Pathway analysis through mutual information Article Swipe
Gustavo S. Jeuken
,
Lukas Käll
·
YOU?
·
· 2024
· Open Access
·
· DOI: https://doi.org/10.1093/bioinformatics/btad776
YOU?
·
· 2024
· Open Access
·
· DOI: https://doi.org/10.1093/bioinformatics/btad776
Motivation In pathway analysis, we aim to establish a connection between the activity of a particular biological pathway and a difference in phenotype. There are many available methods to perform pathway analysis, many of them rely on an upstream differential expression analysis, and many model the relations between the abundances of the analytes in a pathway as linear relationships. Results Here, we propose a new method for pathway analysis, MIPath, that relies on information theoretical principles and, therefore, does not model the association between pathway activity and phenotype, resulting in relatively few assumptions. For this, we construct a graph of the data points for each pathway using a nearest-neighbor approach and score the association between the structure of this graph and the phenotype of these same samples using Mutual Information while adjusting for the effects of random chance in each score. The initial nearest neighbor approach evades individual gene-level comparisons, hence making the method scalable and less vulnerable to missing values. These properties make our method particularly useful for single-cell data. We benchmarked our method on several single-cell datasets, comparing it to established and new methods, and found that it produces robust, reproducible, and meaningful scores. Availability and implementation Source code is available at https://github.com/statisticalbiotechnology/mipath, or through Python Package Index as “mipathway.”
Related Topics
Concepts
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1093/bioinformatics/btad776
- https://academic.oup.com/bioinformatics/article-pdf/40/1/btad776/55476384/btad776.pdf
- OA Status
- gold
- Cited By
- 4
- References
- 72
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4390795614
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
-
https://openalex.org/W4390795614Canonical identifier for this work in OpenAlex
- DOI
-
https://doi.org/10.1093/bioinformatics/btad776Digital Object Identifier
- Title
-
Pathway analysis through mutual informationWork title
- Type
-
articleOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2024Year of publication
- Publication date
-
2024-01-01Full publication date if available
- Authors
-
Gustavo S. Jeuken, Lukas KällList of authors in order
- Landing page
-
https://doi.org/10.1093/bioinformatics/btad776Publisher landing page
- PDF URL
-
https://academic.oup.com/bioinformatics/article-pdf/40/1/btad776/55476384/btad776.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://academic.oup.com/bioinformatics/article-pdf/40/1/btad776/55476384/btad776.pdfDirect OA link when available
- Concepts
-
Computer science, Python (programming language), Source code, Data mining, Graph, Mutual information, R package, Scalability, Theoretical computer science, Artificial intelligence, Computational science, Operating system, DatabaseTop concepts (fields/topics) attached by OpenAlex
- Cited by
-
4Total citation count in OpenAlex
- Citations by year (recent)
-
2025: 2, 2024: 2Per-year citation counts (last 5 years)
- References (count)
-
72Number of works referenced by this work
- Related works (count)
-
10Other works algorithmically related by OpenAlex
Full payload
| id | https://openalex.org/W4390795614 |
|---|---|
| doi | https://doi.org/10.1093/bioinformatics/btad776 |
| ids.doi | https://doi.org/10.1093/bioinformatics/btad776 |
| ids.pmid | https://pubmed.ncbi.nlm.nih.gov/38195928 |
| ids.openalex | https://openalex.org/W4390795614 |
| fwci | 1.9209889 |
| mesh[0].qualifier_ui | |
| mesh[0].descriptor_ui | D012984 |
| mesh[0].is_major_topic | True |
| mesh[0].qualifier_name | |
| mesh[0].descriptor_name | Software |
| mesh[1].qualifier_ui | |
| mesh[1].descriptor_ui | D010641 |
| mesh[1].is_major_topic | False |
| mesh[1].qualifier_name | |
| mesh[1].descriptor_name | Phenotype |
| mesh[2].qualifier_ui | |
| mesh[2].descriptor_ui | D016000 |
| mesh[2].is_major_topic | False |
| mesh[2].qualifier_name | |
| mesh[2].descriptor_name | Cluster Analysis |
