CODA: 3D tissue reconstruction pipeline | HuBMAP | JHU-TMC v2 Article Swipe
Kyu Sang Han
,
Pei‐Hsun Wu
,
Joel Sunshine
,
Ashley Kiemen
,
Sashank Reddy
,
Denis Wirtz
·
YOU?
·
· 2024
· Open Access
·
· DOI: https://doi.org/10.17504/protocols.io.kqdg324xpv25/v2
YOU?
·
· 2024
· Open Access
·
· DOI: https://doi.org/10.17504/protocols.io.kqdg324xpv25/v2
CODA pipeline with 6 parts
Related Topics
Metadata
- Type
- preprint
- Language
- en
- Landing Page
- https://doi.org/10.17504/protocols.io.kqdg324xpv25/v2
- https://www.protocols.io/view/coda-3d-tissue-reconstruction-pipeline-hubmap-jhu-db8z2rx6.pdf
- OA Status
- gold
- Cited By
- 1
- References
- 7
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4394857620
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
-
https://openalex.org/W4394857620Canonical identifier for this work in OpenAlex
- DOI
-
https://doi.org/10.17504/protocols.io.kqdg324xpv25/v2Digital Object Identifier
- Title
-
CODA: 3D tissue reconstruction pipeline | HuBMAP | JHU-TMC v2Work title
- Type
-
preprintOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2024Year of publication
- Publication date
-
2024-04-16Full publication date if available
- Authors
-
Kyu Sang Han, Pei‐Hsun Wu, Joel Sunshine, Ashley Kiemen, Sashank Reddy, Denis WirtzList of authors in order
- Landing page
-
https://doi.org/10.17504/protocols.io.kqdg324xpv25/v2Publisher landing page
- PDF URL
-
https://www.protocols.io/view/coda-3d-tissue-reconstruction-pipeline-hubmap-jhu-db8z2rx6.pdfDirect link to full text PDF
- Open access
-
YesWhether a free full text is available
- OA status
-
goldOpen access status per OpenAlex
- OA URL
-
https://www.protocols.io/view/coda-3d-tissue-reconstruction-pipeline-hubmap-jhu-db8z2rx6.pdfDirect OA link when available
- Concepts
-
Coda, Pipeline (software), Seismology, Geology, Computer science, Operating systemTop concepts (fields/topics) attached by OpenAlex
- Cited by
-
1Total citation count in OpenAlex
- Citations by year (recent)
-
2024: 1Per-year citation counts (last 5 years)
- References (count)
-
7Number of works referenced by this work
- Related works (count)
-
10Other works algorithmically related by OpenAlex
Full payload
| id | https://openalex.org/W4394857620 |
|---|---|
| doi | https://doi.org/10.17504/protocols.io.kqdg324xpv25/v2 |
| ids.doi | https://doi.org/10.17504/protocols.io.kqdg324xpv25/v2 |
| ids.openalex | https://openalex.org/W4394857620 |
| fwci | 0.81907382 |
| type | preprint |
| title | CODA: 3D tissue reconstruction pipeline | HuBMAP | JHU-TMC v2 |
| biblio.issue | |
| biblio.volume | |
| biblio.last_page | |
| biblio.first_page | |
| topics[0].id | https://openalex.org/T12422 |
| topics[0].field.id | https://openalex.org/fields/27 |
| topics[0].field.display_name | Medicine |
| topics[0].score | 0.9926000237464905 |
| topics[0].domain.id | https://openalex.org/domains/4 |
| topics[0].domain.display_name | Health Sciences |
| topics[0].subfield.id | https://openalex.org/subfields/2741 |
| topics[0].subfield.display_name | Radiology, Nuclear Medicine and Imaging |
| topics[0].display_name | Radiomics and Machine Learning in Medical Imaging |
| topics[1].id | https://openalex.org/T10522 |
| topics[1].field.id | https://openalex.org/fields/27 |
| topics[1].field.display_name | Medicine |
| topics[1].score | 0.9754999876022339 |
| topics[1].domain.id | https://openalex.org/domains/4 |
| topics[1].domain.display_name | Health Sciences |
| topics[1].subfield.id | https://openalex.org/subfields/2741 |
| topics[1].subfield.display_name | Radiology, Nuclear Medicine and Imaging |
