← All .science files
pmid:37545758
Transplantation of human induced pluripotent stem cell derived keratinocytes accelerates deep second-degree burn wound healing.
Li-Jun Wu · Wei Lin · Jian-Jiang Liu · Wei-Xin Chen · Wen-Jun He · Yuan Shi · Xiao Liu · Ke Li
World journal of stem cells · 2023 doi:10.4252/wjsc.v15.i7.713
Paper
complete
Experiment
complete
Data
partial
Analysis
complete
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 · 8 items
claims array · 3 items
[0] object · 6 fields
evidence array · 1 item
[0] object · 3 fields
[1] object · 6 fields
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 · 0 items
data object · 3 fields
assets array · 3 items
[0] object · 15 fields
structure object · 4 fields
[1] object · 15 fields
structure object · 15 fields
sample_accessions array · 9 items
[2] object · 15 fields
structure object · 15 fields
sample_accessions array · 8 items
gaps array · 4 items
analysis object · 4 fields
methods array · 1 item
[0] object · 10 fields
dsl_operations array · 4 items
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
targets array · 0 items
gaps array · 0 items
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 · 4 items
missing_operations array · 0 items
capability object · 4 fields
data object · 6 fields
accessions array · 2 items
resolved_accessions array · 2 items
statements array · 1 item
can_run object · 3 fields
dsl_operations array · 4 items
assets array · 2 items
steps array · 1 item
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
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 · 8 items
assays array · 5 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 · 2 items
[2] object · 11 fields
required_operations array · 0 items
source_hashes object · 1 field
evidence array · 3 items
[3] object · 11 fields
required_operations array · 0 items
source_hashes object · 1 field
evidence array · 1 item
[4] object · 11 fields
required_operations array · 4 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:37545758", "kind": "science-record", "revision": 5, "content_hash": "sha256:0c41502b932c76a6231f54e271ea793263bbff46d3577a3f2ab57205f76a09a6", "created_at": "2026-11-01T19:02:19Z", "updated_at": "2026-11-01T22:52:27Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Transplantation of human induced pluripotent stem cell derived keratinocytes accelerates deep second-degree burn wound healing.", "doi": "10.4252/wjsc.v15.i7.713", "pmid": "37545758", "authors": ["Li-Jun Wu", "Wei Lin", "Jian-Jiang Liu", "Wei-Xin Chen", "Wen-Jun He", "Yuan Shi", "Xiao Liu", "Ke Li"], "journal": "World journal of stem cells", "year": 2023, "abstract": "BACKGROUND: Current evidence shows that human induced pluripotent stem cells (hiPSCs) can effectively differentiate into keratinocytes (KCs), but its effect on skin burn healing has not been reported.\nAIM: To observe the effects of hiPSCs-derived KCs transplantation on skin burn healing in mice and to preliminarily reveal the underlying mechanisms.\nMETHODS: An analysis of differentially expressed genes in burn wounds based on GEO datasets GSE140926, and GSE27186 was established. A differentiation medium containing retinoic acid and bone morphogenetic protein 4 was applied to induce hiPSCs to differentiate into KCs. The expression of KCs marker proteins was detected using immunofluorescence staining. A model of a C57BL/6 mouse with deep cutaneous second-degree burn was created, and then phosphate buffered saline (PBS), hiPSCs-KCs, or hiPSCs-KCs with knockdown of COL7A1 were injected around the wound surface. The wound healing, re-epithelialization, engraftment of hiPSCs-KCs into wounds, proinflammatory factor level, and the NF-κB pathway proteins were assessed by hematoxylin-eosin staining, carboxifluorescein diacetate succinimidyl ester (CFSE) fluorescence staining, enzyme linked immunosorbent assay, and Western blotting on days 3, 7, and 14 after the injection, respectively. Moreover, the effects of COL7A1 knockdown on the proliferation and migration of hiPSCs-KCs were confirmed by immunohistochemistry, EdU, Transwell, and damage repair assays.\nRESULTS: HiPSCs-KCs could express the hallmark proteins of KCs. COL7A1 was down-regulated in burn wound tissues and highly expressed in hiPSCs-KCs. Transplantation of hiPSCs-KCs into mice with burn wounds resulted in a significant decrease in wound area, an increase in wound re-epithelialization, a decrease in proinflammatory factors content, and an inhibition of NF-κB pathway activation compared to the PBS group. The in vitro assay showed that COL7A1 knockdown could rescue the inhibition of hiPSCs-KCs proliferation and migration, providing further evidence that COL7A1 speeds up burn wound healing by limiting cell proliferation and migration.