{"entity": "researcher", "timestamp": "2026-07-14T04:18:08.540Z", "family": "Kharchenko", "given": "Peter V", "initials": "PV", "orcid": "0000-0002-6036-5875", "affiliations": ["Department of Biomedical Informatics, Harvard Medical School, Boston, MA, USA. peter_kharchenko@hms.harvard.edu.", "Harvard Stem Cell Institute, Cambridge, MA, USA. peter_kharchenko@hms.harvard.edu."], "links": {"self": {"href": "https://publications.scilifelab.se/researcher/a67002dec1264bf2865da0017405ee9b.json"}, "display": {"href": "https://publications.scilifelab.se/researcher/a67002dec1264bf2865da0017405ee9b"}}, "publications": [{"entity": "publication", "iuid": "d0afbf6a0f22480dacd378fbb39437db", "links": {"self": {"href": "https://publications.scilifelab.se/publication/d0afbf6a0f22480dacd378fbb39437db.json"}, "display": {"href": "https://publications.scilifelab.se/publication/d0afbf6a0f22480dacd378fbb39437db"}}, "title": "Single-nuclei transcriptomes from human adrenal gland reveal distinct cellular identities of low and high-risk neuroblastoma tumors.", "authors": [{"family": "Bedoya-Reina", "given": "O C", "initials": "OC"}, {"family": "Li", "given": "W", "initials": "W"}, {"family": "Arceo", "given": "M", "initials": "M"}, {"family": "Plescher", "given": "M", "initials": "M"}, {"family": "Bullova", "given": "P", "initials": "P", "orcid": "0000-0002-5411-2185", "researcher": {"href": "https://publications.scilifelab.se/researcher/2c9fa1a447d749f09e98b2d7b39ce499.json"}}, {"family": "Pui", "given": "H", "initials": "H"}, {"family": "Kaucka", "given": "M", "initials": "M"}, {"family": "Kharchenko", "given": "P", "initials": "P", "orcid": "0000-0002-6036-5875", "researcher": {"href": "https://publications.scilifelab.se/researcher/a67002dec1264bf2865da0017405ee9b.json"}}, {"family": "Martinsson", "given": "T", "initials": "T", "orcid": "0000-0002-9403-3123", "researcher": {"href": "https://publications.scilifelab.se/researcher/90deb3f5dd5446e5853da797411dfd5d.json"}}, {"family": "Holmberg", "given": "J", "initials": "J"}, {"family": "Adameyko", "given": "I", "initials": "I", "orcid": "0000-0001-5471-0356", "researcher": {"href": "https://publications.scilifelab.se/researcher/346f484a56cb4ad5b866b194ccd44e4f.json"}}, {"family": "Deng", "given": "Q", "initials": "Q", "orcid": "0000-0001-5934-7816", "researcher": {"href": "https://publications.scilifelab.se/researcher/b74efaba0fab49acb7164a45beca5cd9.json"}}, {"family": "Larsson", "given": "C", "initials": "C"}, {"family": "Juhlin", "given": "C C", "initials": "CC", "orcid": "0000-0002-5945-9081", "researcher": {"href": "https://publications.scilifelab.se/researcher/bb660e24421749d4acaaf6e9a90042f8.json"}}, {"family": "Kogner", "given": "P", "initials": "P", "orcid": "0000-0002-2202-9694", "researcher": {"href": "https://publications.scilifelab.se/researcher/e963274b921a4a2c8263f509334d4e22.json"}}, {"family": "Schlisio", "given": "S", "initials": "S", "orcid": "0000-0002-2605-3771", "researcher": {"href": "https://publications.scilifelab.se/researcher/fa8c1128e0d54cfe80758282ef94809b.json"}}], "type": "journal article", "published": "2021-09-07", "journal": {"title": "Nat Commun", "issn": "2041-1723", "issn-l": "2041-1723", "volume": "12", "issue": "1", "pages": "5309"}, "abstract": "Childhood neuroblastoma has a remarkable variability in outcome. Age at diagnosis is one of the most important prognostic factors, with children less than 1 year old having favorable outcomes. Here we study single-cell and single-nuclei transcriptomes of neuroblastoma with different clinical risk groups and stages, including healthy adrenal gland. We compare tumor cell populations with