{"id":"https://openalex.org/W4409557383","doi":"https://doi.org/10.3389/fbinf.2025.1554010","title":"Primer on machine learning applications in brain immunology","display_name":"Primer on machine learning applications in brain immunology","publication_year":2025,"publication_date":"2025-04-17","ids":{"openalex":"https://openalex.org/W4409557383","doi":"https://doi.org/10.3389/fbinf.2025.1554010","pmid":"https://pubmed.ncbi.nlm.nih.gov/40313869"},"language":"en","primary_location":{"id":"doi:10.3389/fbinf.2025.1554010","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2025.1554010","pdf_url":"https://www.frontiersin.org/journals/bioinformatics/articles/10.3389/fbinf.2025.1554010/pdf","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"type":"review","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.frontiersin.org/journals/bioinformatics/articles/10.3389/fbinf.2025.1554010/pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5104196616","display_name":"Niklas Binder","orcid":null},"institutions":[{"id":"https://openalex.org/I161046081","display_name":"University of Freiburg","ror":"https://ror.org/0245cg223","country_code":"DE","type":"education","lineage":["https://openalex.org/I161046081"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Niklas Binder","raw_affiliation_strings":["Institute of Neuropathology, Faculty of Medicine, University of Freiburg, Freiburg, Germany"],"affiliations":[{"raw_affiliation_string":"Institute of Neuropathology, Faculty of Medicine, University of Freiburg, Freiburg, Germany","institution_ids":["https://openalex.org/I161046081"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055709282","display_name":"Ashkan Khavaran","orcid":"https://orcid.org/0000-0003-4630-1725"},"institutions":[{"id":"https://openalex.org/I161046081","display_name":"University of Freiburg","ror":"https://ror.org/0245cg223","country_code":"DE","type":"education","lineage":["https://openalex.org/I161046081"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Ashkan Khavaran","raw_affiliation_strings":["Institute of Neuropathology, Faculty of Medicine, University of Freiburg, Freiburg, Germany"],"affiliations":[{"raw_affiliation_string":"Institute of Neuropathology, Faculty of Medicine, University of Freiburg, Freiburg, Germany","institution_ids":["https://openalex.org/I161046081"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5010339380","display_name":"Roman Sankowski","orcid":"https://orcid.org/0000-0001-9215-8021"},"institutions":[{"id":"https://openalex.org/I161046081","display_name":"University of Freiburg","ror":"https://ror.org/0245cg223","country_code":"DE","type":"education","lineage":["https://openalex.org/I161046081"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Roman Sankowski","raw_affiliation_strings":["Institute of Neuropathology, Faculty of Medicine, University of Freiburg, Freiburg, Germany"],"affiliations":[{"raw_affiliation_string":"Institute of Neuropathology, Faculty of Medicine, University of Freiburg, Freiburg, Germany","institution_ids":["https://openalex.org/I161046081"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5104196616"],"corresponding_institution_ids":["https://openalex.org/I161046081"],"apc_list":{"value":1900,"currency":"USD","value_usd":1900},"apc_paid":{"value":1900,"currency":"USD","value_usd":1900},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.06693779,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"5","issue":null,"first_page":"1554010","last_page":"1554010"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9983000159263611,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9983000159263611,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9793000221252441,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T13410","display_name":"Immune responses and vaccinations","score":0.9735999703407288,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/primer","display_name":"Primer (cosmetics)","score":0.8388861417770386},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.4557783305644989},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4404883086681366},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.42562761902809143},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4090674817562103},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3419901728630066},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3244636356830597},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.3227264881134033},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.13760316371917725}],"concepts":[{"id":"https://openalex.org/C2777563447","wikidata":"https://www.wikidata.org/wiki/Q7243397","display_name":"Primer (cosmetics)","level":2,"score":0.8388861417770386},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.4557783305644989},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4404883086681366},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.42562761902809143},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4090674817562103},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3419901728630066},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3244636356830597},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.3227264881134033},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.13760316371917725},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.3389/fbinf.2025.1554010","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2025.1554010","pdf_url":"https://www.frontiersin.org/journals/bioinformatics/articles/10.3389/fbinf.2025.1554010/pdf","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40313869","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40313869","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:e07198108780470a8f2feda82f693093","is_oa":true,"landing_page_url":"https://doaj.org/article/e07198108780470a8f2feda82f693093","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Frontiers in Bioinformatics, Vol 5 (2025)","raw_type":"article"},{"id":"pmh:oai:freidok.uni-freiburg.de:265704","is_oa":false,"landing_page_url":"https://freidok.uni-freiburg.de/data/265704","pdf_url":null,"source":{"id":"https://openalex.org/S4306401057","display_name":"FreiDok plus (Universit\u00e4tsbibliothek Freiburg)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I161046081","host_organization_name":"University of Freiburg","host_organization_lineage":["https://openalex.org/I161046081"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Frontiers in bioinformatics. - 5 (2025) , 1554010, ISSN: 2673-7647","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:12043695","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12043695","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Front Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.3389/fbinf.2025.1554010","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2025.1554010","pdf_url":"https://www.frontiersin.org/journals/bioinformatics/articles/10.3389/fbinf.2025.1554010/pdf","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1801361728","display_name":null,"funder_award_id":"01EO2103","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"}],"funders":[{"id":"https://openalex.org/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"},{"id":"https://openalex.org/F4320321421","display_name":"Albert-Ludwigs-Universit\u00e4t Freiburg","ror":"https://ror.org/0245cg223"},{"id":"https://openalex.org/F4320321876","display_name":"Fritz Thyssen Stiftung","ror":"https://ror.org/00f3sc705"},{"id":"https://openalex.org/F4320337168","display_name":"Medizinische Fakult\u00e4t der Albert-Ludwigs-Universit\u00e4t Freiburg","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4409557383.pdf","grobid_xml":"https://content.openalex.org/works/W4409557383.grobid-xml"},"referenced_works_count":64,"referenced_works":["https://openalex.org/W1918237073","https://openalex.org/W2115599658","https://openalex.org/W2343956310","https://openalex.org/W2577452028","https://openalex.org/W2787171652","https://openalex.org/W2800392236","https://openalex.org/W2889326414","https://openalex.org/W2901677030","https://openalex.org/W2907783748","https://openalex.org/W2912390237","https://openalex.org/W2913221496","https://openalex.org/W2919115771","https://openalex.org/W2935703330","https://openalex.org/W2943220296","https://openalex.org/W2951934944","https://openalex.org/W2987759842","https://openalex.org/W2997280954","https://openalex.org/W3004544639","https://openalex.org/W3005127469","https://openalex.org/W3021272327","https://openalex.org/W3046622690","https://openalex.org/W3081278968","https://openalex.org/W3109243443","https://openalex.org/W3121168830","https://openalex.org/W3123653170","https://openalex.org/W3127341444","https://openalex.org/W3129866267","https://openalex.org/W3137406645","https://openalex