{"entity": "researcher", "timestamp": "2026-08-22T06:56:41.611Z", "family": "Holm", "given": "Matilda", "initials": "M", "orcid": "0000-0001-8453-3936", "affiliations": ["Transplantation Laboratory, Haartman Institute, University of Helsinki and Helsinki University Hospital, Helsinki, Finland."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/ed98d76b8ec943b5a1d5bd72686ea6aa.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/ed98d76b8ec943b5a1d5bd72686ea6aa"}}, "publications": [{"entity": "publication", "iuid": "06a704d7bcce488d8d74ea398cbc8727", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/06a704d7bcce488d8d74ea398cbc8727.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/06a704d7bcce488d8d74ea398cbc8727"}}, "title": "N-Glycomic Profiling of Microsatellite Unstable Colorectal Cancer.", "authors": [{"family": "Ukkola", "given": "Iiris", "initials": "I"}, {"family": "Nummela", "given": "Pirjo", "initials": "P", "orcid": "0000-0002-2768-8816", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f03c81d7069742bfb1c0e17ecc9dca7d.json"}}, {"family": "Heiskanen", "given": "Annamari", "initials": "A"}, {"family": "Holm", "given": "Matilda", "initials": "M", "orcid": "0000-0001-8453-3936", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ed98d76b8ec943b5a1d5bd72686ea6aa.json"}}, {"family": "Zafar", "given": "Sadia", "initials": "S"}, {"family": "Kero", "given": "Mia", "initials": "M"}, {"family": "Haglund", "given": "Caj", "initials": "C", "orcid": "0000-0003-0456-4965", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/48130023e2eb4799b611bfbb0d8ca7a6.json"}}, {"family": "Satomaa", "given": "Tero", "initials": "T", "orcid": "0000-0001-8547-2661", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/6cd09cf7e6a044de85b961896c872a1c.json"}}, {"family": "Kyt\u00f6l\u00e4", "given": "Soili", "initials": "S"}, {"family": "Ristim\u00e4ki", "given": "Ari", "initials": "A"}], "type": "journal article", "published": "2023-07-11", "journal": {"title": "Cancers (Basel)", "issn": "2072-6694", "volume": "15", "issue": "14", "issn-l": "2072-6694"}, "abstract": "Aberrant glycosylation affects cancer progression and immune evasion. Approximately 15% of colorectal cancers (CRCs) demonstrate microsatellite instability (MSI) and display major differences in outcomes and therapeutic responses, as compared to corresponding microsatellite stable (MSS) tumors. We compared the N-glycan profiles of stage II and IV MSI CRC tumors, further subdivided into BRAFV600E wild-type and mutated subgroups (n = 10 in each subgroup), with each other and with those of paired non-neoplastic mucosal samples using mass spectrometry. Further, the N-glycans of BRAFV600E wild-type stage II MSI tumors were compared to corresponding MSS tumors (n = 9). Multiple differences in N-glycan profiles were identified between the MSI CRCs and control tissues, as well as between the stage II MSI and MSS samples. The MSI CRC tumors showed a lower relative abundance of high-mannose N-glycans than did the control tissues or the MSS CRCs. Among MSI CRC subgroups, acidic N-glycans showed tumor stage and BRAF mutation status-dependent variation. Specifically, the large, sulfated/phosphorylated, and putative terminal N-acetylhexosamine-containing acidic N-glycans differed between the MSI CRC subgroups, showing opposite changes in stages II and IV, when comparing BRAF mutated and wild-type tumors. Our results show that molecular subgroups of CRC exhibit characteristic glycan profiles that may explain certain carcinogenic properties of MSI tumors.", "doi": "10.3390/cancers15143571", "pmid": "37509233", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC10376987"}, {"db": "pii", "key": "cancers15143571"}], "notes": [], "created": "2026-08-21T13:01:54.784Z", "modified": "2026-08-21T13:01:54.945Z"}, {"entity": "publication", "iuid": "ce018e79cddf4adfae67805674cb7bdc", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/ce018e79cddf4adfae67805674cb7bdc.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/ce018e79cddf4adfae67805674cb7bdc"}}, "title": "Quantitative bile and serum proteomics for the screening and differential diagnosis of primary sclerosing cholangitis.", "authors": [{"family": "Holm", "given": "Matilda", "initials": "M", "orcid": "0000-0001-8453-3936", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ed98d76b8ec943b5a1d5bd72686ea6aa.json"}}, {"family": "Joenv\u00e4\u00e4r\u00e4", "given": "Sakari", "initials": "S"}, {"family": "Saraswat", "given": "Mayank", "initials": "M"}, {"family": "Tohmola", "given": "Tiialotta", "initials": "T"}, {"family": "Saarela", "given": "Toni", "initials": "T"}, {"family": "Tenca", "given": "Andrea", "initials": "A"}, {"family": "Arola", "given": "Johanna", "initials": "J"}, {"family": "Renkonen", "given": "Risto", "initials": "R"}, {"family": "F\u00e4rkkil\u00e4", "given": "Martti", "initials": "M"}], "type": "journal article", "published": "2022-08-25", "journal": {"title": "PLoS ONE", "issn": "1932-6203", "volume": "17", "issue": "8", "pages": "e0272810", "issn-l": "1932-6203"}, "abstract": "Primary sclerosing cholangitis (PSC) is a chronic liver disease characterized by biliary strictures, cholestasis, and a markedly increased risk of cholangiocarcinoma. New markers for the screening and differential diagnosis of PSC are needed. In this pilot study, we have analyzed both the bile and serum proteomic profiles of 80 PSC patients and non-PSC controls (n = 6 for bile and n = 18 for serum).