embryonic mouse sympatho-adrenal derivatives, and post-natal human adrenal gland. We provide evidence that low and high-risk neuroblastoma have different cell identities, representing two disease entities. Low-risk neuroblastoma presents a transcriptome that resembles sympatho- and chromaffin cells, whereas malignant cells enriched in high-risk neuroblastoma resembles a subtype of TRKB+ cholinergic progenitor population identified in human post-natal gland. Analyses of these populations reveal different gene expression programs for worst and better survival in correlation with age at diagnosis. Our findings reveal two cellular identities and a composition of human neuroblastoma tumors reflecting clinical heterogeneity and outcome.", "doi": "10.1038/s41467-021-24870-7", "pmid": "34493726", "labels": {"Eukaryotic Single Cell Genomics (ESCG)": "Service", "National Genomics Infrastructure": "Service", "NGI Stockholm (Genomics Production)": "Service", "NGI Stockholm (Genomics Applications)": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [{"db": "pii", "key": "10.1038/s41467-021-24870-7"}, {"db": "pmc", "key": "PMC8423786"}], "notes": [], "created": "2021-09-08T09:33:10.810Z", "modified": "2024-01-16T13:48:38.541Z"}, {"entity": "publication", "iuid": "e79e384f40e94c8494e0742190163c2f", "links": {"self": {"href": "https://publications.scilifelab.se/publication/e79e384f40e94c8494e0742190163c2f.json"}, "display": {"href": "https://publications.scilifelab.se/publication/e79e384f40e94c8494e0742190163c2f"}}, "title": "Single-cell transcriptomics of human embryos identifies multiple sympathoblast lineages with potential implications for neuroblastoma origin.", "authors": [{"family": "Kameneva", "given": "Polina", "initials": "P"}, {"family": "Artemov", "given": "Artem V", "initials": "AV"}, {"family": "Kastriti", "given": "Maria Eleni", "initials": "ME", "orcid": "0000-0002-0563-7399", "researcher": {"href": "https://publications.scilifelab.se/researcher/9e0722d8c5484a13bb37c3a3b084ff8c.json"}}, {"family": "Faure", "given": "Louis", "initials": "L", "orcid": "0000-0003-4621-586X", "researcher": {"href": "https://publications.scilifelab.se/researcher/bbf218e53c854d69a1b474a61480c33f.json"}}, {"family": "Olsen", "given": "Thale K", "initials": "TK"}, {"family": "Otte", "given": "J\u00f6rg", "initials": "J"}, {"family": "Erickson", "given": "Alek", "initials": "A"}, {"family": "Semsch", "given": "Bettina", "initials": "B"}, {"family": "Andersson", "given": "Emma R", "initials": "ER", "orcid": "0000-0002-8608-625X", "researcher": {"href": "https://publications.scilifelab.se/researcher/1c7313cdcd5f41d4a567a6c315aac3a1.json"}}, {"family": "Ratz", "given": "Michael", "initials": "M"}, {"family": "Fris\u00e9n", "given": "Jonas", "initials": "J"}, {"family": "Tischler", "given": "Arthur S", "initials": "AS"}, {"family": "de Krijger", "given": "Ronald R", "initials": "RR"}, {"family": "Bouderlique", "given": "Thibault", "initials": "T", "orcid": "0000-0002-3926-990X", "researcher": {"href": "https://publications.scilifelab.se/researcher/95261ae9454044129590906f1f686bc0.json"}}, {"family": "Akkuratova", "given": "Natalia", "initials": "N"}, {"family": "Vorontsova", "given": "Maria", "initials": "M"}, {"family": "Gusev", "given": "Oleg", "initials": "O"}, {"family": "Fried", "given": "Kaj", "initials": "K"}, {"family": "Sundstr\u00f6m", "given": "Erik", "initials": "E"}, {"family": "Mei", "given": "Shenglin", "initials": "S"}, {"family": "Kogner", "given": "Per", "initials": "P", "orcid": "0000-0002-2202-9694", "researcher": {"href": "https://publications.scilifelab.se/researcher/e963274b921a4a2c8263f509334d4e22.json"}}, {"family": "Baryawno", "given": "Ninib", "initials": "N"}, {"family": "Kharchenko", "given": "Peter