{"entity": "researcher", "timestamp": "2026-09-23T15:14:19.870Z", "family": "Sikkema", "given": "Lisa", "initials": "L", "orcid": "0000-0001-9686-6295", "affiliations": ["Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/462d0024767146ebba699345e9deeb9e.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/462d0024767146ebba699345e9deeb9e"}}, "publications": [{"entity": "publication", "iuid": "1e656547b1714f97affea326cd463d44", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/1e656547b1714f97affea326cd463d44.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/1e656547b1714f97affea326cd463d44"}}, "title": "The discovAIR project: a roadmap towards the Human Lung Cell Atlas.", "authors": [{"family": "Luecken", "given": "Malte D", "initials": "MD"}, {"family": "Zaragosi", "given": "Laure-Emmanuelle", "initials": "LE", "orcid": "0000-0001-6747-7928", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5973b289a0a84dddb87b3457ef554ace.json"}}, {"family": "Madissoon", "given": "Elo", "initials": "E"}, {"family": "Sikkema", "given": "Lisa", "initials": "L", "orcid": "0000-0001-9686-6295", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/462d0024767146ebba699345e9deeb9e.json"}}, {"family": "Firsova", "given": "Alexandra B", "initials": "AB"}, {"family": "De Domenico", "given": "Elena", "initials": "E"}, {"family": "K\u00fcmmerle", "given": "Louis", "initials": "L"}, {"family": "Saglam", "given": "Adem", "initials": "A"}, {"family": "Berg", "given": "Marijn", "initials": "M"}, {"family": "Gay", "given": "Aurore C A", "initials": "ACA"}, {"family": "Schniering", "given": "Janine", "initials": "J", "orcid": "0000-0001-7869-4936", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/9633364034714be8bb01be7d3e587664.json"}}, {"family": "Mayr", "given": "Christoph H", "initials": "CH"}, {"family": "Abalo", "given": "Xes\u00fas M", "initials": "XM", "orcid": "0000-0002-1643-0705", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ccb96c37f02b45d290b89f5b615052df.json"}}, {"family": "Larsson", "given": "Ludvig", "initials": "L"}, {"family": "Sountoulidis", "given": "Alexandros", "initials": "A"}, {"family": "Teichmann", "given": "Sarah A", "initials": "SA"}, {"family": "van Eunen", "given": "Karen", "initials": "K"}, {"family": "Koppelman", "given": "Gerard H", "initials": "GH", "orcid": "0000-0001-8567-3252", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0e9a287e31a64ec1a4a3cfc3dab53c6c.json"}}, {"family": "Saeb-Parsy", "given": "Kourosh", "initials": "K"}, {"family": "Leroy", "given": "Sylvie", "initials": "S"}, {"family": "Powell", "given": "Pippa", "initials": "P"}, {"family": "Sarkans", "given": "Ugis", "initials": "U"}, {"family": "Timens", "given": "Wim", "initials": "W", "orcid": "0000-0002-4146-6363", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c55e709b313044e8809ca651b283e93b.json"}}, {"family": "Lundeberg", "given": "Joakim", "initials": "J"}, {"family": "van den Berge", "given": "Maarten", "initials": "M"}, {"family": "Nilsson", "given": "Mats", "initials": "M"}, {"family": "Horv\u00e1th", "given": "Peter", "initials": "P"}, {"family": "Denning", "given": "Jessica", "initials": "J"}, {"family": "Papatheodorou", "given": "Irene", "initials": "I"}, {"family": "Schultze", "given": "Joachim L", "initials": "JL"}, {"family": "Schiller", "given": "Herbert B", "initials": "HB"}, {"family": "Barbry", "given": "Pascal", "initials": "P", "orcid": "0000-0001-9632-6483", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1b90888809ec4532b824408fff59aab9.json"}}, {"family": "Petoukhov", "given": "Ilya", "initials": "I"}, {"family": "Misharin", "given": "Alexander V", "initials": "AV"}, {"family": "Adcock", "given": "Ian M", "initials": "IM", "orcid": "0000-0003-2101-8843", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0b61bb5380bf419c8e5ce461e36b7f7c.json"}}, {"family": "von Papen", "given": "Michael", "initials": "M"}, {"family": "Theis", "given": "Fabian