\n\nThe aim of this study was to discover candidates for new biomarkers for the differential diagnosis of PSC.\n\nBile and serum samples were processed and subsequently analyzed using ultra performance liquid chromatography-ultra definition mass spectrometry (UPLC-UDMSE). Further analysis included statistical analyses such as receiver operating characteristic curve analysis as well as pathway analysis using Ingenuity Pathway Analysis.\n\nIn bile, we discovered 64 proteins with significantly different levels between the groups, with fold changes of up to 129. In serum, we discovered 112 proteins with significantly different levels. Receiver operating characteristic curve analysis found multiple proteins with high area under the curve values, up to 0.942, indicating that these serum proteins are of value as new non-invasive classifiers of PSC. Pathway analysis revealed multiple canonical pathways that were enriched in the dataset, which have roles in bile homeostasis and metabolism. We present several serum proteins that could serve as new blood-based markers for the diagnosis of PSC after further validation. The measurement of serum levels of these proteins could be of use in the screening of patients with suspected PSC.", "doi": "10.1371/journal.pone.0272810", "pmid": "36006970", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC9409575"}, {"db": "pii", "key": "PONE-D-22-11696"}], "notes": [], "created": "2026-08-21T12:52:24.315Z", "modified": "2026-08-21T12:52:24.362Z"}, {"entity": "publication", "iuid": "8bc10f309a7d411eabe6e9b6c77db08d", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/8bc10f309a7d411eabe6e9b6c77db08d.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/8bc10f309a7d411eabe6e9b6c77db08d"}}, "title": "Quantitative glycoproteomics of human milk and association with atopic disease.", "authors": [{"family": "Holm", "given": "Matilda", "initials": "M", "orcid": "0000-0001-8453-3936", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ed98d76b8ec943b5a1d5bd72686ea6aa.json"}}, {"family": "Saraswat", "given": "Mayank", "initials": "M"}, {"family": "Joenv\u00e4\u00e4r\u00e4", "given": "Sakari", "initials": "S"}, {"family": "Seppo", "given": "Antti", "initials": "A"}, {"family": "Looney", "given": "R John", "initials": "RJ"}, {"family": "Tohmola", "given": "Tiialotta", "initials": "T"}, {"family": "Renkonen", "given": "Jutta", "initials": "J"}, {"family": "Renkonen", "given": "Risto", "initials": "R"}, {"family": "J\u00e4rvinen", "given": "Kirsi M", "initials": "KM"}], "type": "journal article", "published": "2022-05-13", "journal": {"title": "PLoS ONE", "issn": "1932-6203", "volume": "17", "issue": "5", "pages": "e0267967", "issn-l": "1932-6203"}, "abstract": "The prevalence of allergic diseases and asthma is increasing rapidly worldwide, with environmental and lifestyle behaviors implicated as a reason. Epidemiological studies have shown that children who grow up on farms are at lower risk of developing childhood atopic disease, indicating the presence of a protective \"farm effect\". The Old Order Mennonite (OOM) community in Upstate New York have traditional, agrarian lifestyles, a low rate of atopic disease, and long periods of exclusive breastfeeding. Human milk proteins are heavily glycosylated, although there is a paucity of studies investigating the milk glycoproteome. In this study, we have used quantitative glycoproteomics to compare the N-glycoprotein profiles of 54 milk samples from Rochester urban/suburban and OOM mothers, two populations with different lifestyles, exposures, and risk of atopic disease. We also compared N-glycoprotein profiles according to the presence or absence of atopic disease in the mothers and, separately, the children. We identified 79 N-glycopeptides from 15 different proteins and found that proteins including immunoglobulin A1, polymeric immunoglobulin receptor, and lactotransferrin displayed significant glycan heterogeneity. We found that the abundances of 38 glycopeptides differed significantly between Rochester and OOM mothers and also identified four glycopeptides with significantly different abundances between all comparisons. These four glycopeptides may be associated with the development of atopic disease. The findings of this study suggest that the differential glycosylation of milk proteins could be linked to atopic disease.", "doi": "10.1371/journal.pone.0267967", "pmid": "35559953", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC9106177"}, {"db": "pii", "key": "PONE-D-21-30987"}], "notes": [], "created": "2026-08-21T12:52:21.998Z", "modified": "2026-08-21T12:52:22.072Z"}]}