\nCONCLUSION: In deep, second-degree burn wounds, COL7A1 can promote KC proliferation and migration while also suppressing the inflammatory response.", "claims": [{"id": "claim-method", "statement": "Kruskal-Walli’s test was used for the non-parametric statistical analysis. Differences among more than two groups in the above assays were estimated using one-way ANOVA, with P < 0.05 considered significant.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37545758", "locator": "sections[17] \"Statistical analysis\" paragraph 2", "quote": "Kruskal-Walli’s test was used for the non-parametric statistical analysis. Differences among more than two groups in the above assays were estimated using one-way ANOVA, with P < 0.05 considered significant."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The datasets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request at likefggf@163.com.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37545758", "locator": "sections[39] \"Data sharing statement\" paragraph 2", "quote": "The datasets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request at likefggf@163.com."}], "state": "complete"}, {"id": "claim-target-result", "statement": "In deep, second-degree burn wounds, COL7A1 can promote KC proliferation and migration while also suppressing the inflammatory response.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:37545758", "locator": "sections[0] \"Abstract\" paragraph 5", "quote": "In deep, second-degree burn wounds, COL7A1 can promote KC proliferation and migration while also suppressing the inflammatory response."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "In deep, second-degree burn wounds, COL7A1 can promote KC proliferation and migration while also suppressing the inflammatory response.", "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:37545758"], "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:GSE140926"], "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": ["data:geo:GSE140926"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:37545758", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.4252/wjsc.v15.i7.713", "sha256": "sha256:9b25e2f9aed4c42661481be3156aba07a3b76955a7d53b307e92005b0946fa06", "bytes": 53251, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.4252/wjsc.v15.i7.713", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC10401420", "source": "europe_pmc_fulltext", "coverage": "whole_body_without_references", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE140926", "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=GSE140926", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE140926", "version": null, "note": "The datasets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request at likefggf@163.com.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The datasets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request at likefggf@163.com.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM4190510", "GSM4190511", "GSM4190512", "GSM4190513", "GSM4190514", "GSM4190515", "GSM4190516", "GSM4190517", "GSM4190518"], "sample_count": 9, "group_sizes": null, "group_sizes_basis": null, "platform": "15433", "taxon": "Homo sapiens", "title": "RNA-seq analysis on pericytes derived from normal skin and burn eschar compared to human skin-derived fibroblasts", "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:GSE27186", "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=GSE27186", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE27186", "version": null, "note": "The datasets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request at likefggf@163.com.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The datasets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request at likefggf@163.com.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM671883", "GSM671884", "GSM671885", "GSM671886", "GSM671887", "GSM671888", "GSM671889", "GSM671890"], "sample_count": 8, "group_sizes": null, "group_sizes_basis": null, "platform": "570", "taxon": "Homo sapiens", "title": "Expression data of human somatic cell types and induced pluripotent stem cells", "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:GSE140926 not downloaded", "asset:data:geo:GSE140926 licence not read", "asset:data:geo:GSE27186 not downloaded", "asset:data:geo:GSE27186 licence not read"]}, "analysis": {"state": "complete", "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": 1.0, "band": "verbatim", "quote": "Kruskal-Walli’s test was used for the non-parametric statistical analysis. Differences among more than two groups in the above assays were estimated using one-way ANOVA, with P < 0.05 considered significant."