J", "initials": "FJ"}, {"family": "Samakovlis", "given": "Christos", "initials": "C"}, {"family": "Meyer", "given": "Kerstin B", "initials": "KB"}, {"family": "Nawijn", "given": "Martijn C", "initials": "MC", "orcid": "0000-0003-3372-6521", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/7551a303e7294578aa0c99966ffec1a2.json"}}], "type": "journal article", "published": "2022-08-00", "journal": {"title": "Eur. Respir. J.", "issn": "1399-3003", "volume": "60", "issue": "2", "issn-l": "0903-1936"}, "abstract": "The Human Cell Atlas (HCA) consortium aims to establish an atlas of all organs in the healthy human body at single-cell resolution to increase our understanding of basic biological processes that govern development, physiology and anatomy, and to accelerate diagnosis and treatment of disease. The Lung Biological Network of the HCA aims to generate the Human Lung Cell Atlas as a reference for the cellular repertoire, molecular cell states and phenotypes, and cell-cell interactions that characterise normal lung homeostasis in healthy lung tissue. Such a reference atlas of the healthy human lung will facilitate mapping the changes in the cellular landscape in disease. The discovAIR project is one of six pilot actions for the HCA funded by the European Commission in the context of the H2020 framework programme. discovAIR aims to establish the first draft of an integrated Human Lung Cell Atlas, combining single-cell transcriptional and epigenetic profiling with spatially resolving techniques on matched tissue samples, as well as including a number of chronic and infectious diseases of the lung. The integrated Human Lung Cell Atlas will be available as a resource for the wider respiratory community, including basic and translational scientists, clinical medicine, and the private sector, as well as for patients with lung disease and the interested lay public. We anticipate that the Human Lung Cell Atlas will be the founding stone for a more detailed understanding of the pathogenesis of lung diseases, guiding the design of novel diagnostics and preventive or curative interventions.", "doi": "10.1183/13993003.02057-2021", "pmid": "35086829", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC9386332"}, {"db": "pii", "key": "13993003.02057-2021"}], "notes": [], "created": "2026-09-23T10:12:25.272Z", "modified": "2026-09-23T10:50:46.742Z"}, {"entity": "publication", "iuid": "62a9eb3d3e5f44599d66049c4227f50a", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/62a9eb3d3e5f44599d66049c4227f50a.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/62a9eb3d3e5f44599d66049c4227f50a"}}, "title": "Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics.", "authors": [{"family": "Muus", "given": "Christoph", "initials": "C", "orcid": "0000-0003-2779-0893", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/be8fbc93ed974a11b06a0e9837ec8c30.json"}}, {"family": "Luecken", "given": "Malte D", "initials": "MD", "orcid": "0000-0001-7464-7921", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/573854d96a9e4e21a3b96135c11c6efc.json"}}, {"family": "Eraslan", "given": "G\u00f6kcen", "initials": "G"}, {"family": "Sikkema", "given": "Lisa", "initials": "L", "orcid": "0000-0001-9686-6295", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/462d0024767146ebba699345e9deeb9e.json"}}, {"family": "Waghray", "given": "Avinash", "initials": "A"}, {"family": "Heimberg", "given": "Graham", "initials": "G"}, {"family": "Kobayashi", "given": "Yoshihiko", "initials": "Y"}, {"family": "Vaishnav", "given": "Eeshit Dhaval", "initials": "ED", "orcid": "0000-0003-3720-8051", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/94b333bc8cff4a5689fad676abf84be8.json"}}, {"family": "Subramanian", "given": "Ayshwarya", "initials": "A", "orcid": "0000-0002-4134-7612", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/dda9998955294a798208e67cac6baaea.json"}}, {"family": "Smillie", "given": "Christopher", "initials": "C"}, {"family": "Jagadeesh", "given": "Karthik