V", "initials": "PV", "orcid": "0000-0002-6036-5875", "researcher": {"href": "https://publications.scilifelab.se/researcher/a67002dec1264bf2865da0017405ee9b.json"}}, {"family": "Adameyko", "given": "Igor", "initials": "I", "orcid": "0000-0001-5471-0356", "researcher": {"href": "https://publications.scilifelab.se/researcher/346f484a56cb4ad5b866b194ccd44e4f.json"}}], "type": "journal article", "published": "2021-05-00", "journal": {"title": "Nat. Genet.", "issn": "1546-1718", "issn-l": "1061-4036", "volume": "53", "issue": "5", "pages": "694-706"}, "abstract": "Characterization of the progression of cellular states during human embryogenesis can provide insights into the origin of pediatric diseases. We examined the transcriptional states of neural crest- and mesoderm-derived lineages differentiating into adrenal glands, kidneys, endothelium and hematopoietic tissue between post-conception weeks 6 and 14 of human development. Our results reveal transitions connecting the intermediate mesoderm and progenitors of organ primordia, the hematopoietic system and endothelial subtypes. Unexpectedly, by using a combination of single-cell transcriptomics and lineage tracing, we found that intra-adrenal sympathoblasts at that stage are directly derived from nerve-associated Schwann cell precursors, similarly to local chromaffin cells, whereas the majority of extra-adrenal sympathoblasts arise from the migratory neural crest. In humans, this process persists during several weeks of development within the large intra-adrenal ganglia-like structures, which may also serve as reservoirs of originating cells in neuroblastoma.", "doi": "10.1038/s41588-021-00818-x", "pmid": "33833454", "labels": {"Eukaryotic Single Cell Genomics (ESCG)": "Service", "Bioinformatics Support for Computational Resources": "Service"}, "xrefs": [{"db": "pii", "key": "10.1038/s41588-021-00818-x"}, {"db": "pmc", "key": "PMC7610777"}, {"db": "mid", "key": "EMS118444"}], "notes": [], "created": "2021-07-09T08:50:25.531Z", "modified": "2024-01-16T13:48:39.871Z"}, {"entity": "publication", "iuid": "a3077264f8cc4b788b7506ddb9b5546f", "links": {"self": {"href": "https://publications.scilifelab.se/publication/a3077264f8cc4b788b7506ddb9b5546f.json"}, "display": {"href": "https://publications.scilifelab.se/publication/a3077264f8cc4b788b7506ddb9b5546f"}}, "title": "Dental cell type atlas reveals stem and differentiated cell types in mouse and human teeth.", "authors": [{"family": "Krivanek", "given": "Jan", "initials": "J", "orcid": "0000-0002-7590-187X", "researcher": {"href": "https://publications.scilifelab.se/researcher/e716ca0e1b464dd9850687d8f5aa6758.json"}}, {"family": "Soldatov", "given": "Ruslan A", "initials": "RA"}, {"family": "Kastriti", "given": "Maria Eleni", "initials": "ME"}, {"family": "Chontorotzea", "given": "Tatiana", "initials": "T"}, {"family": "Herdina", "given": "Anna Nele", "initials": "AN"}, {"family": "Petersen", "given": "Julian", "initials": "J", "orcid": "0000-0002-7444-0610", "researcher": {"href": "https://publications.scilifelab.se/researcher/74d20bbfd5a540a58aac82ada8d80b0d.json"}}, {"family": "Szarowska", "given": "Bara", "initials": "B"}, {"family": "Landova", "given": "Marie", "initials": "M"}, {"family": "Matejova", "given": "Veronika Kovar", "initials": "VK"}, {"family": "Holla", "given": "Lydie Izakovicova", "initials": "LI", "orcid": "0000-0002-7610-8929", "researcher": {"href": "https://publications.scilifelab.se/researcher/2c239a2405d04c14ad3d1a08759d1457.json"}}, {"family": "Kuchler", "given": "Ulrike", "initials": "U"}, {"family": "Zdrilic", "given": "Ivana