| topics[1].display_name | Medical Imaging Techniques and Applications |
| topics[2].id | https://openalex.org/T10335 |
| topics[2].field.id | https://openalex.org/fields/27 |
| topics[2].field.display_name | Medicine |
| topics[2].score | 0.9661999940872192 |
| topics[2].domain.id | https://openalex.org/domains/4 |
| topics[2].domain.display_name | Health Sciences |
| topics[2].subfield.id | https://openalex.org/subfields/2730 |
| topics[2].subfield.display_name | Oncology |
| topics[2].display_name | Colorectal Cancer Surgical Treatments |
| is_xpac | False |
| apc_list | |
| apc_paid | |
| concepts[0].id | https://openalex.org/C3962253 |
| concepts[0].level | 2 |
| concepts[0].score | 0.9879777431488037 |
| concepts[0].wikidata | https://www.wikidata.org/wiki/Q852466 |
| concepts[0].display_name | Coda |
| concepts[1].id | https://openalex.org/C43521106 |
| concepts[1].level | 2 |
| concepts[1].score | 0.7455661296844482 |
| concepts[1].wikidata | https://www.wikidata.org/wiki/Q2165493 |
| concepts[1].display_name | Pipeline (software) |
| concepts[2].id | https://openalex.org/C165205528 |
| concepts[2].level | 1 |
| concepts[2].score | 0.6113860607147217 |
| concepts[2].wikidata | https://www.wikidata.org/wiki/Q83371 |
| concepts[2].display_name | Seismology |
| concepts[3].id | https://openalex.org/C127313418 |
| concepts[3].level | 0 |
| concepts[3].score | 0.5656521320343018 |
| concepts[3].wikidata | https://www.wikidata.org/wiki/Q1069 |
| concepts[3].display_name | Geology |
| concepts[4].id | https://openalex.org/C41008148 |
| concepts[4].level | 0 |
| concepts[4].score | 0.3637033700942993 |
| concepts[4].wikidata | https://www.wikidata.org/wiki/Q21198 |
| concepts[4].display_name | Computer science |
| concepts[5].id | https://openalex.org/C111919701 |
| concepts[5].level | 1 |
| concepts[5].score | 0.05334514379501343 |
| concepts[5].wikidata | https://www.wikidata.org/wiki/Q9135 |
| concepts[5].display_name | Operating system |
| keywords[0].id | https://openalex.org/keywords/coda |
| keywords[0].score | 0.9879777431488037 |
| keywords[0].display_name | Coda |
| keywords[1].id | https://openalex.org/keywords/pipeline |
| keywords[1].score | 0.7455661296844482 |
| keywords[1].display_name | Pipeline (software) |
| keywords[2].id | https://openalex.org/keywords/seismology |
| keywords[2].score | 0.6113860607147217 |
| keywords[2].display_name | Seismology |
| keywords[3].id | https://openalex.org/keywords/geology |
| keywords[3].score | 0.5656521320343018 |
| keywords[3].display_name | Geology |
| keywords[4].id | https://openalex.org/keywords/computer-science |
| keywords[4].score | 0.3637033700942993 |
| keywords[4].display_name | Computer science |
| keywords[5].id | https://openalex.org/keywords/operating-system |
| keywords[5].score | 0.05334514379501343 |
| keywords[5].display_name | Operating system |
| language | en |
| locations[0].id | doi:10.17504/protocols.io.kqdg324xpv25/v2 |
| locations[0].is_oa | True |
| locations[0].source | |
| locations[0].license | cc-by |
| locations[0].pdf_url | https://www.protocols.io/view/coda-3d-tissue-reconstruction-pipeline-hubmap-jhu-db8z2rx6.pdf |
| locations[0].version | acceptedVersion |
| locations[0].raw_type | posted-content |
| locations[0].license_id | https://openalex.org/licenses/cc-by |
| locations[0].is_accepted | True |
| locations[0].is_published | False |
| locations[0].raw_source_name | |
| locations[0].landing_page_url | https://doi.org/10.17504/protocols.io.kqdg324xpv25/v2 |
| indexed_in | crossref |
| authorships[0].author.id | https://openalex.org/A5007835544 |
| authorships[0].author.orcid | https://orcid.org/0000-0001-7677-8386 |