A", "initials": "KA"}, {"family": "Duong", "given": "Elizabeth Thu", "initials": "ET", "orcid": "0000-0001-7122-4448", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/9d28730373f248979f8c376d6d2203c6.json"}}, {"family": "Fiskin", "given": "Evgenij", "initials": "E"}, {"family": "Torlai Triglia", "given": "Elena", "initials": "E", "orcid": "0000-0002-6059-0116", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/78e6c84e6c1744fa8d3d21244c875413.json"}}, {"family": "Ansari", "given": "Meshal", "initials": 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"Z"}, {"family": "Angelidis", "given": "Ilias", "initials": "I"}, {"family": "Ashenberg", "given": "Orr", "initials": "O"}, {"family": "Bassler", "given": "Kevin", "initials": "K"}, {"family": "B\u00e9cavin", "given": "Christophe", "initials": "C"}, {"family": "Benhar", "given": "Inbal", "initials": "I"}, {"family": "Bergenstr\u00e5hle", "given": "Joseph", "initials": "J"}, {"family": "Bergenstr\u00e5hle", "given": "Ludvig", "initials": "L"}, {"family": "Bolt", "given": "Liam", "initials": "L"}, {"family": "Braun", "given": "Emelie", "initials": "E"}, {"family": "Bui", "given": "Linh T", "initials": "LT"}, {"family": "Callori", "given": "Steven", "initials": "S"}, {"family": "Chaffin", "given": "Mark", "initials": "M"}, {"family": "Chichelnitskiy", "given": "Evgeny", "initials": "E"}, {"family": "Chiou", "given": "Joshua", "initials": "J"}, {"family": "Conlon", "given": "Thomas M", "initials": "TM"}, {"family": "Cuoco", "given": "Michael S", "initials": "MS"}, {"family": "Cuomo", "given": "Anna S E", "initials": "ASE"}, {"family": "Deprez", "given": "Marie", "initials": "M"}, {"family": "Duclos", "given": "Grant", "initials": "G"}, {"family": "Fine", "given": "Denise", "initials": "D"}, {"family": "Fischer", "given": "David S", "initials": "DS"}, {"family": "Ghazanfar", "given": "Shila", "initials": "S"}, {"family": "Gillich", "given": "Astrid", "initials": "A"}, {"family": "Giotti", "given": "Bruno", "initials": "B"}, {"family": "Gould", "given": "Joshua", "initials": "J"}, {"family": "Guo", "given": "Minzhe", "initials": "M"}, {"family": "Gutierrez", "given": "Austin J", "initials": "AJ"}, {"family": "Habermann", "given": "Arun C", "initials": "AC"}, {"family": "Harvey", "given": "Tyler", "initials": "T"}, {"family": "He", "given": "Peng", "initials": "P"}, {"family": "Hou", "given": "Xiaomeng", "initials": "X"}, {"family": "Hu", "given": "Lijuan", "initials": "L"}, {"family": "Hu", "given": "Yan", "initials": "Y"}, {"family": "Jaiswal", "given": "Alok", "initials": "A"}, {"family": "Ji", "given": "Lu", "initials": "L"}, {"family": "Jiang", "given": "Peiyong", "initials": "P"}, {"family": "Kapellos", "given": "Theodoros S", "initials": "TS"}, {"family": "Kuo", "given": "Christin S", "initials": "CS"}, {"family": "Larsson", "given": "Ludvig", "initials": "L"}, {"family": "Leney-Greene", "given": "Michael A", "initials": "MA"}, {"family": "Lim", "given": "Kyungtae", "initials": "K"}, {"family": "Litvi\u0148ukov\u00e1", "given": "Monika", "initials": "M"}, {"family": "Ludwig", "given": "Leif S", "initials": "LS"}, {"family": "Lukassen", "given": "Soeren", "initials": "S"}, {"family": "Luo", "given": "Wendy", "initials": "W"}, {"family": "Maatz", "given": "Henrike", "initials": "H"}, {"family": "Madissoon", "given": "Elo", "initials": "E"}, {"family": "Mamanova", "given": "Lira", "initials": "L"}, {"family": "Manakongtreecheep", "given": "Kasidet", "initials": "K"}, {"family": "Leroy", "given": "Sylvie", "initials": "S"}, {"family": "Mayr", "given": "Christoph H", "initials": "CH"}, {"family": "Mbano", "given": "Ian M", "initials": "IM"}, {"family": "McAdams", "given": "Alexi M", "initials": "AM"}, {"family": "Nabhan", "given": "Ahmad N", "initials": "AN"}, {"family": "Nyquist", "given": "Sarah K", "initials": "SK"}, {"family": "Penland", "given": "Lolita", "initials": "L"}, {"family": "Poirion", "given": "Olivier