}}], "targets": [], "gaps": []}, "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": 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": "R1", "reachable": true, "accessions": ["GSE140926", "GSE27186"], "resolved_accessions": ["GSE140926", "GSE27186"], "statements": ["The datasets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request at likefggf@163.com."], "basis": "The paper names GSE140926, GSE27186 in GEO database and the accession resolves in the repository. No dataset was downloaded and no licence was read."}}, "can_run": {"dsl_operations": ["group_summary", "welch_t", "bootstrap_mean_difference", "group_comparison_anova"], "assets": ["source:pmid:37545758", "data:geo:GSE140926"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:GSE140926"]}, "gaps": []}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-11-01T18:48:47Z", "independence": "single_reader"}, "evidence_check": {"method": "verbatim", "availability": "verbatim"}, "calls": 5, "usage": {"prompt_tokens": 14007, "completion_tokens": 1180, "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:37545758", "type": "paper", "label": "pmid:37545758"}, {"id": "source:pmid:37545758", "type": "manuscript", "label": "PMID 37545758 full text"}, {"id": "data:geo:GSE140926", "type": "dataset", "label": "GEO GSE140926"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:37545758", "type": "paper", "label": "pmid:37545758"}, {"id": "source:pmid:37545758", "type": "manuscript", "label": "PMID 37545758 full text"}, {"id": "data:geo:GSE140926", "type": "dataset", "label": "GEO GSE140926"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-37545758", "type": "extraction", "used": ["source:pmid:37545758"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-GSE140926", "type": "accession_resolution", "used": ["data:geo:GSE140926"], "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:37545758", "parent_hash": "sha256:871e4c9b545da0b1895c8e71b4fa6e253249d4f568b7b803f854e6ead6dfbbe3", "fork_of": null, "generation": 4}, "gaps": ["asset:data:geo:GSE140926 licence not read", "asset:data:geo:GSE140926 not downloaded", "asset:data:geo:GSE27186 licence not read", "asset:data:geo:GSE27186 not downloaded", "execution.not_run", "review.human_critique", "review.independent_reader", "review.machine_critique"], "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": ["ved KCs transplantation on skin burn healing in mice and to preliminarily reveal the underlying m", "ofluorescence staining. A model of a C57BL/6 mouse with deep cutaneous second-degree burn was c", "KCs) using inducing factors. Subsequently, a murine skin-deep degree II burn model was construct", "ed to differentiate formed on the healing of murine skin wounds. In addition, a bioinformatics a"], "order_basis": "paper_text_order:371", "id": "assay:1"}, {"role": "data_generation", "definition_id": "ihc", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["nd migration of hiPSCs-KCs were confirmed by immunohistochemistry, EdU, Transwell, and damage repair assays. R", "on of KCs marker proteins was detected using immunofluorescence staining. A model of a C57BL/6 mouse with de"], "order_basis": "paper_text_order:763", "id": "assay:2"}, {"role": "data_generation", "definition_id": "transfection", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["saline (PBS), hiPSCs-KCs, or hiPSCs-KCs with knockdown of COL7A1 were injected around the wound sur", "espectively. Moreover, the effects of COL7A1 knockdown on the proliferation and migration of hiPSCs", "group. The in vitro assay showed that COL7A1 knockdown could rescue the inhibition of hiPSCs-KCs pr"], "order_basis": "paper_text_order:944", "id": "assay:3"}, {"role": "data_generation", "definition_id": "western_blot", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.93, "evidence": ["ning, enzyme linked immunosorbent assay, and Western blotting on days 3, 7, and 14 after the injection, re"], "order_basis": "paper_text_order:1307", "id": "assay:4"}, {"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": 1.0, "evidence": ["Kruskal-Walli’s test was used for the non-parametric statistical analysis. Differences among more than two groups in the above assays were estimated using one-way ANOVA, with P < 0.05 considered significant."], "order_basis": "consumes_earlier_output", "id": "assay:5"}]}