| mesh[3].qualifier_ui | |
| mesh[3].descriptor_ui | D012984 |
| mesh[3].is_major_topic | True |
| mesh[3].qualifier_name | |
| mesh[3].descriptor_name | Software |
| mesh[4].qualifier_ui | |
| mesh[4].descriptor_ui | D010641 |
| mesh[4].is_major_topic | False |
| mesh[4].qualifier_name | |
| mesh[4].descriptor_name | Phenotype |
| mesh[5].qualifier_ui | |
| mesh[5].descriptor_ui | D016000 |
| mesh[5].is_major_topic | False |
| mesh[5].qualifier_name | |
| mesh[5].descriptor_name | Cluster Analysis |
| mesh[6].qualifier_ui | |
| mesh[6].descriptor_ui | D012984 |
| mesh[6].is_major_topic | True |
| mesh[6].qualifier_name | |
| mesh[6].descriptor_name | Software |
| mesh[7].qualifier_ui | |
| mesh[7].descriptor_ui | D010641 |
| mesh[7].is_major_topic | False |
| mesh[7].qualifier_name | |
| mesh[7].descriptor_name | Phenotype |
| mesh[8].qualifier_ui | |
| mesh[8].descriptor_ui | D016000 |
| mesh[8].is_major_topic | False |
| mesh[8].qualifier_name | |
| mesh[8].descriptor_name | Cluster Analysis |
| type | article |
| title | Pathway analysis through mutual information |
| biblio.issue | 1 |
| biblio.volume | 40 |
| biblio.last_page | |
| biblio.first_page | |
| topics[0].id | https://openalex.org/T10887 |
| topics[0].field.id | https://openalex.org/fields/13 |
| topics[0].field.display_name | Biochemistry, Genetics and Molecular Biology |
| topics[0].score | 0.9997000098228455 |
| topics[0].domain.id | https://openalex.org/domains/1 |
| topics[0].domain.display_name | Life Sciences |
| topics[0].subfield.id | https://openalex.org/subfields/1312 |
| topics[0].subfield.display_name | Molecular Biology |
| topics[0].display_name | Bioinformatics and Genomic Networks |
| topics[1].id | https://openalex.org/T11289 |
| topics[1].field.id | https://openalex.org/fields/13 |
| topics[1].field.display_name | Biochemistry, Genetics and Molecular Biology |
| topics[1].score | 0.9991000294685364 |
| topics[1].domain.id | https://openalex.org/domains/1 |
| topics[1].domain.display_name | Life Sciences |
| topics[1].subfield.id | https://openalex.org/subfields/1312 |
| topics[1].subfield.display_name | Molecular Biology |
| topics[1].display_name | Single-cell and spatial transcriptomics |
| topics[2].id | https://openalex.org/T10621 |
| topics[2].field.id | https://openalex.org/fields/13 |
| topics[2].field.display_name | Biochemistry, Genetics and Molecular Biology |
| topics[2].score | 0.9965999722480774 |
| topics[2].domain.id | https://openalex.org/domains/1 |
| topics[2].domain.display_name | Life Sciences |
| topics[2].subfield.id | https://openalex.org/subfields/1312 |
| topics[2].subfield.display_name | Molecular Biology |
| topics[2].display_name | Gene Regulatory Network Analysis |
| is_xpac | False |
| apc_list.value | 3618 |
| apc_list.currency | USD |
| apc_list.value_usd | 3618 |
| apc_paid.value | 3618 |
| apc_paid.currency | USD |
| apc_paid.value_usd | 3618 |
| concepts[0].id | https://openalex.org/C41008148 |
| concepts[0].level | 0 |
| concepts[0].score | 0.7225979566574097 |
| concepts[0].wikidata | https://www.wikidata.org/wiki/Q21198 |
| concepts[0].display_name | Computer science |
| concepts[1].id | https://openalex.org/C519991488 |
| concepts[1].level | 2 |
| concepts[1].score | 0.6391168832778931 |
| concepts[1].wikidata | https://www.wikidata.org/wiki/Q28865 |
| concepts[1].display_name | Python (programming language) |
| concepts[2].id | https://openalex.org/C43126263 |
| concepts[2].level | 2 |
| concepts[2].score | 0.6222882866859436 |
| concepts[2].wikidata | https://www.wikidata.org/wiki/Q128751 |
| concepts[2].display_name | Source code |
| concepts[3].id | https://openalex.org/C124101348 |
| concepts[3].level | 1 |
| concepts[3].score | 0.5343339443206787 |
| concepts[3].wikidata | https://www.wikidata.org/wiki/Q172491 |
| concepts[3].display_name | Data mining |
| concepts[4].id | https://openalex.org/C132525143 |
| concepts[4].level | 2 |
| concepts[4].score | 0.4606611132621765 |
| concepts[4].wikidata | https://www.wikidata.org/wiki/Q141488 |
| concepts[4].display_name | Graph |
| concepts[5].id | https://openalex.org/C152139883 |
| concepts[5].level | 2 |
| concepts[5].score | 0.42914992570877075 |
| concepts[5].wikidata | https://www.wikidata.org/wiki/Q252973 |
| concepts[5].display_name | Mutual information |
