ac0d80c06163d760341b557e334
fork_of
null
gaps array · 14 items
[0]
abstract
[1]
asset:source:pmid:41510117 not verified
[2]
authors
[3]
capability
[4]
corpus_record_absent
[5]
execution.not_run
[6]
method
[7]
review.human_critique
[8]
review.machine_critique.blocked
[9]
review.machine_critique.providers
[10]
step:obtain_source_data blocked on data:not_downloaded
[11]
step:run_analysis blocked on no owned computational capability is bound to this experiment
[12]
step:run_analysis input 'materials:the source data behind the published result in pmid:41510117' does not resolve to a declared asset
[13]
targets
Complete file
{"sci_version": "1.0", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:41510117", "kind": "science-record", "revision": 2, "content_hash": "sha256:e472e9334104c1b971fd264b6c217b2d79c0220f61c86b352aa1ff02b5a4b43b", "created_at": "2026-11-01T10:25:54Z", "updated_at": "2026-11-01T14:01:53Z", "generator": {"name": "corpus-assay-engine", "converter": "sep_to_sci_v1", "source_package_schema": "urn:bntrg:sep:1.0.0"}, "paper": {"state": "partial", "title": "Multivesicular body subunit 12B (MVB12B) overexpression represses proliferation and migration in bladder urothelial carcinoma.", "doi": "10.21037/tcr-2025-1498", "pmid": "41510117", "authors": null, "journal": "Translational cancer research", "year": 2025, "abstract": null, "claims": [{"id": "claim-1", "statement": "the headline numerical result the paper states for its main finding", "kind": "qualitative", "state": "blocked", "target": {"value": null, "unit": null, "tolerance": null, "source": null}, "evidence": []}], "gaps": ["abstract", "authors"]}, "experiment": {"state": "partial", "objective": "the headline numerical result the paper states for its main finding", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate and its interval from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The number a replication must land on, and the sentence it came from.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:41510117"], "outputs": ["the published estimate, its unit and its interval"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data behind the published result", "kind": "data-preparation", "state": "blocked", "blocked_on": "data:not_downloaded", "description": "The published result cannot be recomputed without the data the paper analysed.", "duration_hours": null, "parameters": {}, "inputs": [], "outputs": ["the source data with its provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the analysis programme", "kind": "analysis", "state": "blocked", "blocked_on": "no owned computational capability is bound to this experiment", "description": "Re-run the paper's analysis on the source data and produce the registered result. | SEP input not carried into the asset list: materials:the source data behind the published result in pmid:41510117", "duration_hours": null, "parameters": {}, "inputs": [], "outputs": ["the registered result"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": ["step:obtain_source_data blocked on data:not_downloaded", "step:run_analysis blocked on no owned computational capability is bound to this experiment", "step:run_analysis input 'materials:the source data behind the published result in pmid:41510117' does not resolve to a declared asset"]}, "data": {"state": "partial", "assets": [{"id": "source:pmid:41510117", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.21037/tcr-2025-1498", "sha256": "sha256:96e9e37f383a3f93f0353b6a8dee59fe72c6785a0fef37fff33543fdbdf9ce4e", "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.21037/tcr-2025-1498", "version": null, "note": "Source read by the package builder: full_text.", "structure": {"access_state": "full_text"}}, {"id": "asset:table:pmid:41510117:1", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:6b396ac949a02e94092076aa06a3e7fccc979acc3d71c204fe9cd8112f5b053d", "bytes": 