| authorships[0].author.display_name | Kyu Sang Han |
| authorships[0].countries | US |
| authorships[0].affiliations[0].institution_ids | https://openalex.org/I145311948 |
| authorships[0].affiliations[0].raw_affiliation_string | Johns Hopkins University |
| authorships[0].affiliations[1].institution_ids | https://openalex.org/I145311948, https://openalex.org/I2799853436 |
| authorships[0].affiliations[1].raw_affiliation_string | Johns Hopkins University; Johns Hopkins Medicine Human BioMolecular Atlas Program (HuBMAP) Method Development Community |
| authorships[0].institutions[0].id | https://openalex.org/I2799853436 |
| authorships[0].institutions[0].ror | https://ror.org/037zgn354 |
| authorships[0].institutions[0].type | healthcare |
| authorships[0].institutions[0].lineage | https://openalex.org/I2799853436 |
| authorships[0].institutions[0].country_code | US |
| authorships[0].institutions[0].display_name | Johns Hopkins Medicine |
| authorships[0].institutions[1].id | https://openalex.org/I145311948 |
| authorships[0].institutions[1].ror | https://ror.org/00za53h95 |
| authorships[0].institutions[1].type | education |
| authorships[0].institutions[1].lineage | https://openalex.org/I145311948 |
| authorships[0].institutions[1].country_code | US |
| authorships[0].institutions[1].display_name | Johns Hopkins University |
| authorships[0].author_position | first |
| authorships[0].raw_author_name | Kyu Sang Han |
| authorships[0].is_corresponding | False |
| authorships[0].raw_affiliation_strings | Johns Hopkins University, Johns Hopkins University; Johns Hopkins Medicine Human BioMolecular Atlas Program (HuBMAP) Method Development Community |
| authorships[1].author.id | https://openalex.org/A5075538781 |
| authorships[1].author.orcid | https://orcid.org/0000-0002-1556-4357 |
| authorships[1].author.display_name | Pei‐Hsun Wu |
| authorships[1].countries | US |
| authorships[1].affiliations[0].institution_ids | https://openalex.org/I145311948 |
| authorships[1].affiliations[0].raw_affiliation_string | Johns Hopkins University |
| authorships[1].affiliations[1].institution_ids | https://openalex.org/I145311948, https://openalex.org/I2799853436 |
| authorships[1].affiliations[1].raw_affiliation_string | Johns Hopkins University; Johns Hopkins Medicine Human BioMolecular Atlas Program (HuBMAP) Method Development Community |
| authorships[1].institutions[0].id | https://openalex.org/I2799853436 |
| authorships[1].institutions[0].ror | https://ror.org/037zgn354 |
| authorships[1].institutions[0].type | healthcare |
| authorships[1].institutions[0].lineage | https://openalex.org/I2799853436 |
| authorships[1].institutions[0].country_code | US |
| authorships[1].institutions[0].display_name | Johns Hopkins Medicine |
| authorships[1].institutions[1].id | https://openalex.org/I145311948 |
| authorships[1].institutions[1].ror | https://ror.org/00za53h95 |
| authorships[1].institutions[1].type | education |
| authorships[1].institutions[1].lineage | https://openalex.org/I145311948 |
| authorships[1].institutions[1].country_code | US |
| authorships[1].institutions[1].display_name | Johns Hopkins University |
| authorships[1].author_position | middle |
| authorships[1].raw_author_name | Pei-Hsun Wu |
| authorships[1].is_corresponding | False |
| authorships[1].raw_affiliation_strings | Johns Hopkins University, Johns Hopkins University; Johns Hopkins Medicine Human BioMolecular Atlas Program (HuBMAP) Method Development Community |
| authorships[2].author.id | https://openalex.org/A5024832221 |
| authorships[2].author.orcid | https://orcid.org/0000-0001-9987-6712 |