| concepts[6].id | https://openalex.org/C2984074130 |
| concepts[6].level | 2 |
| concepts[6].score | 0.41544902324676514 |
| concepts[6].wikidata | https://www.wikidata.org/wiki/Q73539779 |
| concepts[6].display_name | R package |
| concepts[7].id | https://openalex.org/C48044578 |
| concepts[7].level | 2 |
| concepts[7].score | 0.4103330373764038 |
| concepts[7].wikidata | https://www.wikidata.org/wiki/Q727490 |
| concepts[7].display_name | Scalability |
| concepts[8].id | https://openalex.org/C80444323 |
| concepts[8].level | 1 |
| concepts[8].score | 0.26951462030410767 |
| concepts[8].wikidata | https://www.wikidata.org/wiki/Q2878974 |
| concepts[8].display_name | Theoretical computer science |
| concepts[9].id | https://openalex.org/C154945302 |
| concepts[9].level | 1 |
| concepts[9].score | 0.26111191511154175 |
| concepts[9].wikidata | https://www.wikidata.org/wiki/Q11660 |
| concepts[9].display_name | Artificial intelligence |
| concepts[10].id | https://openalex.org/C459310 |
| concepts[10].level | 1 |
| concepts[10].score | 0.0 |
| concepts[10].wikidata | https://www.wikidata.org/wiki/Q117801 |
| concepts[10].display_name | Computational science |
| concepts[11].id | https://openalex.org/C111919701 |
| concepts[11].level | 1 |
| concepts[11].score | 0.0 |
| concepts[11].wikidata | https://www.wikidata.org/wiki/Q9135 |
| concepts[11].display_name | Operating system |
| concepts[12].id | https://openalex.org/C77088390 |
| concepts[12].level | 1 |
| concepts[12].score | 0.0 |
| concepts[12].wikidata | https://www.wikidata.org/wiki/Q8513 |
| concepts[12].display_name | Database |
| keywords[0].id | https://openalex.org/keywords/computer-science |
| keywords[0].score | 0.7225979566574097 |
| keywords[0].display_name | Computer science |
| keywords[1].id | https://openalex.org/keywords/python |
| keywords[1].score | 0.6391168832778931 |
| keywords[1].display_name | Python (programming language) |
| keywords[2].id | https://openalex.org/keywords/source-code |
| keywords[2].score | 0.6222882866859436 |
| keywords[2].display_name | Source code |
| keywords[3].id | https://openalex.org/keywords/data-mining |
| keywords[3].score | 0.5343339443206787 |
| keywords[3].display_name | Data mining |
| keywords[4].id | https://openalex.org/keywords/graph |
| keywords[4].score | 0.4606611132621765 |
| keywords[4].display_name | Graph |
| keywords[5].id | https://openalex.org/keywords/mutual-information |
| keywords[5].score | 0.42914992570877075 |
| keywords[5].display_name | Mutual information |
| keywords[6].id | https://openalex.org/keywords/r-package |
| keywords[6].score | 0.41544902324676514 |
| keywords[6].display_name | R package |
| keywords[7].id | https://openalex.org/keywords/scalability |
| keywords[7].score | 0.4103330373764038 |
| keywords[7].display_name | Scalability |
| keywords[8].id | https://openalex.org/keywords/theoretical-computer-science |
| keywords[8].score | 0.26951462030410767 |
| keywords[8].display_name | Theoretical computer science |
| keywords[9].id | https://openalex.org/keywords/artificial-intelligence |
| keywords[9].score | 0.26111191511154175 |
| keywords[9].display_name | Artificial intelligence |
| language | en |
| locations[0].id | doi:10.1093/bioinformatics/btad776 |
| locations[0].is_oa | True |
| locations[0].source.id | https://openalex.org/S52395412 |
| locations[0].source.issn | 1367-4803, 1367-4811 |
| locations[0].source.type | journal |
| locations[0].source.is_oa | True |
| locations[0].source.issn_l | 1367-4803 |
| locations[0].source.is_core | True |
| locations[0].source.is_in_doaj | True |
| locations[0].source.display_name | Bioinformatics |
| locations[0].source.host_organization | https://openalex.org/P4310311648 |
| locations[0].source.host_organization_name | Oxford University Press |
| locations[0].source.host_organization_lineage | https://openalex.org/P4310311648, https://openalex.org/P4310311647 |
| locations[0].source.host_organization_lineage_names | Oxford University Press, University of Oxford |
| locations[0].license | cc-by |
| locations[0].pdf_url | https://academic.oup.com/bioinformatics/article-pdf/40/1/btad776/55476384/btad776.pdf |
| locations[0].version | publishedVersion |
| locations[0].raw_type | journal-article |
| locations[0].license_id | https://openalex.org/licenses/cc-by |