1274, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[18]/table-wrap[1]#t1", "version": null, "note": "Clinicopathological features for BLCA patients in relation to MVB12B expression level", "structure": {"pmcid": "PMC12776198", "section_index": 18, "section_title": "Relationship between MVB12B expression and clinicopathologic characteristics of BLCA", "row_count": 28, "column_count": 4}, "table": {"label": "Table 1", "caption": "Clinicopathological features for BLCA patients in relation to MVB12B expression level", "rows": [["Characteristics", "Low expression of MVB12B", "High expression of MVB12B", "P value"], ["Gender", "", "", ">0.99"], ["Male", "152 (36.9)", "152 (36.9)", ""], ["Female", "54 (13.1)", "54 (13.1)", ""], ["Age", "", "", "0.32"], ["≤70 years", "111 (26.9)", "121 (29.4)", ""], [">70 years", "95 (23.1)", "85 (20.6)", ""], ["Pathologic T stage", "", "", "0.01"], ["T1", "0 (0.0)", "5 (1.3)", ""], ["T2", "55 (14.6)", "63 (16.7)", ""], ["T3", "105 (27.8)", "91 (24.1)", ""], ["T4", "38 (10.1)", "21 (5.6)", ""], ["Pathologic N stage", "", "", "0.003"], ["N0", "107 (29.1)", "131 (35.6)", ""], ["N1", "27 (7.3)", "19 (5.2)", ""], ["N2", "50 (13.6)", "27 (7.3)", ""], ["N3", "6 (1.6)", "1 (0.3)", ""], ["Pathologic M stage", "", "", "0.14"], ["M0", "100 (47.2)", "101 (47.6)", ""], ["M1", "8 (3.8)", "3 (1.4)", ""], ["Pathologic stage", "", "", "<0.001"], ["Stage I", "0 (0.0)", "4 (1.0)", ""], ["Stage II", "51 (12.4)", "78 (19.0)", ""], ["Stage III", "70 (17.1)", "72 (17.6)", ""], ["Stage IV", "85 (20.7)", "50 (12.2)", ""], ["Histologic grade", "", "", "0.003"], ["Low grade", "4 (1.0)", "17 (4.2)", ""], ["High grade", "202 (49.4)", "186 (45.5)", ""]], "row_count": 28, "column_count": 4, "numeric_cells": 51, "header_rows": 1, "locator": "section[18]/table-wrap[1]#t1"}}, {"id": "asset:table:pmid:41510117:2", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:c41d707f046a95fa9d3576f85c8daab05be717ca42557a8f7bcd8b9f3381a699", "bytes": 869, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[18]/table-wrap[2]#t2", "version": null, "note": "MVB12B expression correlates with clinicopathological features in BLCA: a univariate logistic regression analysis", "structure": {"pmcid": "PMC12776198", "section_index": 18, "section_title": "Relationship between MVB12B expression and clinicopathologic characteristics of BLCA", "row_count": 8, "column_count": 4}, "table": {"label": "Table 2", "caption": "MVB12B expression correlates with clinicopathological features in BLCA: a univariate logistic regression analysis", "rows": [["Characteristics", "Total (n)", "OR (95% CI)", "P value"], ["Gender (female vs. male)", "412", "1.000 (0.645–1.551)", ">0.99"], ["Age (>70 vs. ≤70 years)", "412", "0.821 (0.556–1.212)", "0.32"], ["Pathologic T stage (T3 & T4 vs. T1 & T2)", "378", "0.633 (0.411–0.977)", "0.04"], ["Pathologic N stage (N1 & N2 & N3 vs. N0)", "368", "0.463 (0.298–0.718)", "<0.001"], ["Pathologic M stage (M1 vs. M0)", "212", "0.371 (0.096–1.440)", "0.15"], ["Pathologic stage (stage III & IV vs. stage I & II)", "410", "0.490 (0.321–0.747)", "<0.001"], ["Histologic grade (high grade vs. low grade)", "409", "0.217 (0.072–0.656)", "0.007"]], "row_count": 8, "column_count": 4, "numeric_cells": 23, "header_rows": 1, "locator": "section[18]/table-wrap[2]#t2"}}, {"id": "asset:table:pmid:41510117:3", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:a6690e53d144fdb3709d7b39eb3e6dbf0b21917f0a3afb431fea94bc243130ac", "bytes": 825, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[20]/table-wrap[1]#t3", "version": null, "note": "The relationship between the expression of MVB12B and clinical features of BLCA", "structure": {"pmcid": "PMC12776198", "section_index": 20, "section_title": "MVB12B expression is significantly decreased in BLCA cell lines and tissues", "row_count": 16, "column_count": 4}, "table": {"label": "Table 3", "caption": "The relationship between the expression of MVB12B and clinical features of BLCA", "rows": [["Characteristics", "Positive", "Negative", "P