| authorships[2].author.display_name | Joel Sunshine |
| authorships[2].countries | US |
| authorships[2].affiliations[0].institution_ids | https://openalex.org/I145311948 |
| authorships[2].affiliations[0].raw_affiliation_string | Johns Hopkins University |
| authorships[2].affiliations[1].institution_ids | https://openalex.org/I145311948, https://openalex.org/I2799853436 |
| authorships[2].affiliations[1].raw_affiliation_string | Johns Hopkins University; Johns Hopkins Medicine Human BioMolecular Atlas Program (HuBMAP) Method Development Community |
| authorships[2].institutions[0].id | https://openalex.org/I2799853436 |
| authorships[2].institutions[0].ror | https://ror.org/037zgn354 |
| authorships[2].institutions[0].type | healthcare |
| authorships[2].institutions[0].lineage | https://openalex.org/I2799853436 |
| authorships[2].institutions[0].country_code | US |
| authorships[2].institutions[0].display_name | Johns Hopkins Medicine |
| authorships[2].institutions[1].id | https://openalex.org/I145311948 |
| authorships[2].institutions[1].ror | https://ror.org/00za53h95 |
| authorships[2].institutions[1].type | education |
| authorships[2].institutions[1].lineage | https://openalex.org/I145311948 |
| authorships[2].institutions[1].country_code | US |
| authorships[2].institutions[1].display_name | Johns Hopkins University |
| authorships[2].author_position | middle |
| authorships[2].raw_author_name | Joel Sunshine |
| authorships[2].is_corresponding | False |
| authorships[2].raw_affiliation_strings | Johns Hopkins University, Johns Hopkins University; Johns Hopkins Medicine Human BioMolecular Atlas Program (HuBMAP) Method Development Community |
| authorships[3].author.id | https://openalex.org/A5023048313 |
| authorships[3].author.orcid | https://orcid.org/0000-0002-6281-2616 |
| authorships[3].author.display_name | Ashley Kiemen |
| authorships[3].countries | US |
| authorships[3].affiliations[0].institution_ids | https://openalex.org/I145311948 |
| authorships[3].affiliations[0].raw_affiliation_string | Johns Hopkins University |
| authorships[3].affiliations[1].institution_ids | https://openalex.org/I145311948, https://openalex.org/I2799853436 |
| authorships[3].affiliations[1].raw_affiliation_string | Johns Hopkins University; Johns Hopkins Medicine Human BioMolecular Atlas Program (HuBMAP) Method Development Community |
| authorships[3].institutions[0].id | https://openalex.org/I2799853436 |
| authorships[3].institutions[0].ror | https://ror.org/037zgn354 |
| authorships[3].institutions[0].type | healthcare |
| authorships[3].institutions[0].lineage | https://openalex.org/I2799853436 |
| authorships[3].institutions[0].country_code | US |
| authorships[3].institutions[0].display_name | Johns Hopkins Medicine |
| authorships[3].institutions[1].id | https://openalex.org/I145311948 |
| authorships[3].institutions[1].ror | https://ror.org/00za53h95 |
| authorships[3].institutions[1].type | education |
| authorships[3].institutions[1].lineage | https://openalex.org/I145311948 |
| authorships[3].institutions[1].country_code | US |
| authorships[3].institutions[1].display_name | Johns Hopkins University |
| authorships[3].author_position | middle |
| authorships[3].raw_author_name | Ashley Kiemen |
| authorships[3].is_corresponding | False |
| authorships[3].raw_affiliation_strings | Johns Hopkins University, Johns Hopkins University; Johns Hopkins Medicine Human BioMolecular Atlas Program (HuBMAP) Method Development Community |
| authorships[4].author.id | https://openalex.org/A5017500080 |