| locations[0].is_accepted | True |
| locations[0].is_published | True |
| locations[0].raw_source_name | Bioinformatics |
| locations[0].landing_page_url | https://doi.org/10.1093/bioinformatics/btad776 |
| locations[1].id | pmid:38195928 |
| locations[1].is_oa | False |
| locations[1].source.id | https://openalex.org/S4306525036 |
| locations[1].source.issn | |
| locations[1].source.type | repository |
| locations[1].source.is_oa | False |
| locations[1].source.issn_l | |
| locations[1].source.is_core | False |
| locations[1].source.is_in_doaj | False |
| locations[1].source.display_name | PubMed |
| locations[1].source.host_organization | https://openalex.org/I1299303238 |
| locations[1].source.host_organization_name | National Institutes of Health |
| locations[1].source.host_organization_lineage | https://openalex.org/I1299303238 |
| locations[1].license | |
| locations[1].pdf_url | |
| locations[1].version | publishedVersion |
| locations[1].raw_type | |
| locations[1].license_id | |
| locations[1].is_accepted | True |
| locations[1].is_published | True |
| locations[1].raw_source_name | Bioinformatics (Oxford, England) |
| locations[1].landing_page_url | https://pubmed.ncbi.nlm.nih.gov/38195928 |
| locations[2].id | pmh:oai:pubmedcentral.nih.gov:10783954 |
| locations[2].is_oa | True |
| locations[2].source.id | https://openalex.org/S2764455111 |
| locations[2].source.issn | |
| locations[2].source.type | repository |
| locations[2].source.is_oa | False |
| locations[2].source.issn_l | |
| locations[2].source.is_core | False |
| locations[2].source.is_in_doaj | False |
| locations[2].source.display_name | PubMed Central |
| locations[2].source.host_organization | https://openalex.org/I1299303238 |
| locations[2].source.host_organization_name | National Institutes of Health |
| locations[2].source.host_organization_lineage | https://openalex.org/I1299303238 |
| locations[2].license | cc-by |
| locations[2].pdf_url | https://pmc.ncbi.nlm.nih.gov/articles/PMC10783954/pdf/btad776.pdf |
| locations[2].version | submittedVersion |
| locations[2].raw_type | Text |
| locations[2].license_id | https://openalex.org/licenses/cc-by |
| locations[2].is_accepted | False |
| locations[2].is_published | False |
| locations[2].raw_source_name | Bioinformatics |
| locations[2].landing_page_url | https://www.ncbi.nlm.nih.gov/pmc/articles/10783954 |
| locations[3].id | pmh:oai:research.vu.nl:openaire_cris_publications/71035838-b55b-4bc6-9a5c-9166e1a2f93d |
| locations[3].is_oa | True |
| locations[3].source.id | https://openalex.org/S4306401107 |
| locations[3].source.issn | |
| locations[3].source.type | repository |
| locations[3].source.is_oa | False |
| locations[3].source.issn_l | |
| locations[3].source.is_core | False |
| locations[3].source.is_in_doaj | False |
| locations[3].source.display_name | VU Research Portal |
| locations[3].source.host_organization | https://openalex.org/I865915315 |
| locations[3].source.host_organization_name | Vrije Universiteit Amsterdam |
| locations[3].source.host_organization_lineage | https://openalex.org/I865915315 |
| locations[3].license | other-oa |
| locations[3].pdf_url | |
| locations[3].version | submittedVersion |
| locations[3].raw_type | article |
| locations[3].license_id | https://openalex.org/licenses/other-oa |
| locations[3].is_accepted | False |
| locations[3].is_published | False |
| locations[3].raw_source_name | Jeuken, G S & Käll, L 2024, 'Pathway analysis through mutual information', Bioinformatics, vol. 40, no. 1, btad776, pp. 1-10. https://doi.org/10.1093/bioinformatics/btad776 |
| locations[3].landing_page_url | https://research.vu.nl/en/publications/71035838-b55b-4bc6-9a5c-9166e1a2f93d |
| locations[4].id | pmh:oai:research.vu.nl:publications/71035838-b55b-4bc6-9a5c-9166e1a2f93d |
| locations[4].is_oa | True |
| locations[4].source.id | https://openalex.org/S4306401107 |
| locations[4].source.issn | |
| locations[4].source.type | repository |
| locations[4].source.is_oa | False |
| locations[4].source.issn_l | |
| locations[4].source.is_core | False |
| locations[4].source.is_in_doaj | False |
| locations[4].source.display_name | VU Research Portal |
| locations[4].source.host_organization | https://openalex.org/I865915315 |