B", "initials": "OB"}, {"family": "Poli", "given": "Sergio", "initials": "S"}, {"family": "Qi", "given": "CanCan", "initials": "C"}, {"family": "Queen", "given": "Rachel", "initials": "R"}, {"family": "Reichart", "given": "Daniel", "initials": "D"}, {"family": "Rosas", "given": "Ivan", "initials": "I"}, {"family": "Schupp", "given": "Jonas C", "initials": "JC"}, {"family": "Shea", "given": "Conor V", "initials": "CV"}, {"family": "Shi", "given": "Xingyi", "initials": "X"}, {"family": "Sinha", "given": "Rahul", "initials": "R"}, {"family": "Sit", "given": "Rene V", "initials": "RV"}, {"family": "Slowikowski", "given": "Kamil", "initials": "K"}, {"family": "Slyper", "given": "Michal", "initials": "M"}, {"family": "Smith", "given": "Neal P", "initials": "NP"}, {"family": "Sountoulidis", "given": "Alex", "initials": "A"}, {"family": "Strunz", "given": "Maximilian", "initials": "M"}, {"family": "Sullivan", "given": "Travis B", "initials": "TB"}, {"family": "Sun", "given": "Dawei", "initials": "D"}, {"family": "Talavera-L\u00f3pez", "given": "Carlos", "initials": "C"}, {"family": "Tan", "given": "Peng", "initials": "P"}, {"family": "Tantivit", "given": "Jessica", "initials": "J"}, {"family": "Travaglini", "given": "Kyle J", "initials": "KJ"}, {"family": "Tucker", "given": "Nathan R", "initials": "NR"}, {"family": "Vernon", "given": "Katherine A", "initials": "KA"}, {"family": "Wadsworth", "given": "Marc H", "initials": "MH"}, {"family": "Waldman", "given": "Julia", "initials": "J"}, {"family": "Wang", "given": "Xiuting", "initials": "X"}, {"family": "Xu", "given": "Ke", "initials": "K"}, {"family": "Yan", "given": "Wenjun", "initials": "W"}, {"family": "Zhao", "given": "William", "initials": "W"}, {"family": "Ziegler", "given": "Carly G K", "initials": "CGK"}, {"family": "NHLBI LungMap Consortium", "given": "", "initials": ""}, {"family": "Human Cell Atlas Lung Biological Network", "given": "", "initials": ""}], "type": "journal article", "published": "2021-03-00", "journal": {"title": "Nat. Med.", "issn": "1546-170X", "volume": "27", "issue": "3", "pages": "546-559", "issn-l": "1078-8956"}, "abstract": "Angiotensin-converting enzyme 2 (ACE2) and accessory proteases (TMPRSS2 and CTSL) are needed for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) cellular entry, and their expression may shed light on viral tropism and impact across the body. We assessed the cell-type-specific expression of ACE2, TMPRSS2 and CTSL across 107 single-cell RNA-sequencing studies from different tissues. ACE2, TMPRSS2 and CTSL are coexpressed in specific subsets of respiratory epithelial cells in the nasal passages, airways and alveoli, and in cells from other organs associated with coronavirus disease 2019 (COVID-19) transmission or pathology. We performed a meta-analysis of 31 lung single-cell RNA-sequencing studies with 1,320,896 cells from 377 nasal, airway and lung parenchyma samples from 228 individuals. This revealed cell-type-specific associations of age, sex and smoking with expression levels of ACE2, TMPRSS2 and CTSL. Expression of entry factors increased with age and in males, including in airway secretory cells and alveolar type 2 cells. Expression programs shared by ACE2+TMPRSS2+ cells in nasal, lung and gut tissues included genes that may mediate viral entry, key immune functions and epithelial-macrophage cross-talk, such as genes involved in the interleukin-6, interleukin-1, tumor necrosis factor and complement pathways. Cell-type-specific expression patterns may contribute to the pathogenesis of COVID-19, and our work highlights putative molecular pathways for therapeutic intervention.", "doi": "10.1038/s41591-020-01227-z", "pmid": "33654293", "labels": [], "xrefs": [{"db": "mid", "key": "NIHMS1757283"}, {"db": "pmc", "key": "PMC9469728"}, {"db": "pii", "key": "10.1038/s41591-020-01227-z"}], "notes": [], "created": "2026-09-23T06:35:23.181Z", "modified": "2026-09-23T06:35:23.526Z"}]}