.org/W3145635506","https://openalex.org/W3177828909","https://openalex.org/W3195577433","https://openalex.org/W3196650609","https://openalex.org/W3200707343","https://openalex.org/W4200409482","https://openalex.org/W4224218779","https://openalex.org/W4229814857","https://openalex.org/W4297243391","https://openalex.org/W4362661856","https://openalex.org/W4366526178","https://openalex.org/W4376602482","https://openalex.org/W4378838672","https://openalex.org/W4382632237","https://openalex.org/W4382877140","https://openalex.org/W4384389802","https://openalex.org/W4385955324","https://openalex.org/W4387568710","https://openalex.org/W4387696832","https://openalex.org/W4387866792","https://openalex.org/W4389132297","https://openalex.org/W4390032293","https://openalex.org/W4391884153","https://openalex.org/W4392168151","https://openalex.org/W4392960849","https://openalex.org/W4393992405","https://openalex.org/W4394930851","https://openalex.org/W4396829841","https://openalex.org/W4399379291","https://openalex.org/W4399387478","https://openalex.org/W4400594521","https://openalex.org/W4401441450","https://openalex.org/W4403174218","https://openalex.org/W4403243603","https://openalex.org/W4405433019","https://openalex.org/W4407272669"],"related_works":["https://openalex.org/W2375570161","https://openalex.org/W2371958667","https://openalex.org/W4401150813","https://openalex.org/W2333833013","https://openalex.org/W2360079597","https://openalex.org/W4223953284","https://openalex.org/W2362385854","https://openalex.org/W4256138880","https://openalex.org/W4224031257","https://openalex.org/W53875174"],"abstract_inverted_index":{"Single-cell":[0],"and":[1,18,36,54,75,97,111,126,148,159,165],"spatial":[2,19,166],"technologies":[3],"have":[4,28,68,139],"transformed":[5],"our":[6],"understanding":[7],"of":[8,163,194,198,204],"brain":[9,59,132,157],"immunology,":[10],"providing":[11],"unprecedented":[12],"insights":[13],"into":[14],"immune":[15,39,141],"cell":[16,34,73,142],"heterogeneity":[17],"organisation":[20],"within":[21,174],"the":[22,37,170,175,195,202],"central":[23],"nervous":[24],"system.":[25],"These":[26],"methods":[27,94],"uncovered":[29,149],"complex":[30,84],"cellular":[31,172],"interactions,":[32],"rare":[33],"populations,":[35],"dynamic":[38],"landscape":[40,197],"in":[41,49,71,201],"neurological":[42],"disorders.":[43],"This":[44,178],"review":[45],"highlights":[46],"recent":[47],"advances":[48],"single-cell":[50,66,137,164,199],"\"omics\"":[51],"data":[52,109],"analysis":[53],"discusses":[55],"their":[56],"applicability":[57],"for":[58,65,121,182],"immunology.":[60],"Traditional":[61],"statistical":[62],"techniques,":[63],"adapted":[64],"omics,":[67],"been":[69],"crucial":[70],"categorizing":[72],"types":[74],"identifying":[76],"gene":[77,123],"signatures,":[78],"overcoming":[79],"challenges":[80,104],"posed":[81],"by":[82,105],"increasingly":[83],"datasets.":[85],"We":[86],"explore":[87],"how":[88,136],"machine":[89],"learning,":[90],"particularly":[91],"deep":[92],"learning":[93],"like":[95],"autoencoders":[96],"graph":[98],"neural":[99],"networks,":[100],"is":[101,180],"addressing":[102],"these":[103],"enhancing":[106],"dimensionality":[107],"reduction,":[108],"integration,":[110],"feature":[112],"extraction.":[113],"Newly":[114],"developed":[115],"foundation":[116],"models":[117],"present":[118],"exciting":[119],"opportunities":[120],"uncovering":[122],"expression":[124],"programs":[125],"predicting":[127],"genetic":[128],"perturbations.":[129],"Focusing":[130],"on":[131],"development,":[133],"we":[134],"demonstrate":[135],"analyses":[138],"resolved":[140],"heterogeneity,":[143],"identified":[144],"temporal":[145],"maturation":[146],"trajectories,":[147],"potential":[150],"therapeutic":[151],"links":[152],"to":[153],"various":[154],"pathologies,":[155],"including":[156],"malignancies":[158],"neurodegeneration.":[160],"The":[161],"integration":[162],"omics":[167,200],"has":[168],"elucidated":[169],"intricate":[171],"interplay":[173],"developing":[176],"brain.":[177],"mini-review":[179],"intended":[181],"wet":[183],"lab":[184],"biologists":[185],"at":[186],"all":[187],"career":[188],"stages,":[189],"offering":[190],"a":[191],"concise":[192],"overview":[193],"evolving":[196],"age":[203],"widely":[205],"available":[206],"artificial":[207],"intelligence.":[208]},"counts_by_year":[],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