| locations[4].source.host_organization_name | Vrije Universiteit Amsterdam |
| locations[4].source.host_organization_lineage | https://openalex.org/I865915315 |
| locations[4].license | other-oa |
| locations[4].pdf_url | |
| locations[4].version | submittedVersion |
| locations[4].raw_type | article |
| locations[4].license_id | https://openalex.org/licenses/other-oa |
| locations[4].is_accepted | False |
| locations[4].is_published | False |
| locations[4].raw_source_name | Jeuken, G S & Käll, L 2024, 'Pathway analysis through mutual information', Bioinformatics, vol. 40, no. 1, btad776, pp. 1-10. https://doi.org/10.1093/bioinformatics/btad776 |
| locations[4].landing_page_url | http://www.scopus.com/inward/record.url?scp=85182501807&partnerID=8YFLogxK |
| indexed_in | crossref, doaj, pubmed |
| authorships[0].author.id | https://openalex.org/A5047792467 |
| authorships[0].author.orcid | https://orcid.org/0000-0002-4438-2325 |
| authorships[0].author.display_name | Gustavo S. Jeuken |
| authorships[0].countries | NL |
| authorships[0].affiliations[0].institution_ids | https://openalex.org/I865915315 |
| authorships[0].affiliations[0].raw_affiliation_string | Computer Science Department, Vrije Universiteit Amsterdam , Amsterdam 1081 HV, The Netherlands |
| authorships[0].affiliations[1].institution_ids | https://openalex.org/I865915315 |
| authorships[0].affiliations[1].raw_affiliation_string | Computer Science Department, Vrije Universiteit Amsterdam, Amsterdam 1081 HV, The Netherlands |
| authorships[0].institutions[0].id | https://openalex.org/I865915315 |
| authorships[0].institutions[0].ror | https://ror.org/008xxew50 |
| authorships[0].institutions[0].type | education |
| authorships[0].institutions[0].lineage | https://openalex.org/I865915315 |
| authorships[0].institutions[0].country_code | NL |
| authorships[0].institutions[0].display_name | Vrije Universiteit Amsterdam |
| authorships[0].author_position | first |
| authorships[0].raw_author_name | Gustavo S Jeuken |
| authorships[0].is_corresponding | False |
| authorships[0].raw_affiliation_strings | Computer Science Department, Vrije Universiteit Amsterdam , Amsterdam 1081 HV, The Netherlands, Computer Science Department, Vrije Universiteit Amsterdam, Amsterdam 1081 HV, The Netherlands |
| authorships[1].author.id | https://openalex.org/A5036241287 |
| authorships[1].author.orcid | https://orcid.org/0000-0001-5689-9797 |
| authorships[1].author.display_name | Lukas Käll |
| authorships[1].countries | SE |
| authorships[1].affiliations[0].institution_ids | https://openalex.org/I2800139495, https://openalex.org/I86987016 |
| authorships[1].affiliations[0].raw_affiliation_string | Science for Life Laboratory, KTH – Royal Institute of Technology , Stockholm 171 65, Sweden |
| authorships[1].institutions[0].id | https://openalex.org/I86987016 |
| authorships[1].institutions[0].ror | https://ror.org/026vcq606 |
| authorships[1].institutions[0].type | education |
| authorships[1].institutions[0].lineage | https://openalex.org/I86987016 |
| authorships[1].institutions[0].country_code | SE |
| authorships[1].institutions[0].display_name | KTH Royal Institute of Technology |
| authorships[1].institutions[1].id | https://openalex.org/I2800139495 |
| authorships[1].institutions[1].ror | https://ror.org/04ev03g22 |
| authorships[1].institutions[1].type | facility |
| authorships[1].institutions[1].lineage | https://openalex.org/I2800139495 |
| authorships[1].institutions[1].country_code | SE |
| authorships[1].institutions[1].display_name | Science for Life Laboratory |
| authorships[1].author_position | last |
| authorships[1].raw_author_name | Lukas Käll |
| authorships[1].is_corresponding | False |
| authorships[1].raw_affiliation_strings | Science for Life Laboratory, KTH – Royal Institute of Technology , Stockholm 171 65, Sweden |
| has_content.pdf | True |
| has_content.grobid_xml | True |
| is_paratext | False |
| open_access.is_oa | True |
| open_access.oa_url | https://academic.oup.com/bioinformatics/article-pdf/40/1/btad776/55476384/btad776.pdf |
| open_access.oa_status | gold |
| open_access.any_repository_has_fulltext | False |
| created_date | 2025-10-10T00:00:00 |
| display_name | Pathway analysis through mutual information |
| has_fulltext | True |
| is_retracted | False |