value"], ["Gender", "", "", "0.57"], ["Male", "22 (34.9)", "22 (34.9)", ""], ["Female", "11 (17.5)", "8 (12.7)", ""], ["Age", "", "", "0.69"], ["≤70 years", "25 (39.7)", "24 (38.1)", ""], [">70 years", "8 (12.7)", "6 (9.5)", ""], ["Pathologic stage", "", "", "0.28"], ["Stage I & II", "26 (41.3)", "20 (31.7)", ""], ["Stage III & IV", "7 (11.1)", "10 (15.9)", ""], ["Histologic grade", "", "", "0.03"], ["Low grade", "12 (19.0)", "3 (4.8)", ""], ["High grade", "21 (33.3)", "27 (42.9)", ""], ["BLCA vs. non-tumor", "", "0.04"], ["BLCA", "33 (40.7)", "30 (37.0)", ""], ["Non-tumor", "15 (18.5)", "3 (3.7)", ""]], "row_count": 16, "column_count": 4, "numeric_cells": 27, "header_rows": 1, "locator": "section[20]/table-wrap[1]#t3"}}, {"id": "asset:table:pmid:41510117:4", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:1fd4897e0c5f0d76028864501d220b09e53a70197a82bca517d74bc64dc2424b", "bytes": 2729, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[22]/table-wrap[1]#t4", "version": null, "note": "Functions and corresponding scores of MVB12B-interacting proteins", "structure": {"pmcid": "PMC12776198", "section_index": 22, "section_title": "PPI network and GSEA of MVB12B", "row_count": 11, "column_count": 3}, "table": {"label": "Table 4", "caption": "Functions and corresponding scores of MVB12B-interacting proteins", "rows": [["Protein", "Function", "Combined score"], ["TSG101", "Component of the ESCRT-I complex, a regulator of vesicular trafficking process. Binds to ubiquitinated cargo proteins and is required for the sorting of endocytic ubiquitinated cargos into MVBs. May be involved in cell growth and differentiation. Acts as a negative growth regulator", "0.999"], ["VPS25", "Component of the ESCRT-II complex, which is required for MVB formation and sorting of endosomal cargo proteins into MVBs. The MVB pathway mediates delivery of transmembrane proteins into the lumen of the lysosome for degradation", "0.954"], ["VPS37B", "Component of the ESCRT-I complex, a regulator of vesicular trafficking process. Required for the sorting of endocytic ubiquitinated cargos into MVBs. May be involved in cell growth and differentiation", "0.997"], ["VPS37C", "Component of the ESCRT-I complex, a regulator of vesicular trafficking process. Required for the sorting of endocytic ubiquitinated cargos into MVBs. May be involved in cell growth and differentiation", "0.978"], ["VPS37A", "Component of the ESCRT-I complex, a regulator of vesicular trafficking process. Required for the sorting of endocytic ubiquitinated cargos into MVBs. May be involved in cell growth and differentiation", "0.992"], ["VPS37D", "Component of the ESCRT-I complex, a regulator of vesicular trafficking process. Required for the sorting of endocytic ubiquitinated cargos into MVBs. May be involved in cell growth and differentiation", "0.975"], ["SNF8", "Component of the ESCRT-II, which is required for MVB formation and sorting of endosomal cargo proteins into MVBs. The MVB pathway mediates delivery of transmembrane proteins into the lumen of the lysosome for degradation", "0.954"], ["VPS36", "Component of the ESCRT-II complex, which is required for MVB formation and sorting of endosomal cargo proteins into MVBs. The MVB pathway mediates delivery of transmembrane proteins into the lumen of the lysosome for degradation. Its ability to bind ubiquitin probably plays a role in endosomal sorting of ubiquitinated cargo proteins by ESCRT complexes", "0.957"], ["UBAP1", "Component of the ESCRT-I complex, a regulator of vesicular trafficking process. Binds to ubiquitinated cargo proteins and is required for the sorting of endocytic ubiquitinated cargos into MVBs. Plays a role in the proteasomal degradation of ubiquitinated cell-surface proteins, such as EGFR and BST2", "0.966"], ["VPS28", "Component of the ESCRT-I complex, a regulator of vesicular trafficking process", "0.999"]], "row_count": 11, "column_count": 3, "numeric_cells": 18, "header_rows": 