Vidovic", "initials": "IV"}, {"family": "Vijaykumar", "given": "Anushree", "initials": "A", "orcid": "0000-0002-9311-8715", "researcher": {"href": "https://publications.scilifelab.se/researcher/2e151e4b5e2d49ab925969f0b425ed58.json"}}, {"family": "Balic", "given": "Anamaria", "initials": "A", "orcid": "0000-0001-6796-1197", "researcher": {"href": "https://publications.scilifelab.se/researcher/53dc6465cd6b44c38e2e29aeb3f077a7.json"}}, {"family": "Marangoni", "given": "Pauline", "initials": "P"}, {"family": "Klein", "given": "Ophir D", "initials": "OD", "orcid": "0000-0002-6254-7082", "researcher": {"href": "https://publications.scilifelab.se/researcher/aab94ed0b4f549ef941147b2ffbe27c9.json"}}, {"family": "Neves", "given": "Vitor C M", "initials": "VCM"}, {"family": "Yianni", "given": "Val", "initials": "V", "orcid": "0000-0001-9857-7577", "researcher": {"href": "https://publications.scilifelab.se/researcher/aa7601d7378f41319dfb7cc9210ccfea.json"}}, {"family": "Sharpe", "given": "Paul T", "initials": "PT", "orcid": "0000-0003-2116-9561", "researcher": {"href": "https://publications.scilifelab.se/researcher/d32e7381201b4d9e932b44da8f37e3b1.json"}}, {"family": "Harkany", "given": "Tibor", "initials": "T"}, {"family": "Metscher", "given": "Brian D", "initials": "BD", "orcid": "0000-0002-6514-4406", "researcher": {"href": "https://publications.scilifelab.se/researcher/5ab0055dc0374b4bb88f9bfbb2e0313a.json"}}, {"family": "Baj\u00e9noff", "given": "Marc", "initials": "M"}, {"family": "Mina", "given": "Mina", "initials": "M"}, {"family": "Fried", "given": "Kaj", "initials": "K"}, {"family": "Kharchenko", "given": "Peter V", "initials": "PV", "orcid": "0000-0002-6036-5875", "researcher": {"href": "https://publications.scilifelab.se/researcher/a67002dec1264bf2865da0017405ee9b.json"}}, {"family": "Adameyko", "given": "Igor", "initials": "I", "orcid": "0000-0001-5471-0356", "researcher": {"href": "https://publications.scilifelab.se/researcher/346f484a56cb4ad5b866b194ccd44e4f.json"}}], "type": "journal article", "published": "2020-09-23", "journal": {"title": "Nat Commun", "issn": "2041-1723", "volume": "11", "issue": "1", "pages": "4816", "issn-l": "2041-1723"}, "abstract": "Understanding cell types and mechanisms of dental growth is essential for reconstruction and engineering of teeth. Therefore, we investigated cellular composition of growing and non-growing mouse and human teeth. As a result, we report an unappreciated cellular complexity of the continuously-growing mouse incisor, which suggests a coherent model of cell dynamics enabling unarrested growth. This model relies on spatially-restricted stem, progenitor and differentiated populations in the epithelial and mesenchymal compartments underlying the coordinated expansion of two major branches of pulpal cells and diverse epithelial subtypes. Further comparisons of human and mouse teeth yield both parallelisms and differences in tissue heterogeneity and highlight the specifics behind growing and non-growing modes. Despite being similar at a coarse level, mouse and human teeth reveal molecular differences and species-specific cell subtypes suggesting possible evolutionary divergence. Overall, here we provide an atlas of human and mouse teeth with a focus on growth and differentiation.", "doi": "10.1038/s41467-020-18512-7", "pmid": "32968047", "labels": {"Eukaryotic Single Cell Genomics (ESCG)": "Service"}, "xrefs": [{"db": "pii", "key": "10.1038/s41467-020-18512-7"}, {"db": "pmc", "key": "PMC7511944"}], "notes": [], "created": "2021-12-10T20:15:06.566Z", "modified": "2022-01-03T10:04:22.911Z"}]}