| updated_date | 2025-11-23T05:10:03.516525 |
| primary_topic.id | https://openalex.org/T10887 |
| primary_topic.field.id | https://openalex.org/fields/13 |
| primary_topic.field.display_name | Biochemistry, Genetics and Molecular Biology |
| primary_topic.score | 0.9997000098228455 |
| primary_topic.domain.id | https://openalex.org/domains/1 |
| primary_topic.domain.display_name | Life Sciences |
| primary_topic.subfield.id | https://openalex.org/subfields/1312 |
| primary_topic.subfield.display_name | Molecular Biology |
| primary_topic.display_name | Bioinformatics and Genomic Networks |
| related_works | https://openalex.org/W2341492732, https://openalex.org/W3187193180, https://openalex.org/W106542691, https://openalex.org/W1699080303, https://openalex.org/W4297799326, https://openalex.org/W3116064965, https://openalex.org/W4287027380, https://openalex.org/W3193760048, https://openalex.org/W4285822516, https://openalex.org/W2789551765 |
| cited_by_count | 4 |
| counts_by_year[0].year | 2025 |
| counts_by_year[0].cited_by_count | 2 |
| counts_by_year[1].year | 2024 |
| counts_by_year[1].cited_by_count | 2 |
| locations_count | 5 |
| best_oa_location.id | doi:10.1093/bioinformatics/btad776 |
| best_oa_location.is_oa | True |
| best_oa_location.source.id | https://openalex.org/S52395412 |
| best_oa_location.source.issn | 1367-4803, 1367-4811 |
| best_oa_location.source.type | journal |
| best_oa_location.source.is_oa | True |
| best_oa_location.source.issn_l | 1367-4803 |
| best_oa_location.source.is_core | True |
| best_oa_location.source.is_in_doaj | True |
| best_oa_location.source.display_name | Bioinformatics |
| best_oa_location.source.host_organization | https://openalex.org/P4310311648 |
| best_oa_location.source.host_organization_name | Oxford University Press |
| best_oa_location.source.host_organization_lineage | https://openalex.org/P4310311648, https://openalex.org/P4310311647 |
| best_oa_location.source.host_organization_lineage_names | Oxford University Press, University of Oxford |
| best_oa_location.license | cc-by |
| best_oa_location.pdf_url | https://academic.oup.com/bioinformatics/article-pdf/40/1/btad776/55476384/btad776.pdf |
| best_oa_location.version | publishedVersion |
| best_oa_location.raw_type | journal-article |
| best_oa_location.license_id | https://openalex.org/licenses/cc-by |
| best_oa_location.is_accepted | True |
| best_oa_location.is_published | True |
| best_oa_location.raw_source_name | Bioinformatics |
| best_oa_location.landing_page_url | https://doi.org/10.1093/bioinformatics/btad776 |
| primary_location.id | doi:10.1093/bioinformatics/btad776 |
| primary_location.is_oa | True |
| primary_location.source.id | https://openalex.org/S52395412 |
| primary_location.source.issn | 1367-4803, 1367-4811 |
| primary_location.source.type | journal |
| primary_location.source.is_oa | True |
| primary_location.source.issn_l | 1367-4803 |
| primary_location.source.is_core | True |
| primary_location.source.is_in_doaj | True |
| primary_location.source.display_name | Bioinformatics |
| primary_location.source.host_organization | https://openalex.org/P4310311648 |
| primary_location.source.host_organization_name | Oxford University Press |
| primary_location.source.host_organization_lineage | https://openalex.org/P4310311648, https://openalex.org/P4310311647 |
| primary_location.source.host_organization_lineage_names | Oxford University Press, University of Oxford |
| primary_location.license | cc-by |
| primary_location.pdf_url | https://academic.oup.com/bioinformatics/article-pdf/40/1/btad776/55476384/btad776.pdf |
| primary_location.version | publishedVersion |
| primary_location.raw_type | journal-article |
| primary_location.license_id | https://openalex.org/licenses/cc-by |
| primary_location.is_accepted | True |
| primary_location.is_published | True |
| primary_location.raw_source_name | Bioinformatics |
| primary_location.landing_page_url | https://doi.org/10.1093/bioinformatics/btad776 |
| publication_date | 2024-01-01 |
| publication_year | 2024 |