| authorships[4].author.orcid | https://orcid.org/0000-0001-6323-3950 |
| authorships[4].author.display_name | Sashank Reddy |
| authorships[4].countries | US |
| authorships[4].affiliations[0].institution_ids | https://openalex.org/I145311948 |
| authorships[4].affiliations[0].raw_affiliation_string | Johns Hopkins University |
| authorships[4].affiliations[1].institution_ids | https://openalex.org/I145311948, https://openalex.org/I2799853436 |
| authorships[4].affiliations[1].raw_affiliation_string | Johns Hopkins University; Johns Hopkins Medicine Human BioMolecular Atlas Program (HuBMAP) Method Development Community |
| authorships[4].institutions[0].id | https://openalex.org/I2799853436 |
| authorships[4].institutions[0].ror | https://ror.org/037zgn354 |
| authorships[4].institutions[0].type | healthcare |
| authorships[4].institutions[0].lineage | https://openalex.org/I2799853436 |
| authorships[4].institutions[0].country_code | US |
| authorships[4].institutions[0].display_name | Johns Hopkins Medicine |
| authorships[4].institutions[1].id | https://openalex.org/I145311948 |
| authorships[4].institutions[1].ror | https://ror.org/00za53h95 |
| authorships[4].institutions[1].type | education |
| authorships[4].institutions[1].lineage | https://openalex.org/I145311948 |
| authorships[4].institutions[1].country_code | US |
| authorships[4].institutions[1].display_name | Johns Hopkins University |
| authorships[4].author_position | middle |
| authorships[4].raw_author_name | Sashank Reddy |
| authorships[4].is_corresponding | False |
| authorships[4].raw_affiliation_strings | Johns Hopkins University, Johns Hopkins University; Johns Hopkins Medicine Human BioMolecular Atlas Program (HuBMAP) Method Development Community |
| authorships[5].author.id | https://openalex.org/A5003835601 |
| authorships[5].author.orcid | https://orcid.org/0000-0001-6147-3045 |
| authorships[5].author.display_name | Denis Wirtz |
| authorships[5].countries | US |
| authorships[5].affiliations[0].institution_ids | https://openalex.org/I145311948, https://openalex.org/I2799853436 |
| authorships[5].affiliations[0].raw_affiliation_string | Johns Hopkins University; Johns Hopkins Medicine Human BioMolecular Atlas Program (HuBMAP) Method Development Community |
| authorships[5].affiliations[1].institution_ids | https://openalex.org/I145311948 |
| authorships[5].affiliations[1].raw_affiliation_string | Johns Hopkins University |
| authorships[5].institutions[0].id | https://openalex.org/I2799853436 |
| authorships[5].institutions[0].ror | https://ror.org/037zgn354 |
| authorships[5].institutions[0].type | healthcare |
| authorships[5].institutions[0].lineage | https://openalex.org/I2799853436 |
| authorships[5].institutions[0].country_code | US |
| authorships[5].institutions[0].display_name | Johns Hopkins Medicine |
| authorships[5].institutions[1].id | https://openalex.org/I145311948 |
| authorships[5].institutions[1].ror | https://ror.org/00za53h95 |
| authorships[5].institutions[1].type | education |
| authorships[5].institutions[1].lineage | https://openalex.org/I145311948 |
| authorships[5].institutions[1].country_code | US |
| authorships[5].institutions[1].display_name | Johns Hopkins University |
| authorships[5].author_position | last |
| authorships[5].raw_author_name | Denis Wirtz |
| authorships[5].is_corresponding | False |
| authorships[5].raw_affiliation_strings | Johns Hopkins University, Johns Hopkins University; Johns Hopkins Medicine Human BioMolecular Atlas Program (HuBMAP) Method Development Community |
| has_content.pdf | True |
| has_content.grobid_xml | False |
| is_paratext | False |