1, "locator": "section[22]/table-wrap[1]#t4"}}], "gaps": ["asset:source:pmid:41510117 not verified"]}, "analysis": {"state": "absent", "methods": [], "targets": [], "gaps": ["method", "targets"]}, "capability": {"state": "absent", "requirements": [], "gaps": ["capability"]}, "readiness": {"state": "partial", "tier": null, "blocking_axis": null, "blocked_on": null, "axes": {}, "can_run": {"dsl_operations": [], "assets": ["source:pmid:41510117", "asset:table:pmid:41510117:1", "asset:table:pmid:41510117:2", "asset:table:pmid:41510117:3", "asset:table:pmid:41510117:4"], "steps": ["read_published_estimate"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": ["xml"], "capabilities": [], "data_gaps": ["source:pmid:41510117"]}, "gaps": ["corpus_record_absent"]}, "review": {"state": "partial", "machine_critique": {"status": "blocked", "providers": [], "target_providers": [], "agreement": false, "disagreements": [], "agreement_basis": {"policy": "decisive_fields", "decisive_fields": ["work_type", "number_stated", "parent_value", "unit"]}, "blinded": true}, "human_critique": {"status": "not_run", "reviewer": null, "signed_at": null, "conflict_checked": false, "commentary": null}, "stages": [{"key": "target_materials", "status": "pending", "reason": null, "evidence": null}, {"key": "independent_readings", "status": "blocked", "reason": "The independent readings are incomplete or disagree; the source evidence must resolve the difference.", "evidence": {"provider_errors": [{"provider": "minimax", "model": null, "reason": "HTTP Error 429: Too Many Requests", "raw_response": null}, {"provider": "minimax_alt", "model": null, "reason": "HTTP Error 429: Too Many Requests", "raw_response": null}, {"provider": "minimax", "model": null, "reason": "HTTP Error 429: Too Many Requests", "raw_response": null}, {"provider": "minimax_alt", "model": null, "reason": "HTTP Error 429: Too Many Requests", "raw_response": null}]}}, {"key": "source_resolution", "status": "pending", "reason": null, "evidence": null}, {"key": "protocol_reconstruction", "status": "pending", "reason": null, "evidence": null}, {"key": "control_execution", "status": "pending", "reason": null, "evidence": null}, {"key": "control_comparison", "status": "pending", "reason": null, "evidence": null}, {"key": "publication", "status": "pending", "reason": null, "evidence": null}], "gaps": ["review.human_critique", "review.machine_critique.blocked", "review.machine_critique.providers"]}, "execution": {"state": "absent", "status": "not_run", "mode": null, "runs": [], "gaps": ["execution.not_run"]}, "provenance": {"entities": [{"id": "package:ef43a86ed466fbec5f42e12bb2b6c08a6315a94c3cb2ac16de74c267989d0ba0", "type": "sep_package", "label": "SEP v1 package for pmid:41510117"}], "activities": [{"id": "activity:conversion:pmid:41510117", "type": "conversion", "used": ["package:ef43a86ed466fbec5f42e12bb2b6c08a6315a94c3cb2ac16de74c267989d0ba0"], "agent": "agent:corpus-assay-engine"}], "agents": [{"id": "agent:corpus-assay-engine", "type": "software", "label": "Corpus assay engine"}], "source_run_id": "run-20261023T122449232913", "dsl_catalogue_fingerprint": "343fb30756ba6ec3", "capability_table_fingerprint": "2cb3e42f047d2ecf", "snapshot_id": "ba34b49490d9bfaf"}, "lineage": {"parent_id": "pmid:41510117", "parent_hash": "sha256:5e8d88c9659425a3f068f59fc06c92cca3905ac0d80c06163d760341b557e334", "fork_of": null, "generation": 2}, "gaps": ["abstract", "asset:source:pmid:41510117 not verified", "authors", "capability", "corpus_record_absent", "execution.not_run", "method", "review.human_critique", "review.machine_critique.blocked", "review.machine_critique.providers", "step:obtain_source_data blocked on data:not_downloaded", "step:run_analysis blocked on no owned computational capability is bound to this experiment", "step:run_analysis input 'materials:the source data behind the published result in pmid:41510117' does not resolve to a declared asset", "targets"]}