| referenced_works | https://openalex.org/W3037615636, https://openalex.org/W2134718821, https://openalex.org/W2466217929, https://openalex.org/W2123879591, https://openalex.org/W4309679718, https://openalex.org/W2131681506, https://openalex.org/W2794480084, https://openalex.org/W3032915113, https://openalex.org/W2005895632, https://openalex.org/W2792456476, https://openalex.org/W2122683221, https://openalex.org/W2011417152, https://openalex.org/W2015709471, https://openalex.org/W2107796016, https://openalex.org/W2884417934, https://openalex.org/W2921398065, https://openalex.org/W2900032527, https://openalex.org/W3211402536, https://openalex.org/W2614253029, https://openalex.org/W2134736660, https://openalex.org/W3007199577, https://openalex.org/W3080162757, https://openalex.org/W2793555725, https://openalex.org/W2899609697, https://openalex.org/W4226066106, https://openalex.org/W4294216483, https://openalex.org/W1967327758, https://openalex.org/W1995996823, https://openalex.org/W2902663240, https://openalex.org/W2551194178, https://openalex.org/W3041278562, https://openalex.org/W2063251739, https://openalex.org/W1631320694, https://openalex.org/W3090295751, https://openalex.org/W2179438025, https://openalex.org/W3013406975, https://openalex.org/W2084369408, https://openalex.org/W2775205191, https://openalex.org/W6768947953, https://openalex.org/W6769775530, https://openalex.org/W3114485724, https://openalex.org/W2080767047, https://openalex.org/W6691749348, https://openalex.org/W2067149877, https://openalex.org/W2742754423, https://openalex.org/W3208716322, https://openalex.org/W2523369352, https://openalex.org/W3047168254, https://openalex.org/W2074414424, https://openalex.org/W1964895626, https://openalex.org/W3216513923, https://openalex.org/W2967653080, https://openalex.org/W2949177718, https://openalex.org/W2130410032, https://openalex.org/W2167119716, https://openalex.org/W2158384363, https://openalex.org/W1613874005, https://openalex.org/W2897249806, https://openalex.org/W6684050148, https://openalex.org/W2463988862, https://openalex.org/W3034168389, https://openalex.org/W3043099165, https://openalex.org/W3145969289, https://openalex.org/W2523419694, https://openalex.org/W2162833336, https://openalex.org/W2254387803, https://openalex.org/W1490787220, https://openalex.org/W2979832776, https://openalex.org/W2159482845, https://openalex.org/W3106188259, https://openalex.org/W2982521190, https://openalex.org/W3099768174 |
| referenced_works_count | 72 |
| abstract_inverted_index.a | 9, 15, 20, 55, 64, 98, 108 |
| abstract_inverted_index.In | 2 |
| abstract_inverted_index.We | 172 |
| abstract_inverted_index.an | 38 |
| abstract_inverted_index.as | 57, 211 |
| abstract_inverted_index.at | 204 |
| abstract_inverted_index.in | 22, 54, 90, 139 |
| abstract_inverted_index.is | 202 |
| abstract_inverted_index.it | 181, 190 |
| abstract_inverted_index.of | 14, 34, 51, 100, 118, 124, 136 |
| abstract_inverted_index.on | 37, 73, 176 |
| abstract_inverted_index.or | 206 |
| abstract_inverted_index.to | 7, 29, 159, 182 |
| abstract_inverted_index.we | 5, 62, 96 |
| abstract_inverted_index.For | 94 |
| abstract_inverted_index.The | 142 |
| abstract_inverted_index.aim | 6 |
| abstract_inverted_index.and | 19, 43, 87, 111, 121, 156, 184, 187, 194, 198 |
| abstract_inverted_index.are | 25 |
| abstract_inverted_index.few | 92 |
| abstract_inverted_index.for | 67, 104, 133, 169 |
| abstract_inverted_index.new | 65, 185 |
| abstract_inverted_index.not | 80 |
| abstract_inverted_index.our | 165, 174 |
| abstract_inverted_index.the | 12, 46, 49, 52, 82, 101, 113, 116, 122, 134, 153 |
| abstract_inverted_index.and, | 77 |
| abstract_inverted_index.code | 201 |
| abstract_inverted_index.data | 102 |
| abstract_inverted_index.does | 79 |
| abstract_inverted_index.each | 105, 140 |
| abstract_inverted_index.less | 157 |
| abstract_inverted_index.make | 164 |
| abstract_inverted_index.many | 26, 33, 44 |
| abstract_inverted_index.rely | 36 |
| abstract_inverted_index.same | 126 |
| abstract_inverted_index.that | 71, 189 |
| abstract_inverted_index.them | 35 |
| abstract_inverted_index.this | 119 |
| abstract_inverted_index.Here, | 61 |
| abstract_inverted_index.Index | 210 |
| abstract_inverted_index.There | 24 |
| abstract_inverted_index.These | 162 |
| abstract_inverted_index.data. | 171 |
| abstract_inverted_index.found | 188 |
| abstract_inverted_index.graph | 99, 120 |
| abstract_inverted_index.hence | 151 |
| abstract_inverted_index.model | 45, 81 |