| open_access.is_oa | True |
| open_access.oa_url | https://www.protocols.io/view/coda-3d-tissue-reconstruction-pipeline-hubmap-jhu-db8z2rx6.pdf |
| open_access.oa_status | gold |
| open_access.any_repository_has_fulltext | False |
| created_date | 2025-10-10T00:00:00 |
| display_name | CODA: 3D tissue reconstruction pipeline | HuBMAP | JHU-TMC v2 |
| has_fulltext | False |
| is_retracted | False |
| updated_date | 2025-12-19T19:40:27.379048 |
| primary_topic.id | https://openalex.org/T12422 |
| primary_topic.field.id | https://openalex.org/fields/27 |
| primary_topic.field.display_name | Medicine |
| primary_topic.score | 0.9926000237464905 |
| primary_topic.domain.id | https://openalex.org/domains/4 |
| primary_topic.domain.display_name | Health Sciences |
| primary_topic.subfield.id | https://openalex.org/subfields/2741 |
| primary_topic.subfield.display_name | Radiology, Nuclear Medicine and Imaging |
| primary_topic.display_name | Radiomics and Machine Learning in Medical Imaging |
| related_works | https://openalex.org/W4391375266, https://openalex.org/W2748952813, https://openalex.org/W170464811, https://openalex.org/W264981030, https://openalex.org/W2047487744, https://openalex.org/W2101702422, https://openalex.org/W2130115884, https://openalex.org/W306191460, https://openalex.org/W159997555, https://openalex.org/W2348058705 |
| cited_by_count | 1 |
| counts_by_year[0].year | 2024 |
| counts_by_year[0].cited_by_count | 1 |
| locations_count | 1 |
| best_oa_location.id | doi:10.17504/protocols.io.kqdg324xpv25/v2 |
| best_oa_location.is_oa | True |
| best_oa_location.source | |
| best_oa_location.license | cc-by |
| best_oa_location.pdf_url | https://www.protocols.io/view/coda-3d-tissue-reconstruction-pipeline-hubmap-jhu-db8z2rx6.pdf |
| best_oa_location.version | acceptedVersion |
| best_oa_location.raw_type | posted-content |
| best_oa_location.license_id | https://openalex.org/licenses/cc-by |
| best_oa_location.is_accepted | True |
| best_oa_location.is_published | False |
| best_oa_location.raw_source_name | |
| best_oa_location.landing_page_url | https://doi.org/10.17504/protocols.io.kqdg324xpv25/v2 |
| primary_location.id | doi:10.17504/protocols.io.kqdg324xpv25/v2 |
| primary_location.is_oa | True |
| primary_location.source | |
| primary_location.license | cc-by |
| primary_location.pdf_url | https://www.protocols.io/view/coda-3d-tissue-reconstruction-pipeline-hubmap-jhu-db8z2rx6.pdf |
| primary_location.version | acceptedVersion |
| primary_location.raw_type | posted-content |
| primary_location.license_id | https://openalex.org/licenses/cc-by |
| primary_location.is_accepted | True |
| primary_location.is_published | False |
| primary_location.raw_source_name | |
| primary_location.landing_page_url | https://doi.org/10.17504/protocols.io.kqdg324xpv25/v2 |
| publication_date | 2024-04-16 |
| publication_year | 2024 |
| referenced_works | https://openalex.org/W4396544408, https://openalex.org/W4391051322, https://openalex.org/W4386697321, https://openalex.org/W4317897848, https://openalex.org/W4394857620, https://openalex.org/W4307286999, https://openalex.org/W4394695558 |
| referenced_works_count | 7 |
| abstract_inverted_index.6 | 3 |
| abstract_inverted_index.CODA | 0 |
| abstract_inverted_index.with | 2 |
| abstract_inverted_index.parts | 4 |
| abstract_inverted_index.pipeline | 1 |
| cited_by_percentile_year.max | 94 |
| cited_by_percentile_year.min | 90 |
| countries_distinct_count | 1 |
| institutions_distinct_count | 6 |
| citation_normalized_percentile.value | 0.63644629 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | False |