| abstract_inverted_index.score | 112 |
| abstract_inverted_index.these | 125 |
| abstract_inverted_index.this, | 95 |
| abstract_inverted_index.using | 107, 128 |
| abstract_inverted_index.while | 131 |
| abstract_inverted_index.Mutual | 129 |
| abstract_inverted_index.Python | 208 |
| abstract_inverted_index.Source | 200 |
| abstract_inverted_index.chance | 138 |
| abstract_inverted_index.evades | 147 |
| abstract_inverted_index.linear | 58 |
| abstract_inverted_index.making | 152 |
| abstract_inverted_index.method | 66, 154, 166, 175 |
| abstract_inverted_index.points | 103 |
| abstract_inverted_index.random | 137 |
| abstract_inverted_index.relies | 72 |
| abstract_inverted_index.score. | 141 |
| abstract_inverted_index.useful | 168 |
| abstract_inverted_index.MIPath, | 70 |
| abstract_inverted_index.Package | 209 |
| abstract_inverted_index.Results | 60 |
| abstract_inverted_index.between | 11, 48, 84, 115 |
| abstract_inverted_index.effects | 135 |
| abstract_inverted_index.initial | 143 |
| abstract_inverted_index.methods | 28 |
| abstract_inverted_index.missing | 160 |
| abstract_inverted_index.nearest | 144 |
| abstract_inverted_index.pathway | 3, 18, 31, 56, 68, 85, 106 |
| abstract_inverted_index.perform | 30 |
| abstract_inverted_index.propose | 63 |
| abstract_inverted_index.robust, | 192 |
| abstract_inverted_index.samples | 127 |
| abstract_inverted_index.scores. | 196 |
| abstract_inverted_index.several | 177 |
| abstract_inverted_index.through | 207 |
| abstract_inverted_index.values. | 161 |
| abstract_inverted_index.Abstract | 0 |
| abstract_inverted_index.activity | 13, 86 |
| abstract_inverted_index.analytes | 53 |
| abstract_inverted_index.approach | 110, 146 |
| abstract_inverted_index.methods, | 186 |
| abstract_inverted_index.neighbor | 145 |
| abstract_inverted_index.produces | 191 |
| abstract_inverted_index.scalable | 155 |
| abstract_inverted_index.upstream | 39 |
| abstract_inverted_index.adjusting | 132 |
| abstract_inverted_index.analysis, | 4, 32, 42, 69 |
| abstract_inverted_index.available | 27, 203 |
| abstract_inverted_index.comparing | 180 |
| abstract_inverted_index.construct | 97 |
| abstract_inverted_index.datasets, | 179 |
| abstract_inverted_index.establish | 8 |
| abstract_inverted_index.phenotype | 123 |
| abstract_inverted_index.relations | 47 |
| abstract_inverted_index.resulting | 89 |
| abstract_inverted_index.structure | 117 |
| abstract_inverted_index.Motivation | 1 |
| abstract_inverted_index.abundances | 50 |
| abstract_inverted_index.biological | 17 |
| abstract_inverted_index.connection | 10 |
| abstract_inverted_index.difference | 21 |
| abstract_inverted_index.expression | 41 |
| abstract_inverted_index.gene-level | 149 |
| abstract_inverted_index.individual | 148 |
| abstract_inverted_index.meaningful | 195 |
| abstract_inverted_index.particular | 16 |
| abstract_inverted_index.phenotype, | 88 |
| abstract_inverted_index.phenotype. | 23 |
| abstract_inverted_index.principles | 76 |
| abstract_inverted_index.properties | 163 |
| abstract_inverted_index.relatively | 91 |
| abstract_inverted_index.therefore, | 78 |
| abstract_inverted_index.vulnerable | 158 |
| abstract_inverted_index.Information | 130 |
| abstract_inverted_index.association | 83, 114 |
| abstract_inverted_index.benchmarked | 173 |
| abstract_inverted_index.established | 183 |
| abstract_inverted_index.information | 74 |
| abstract_inverted_index.single-cell | 170, 178 |
| abstract_inverted_index.theoretical | 75 |
| abstract_inverted_index.Availability | 197 |
| abstract_inverted_index.assumptions. | 93 |
| abstract_inverted_index.comparisons, | 150 |
| abstract_inverted_index.differential | 40 |
| abstract_inverted_index.particularly | 167 |
| abstract_inverted_index.reproducible, | 193 |
| abstract_inverted_index.implementation | 199 |
| abstract_inverted_index.relationships. | 59 |
| abstract_inverted_index.nearest-neighbor | 109 |
| abstract_inverted_index.“mipathway.” | 212 |
| abstract_inverted_index.https://github.com/statisticalbiotechnology/mipath, | 205 |
| cited_by_percentile_year.max | 97 |
| cited_by_percentile_year.min | 94 |
| countries_distinct_count | 2 |
| institutions_distinct_count | 2 |
| citation_normalized_percentile.value | 0.77612597 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | False |