Lingjærde group

Tumors emerge and evolve through a combination of random events and selective pressures, but the relative importance of the two depends on the type of cancer and is not well understood.

Concepts such as cancer 'driver' and 'passenger' genes, and more lately notions such as cancer life histories and archaeology of cancer illustrates the power of alluding to evolutionary concepts. Still, evolution is a very elusive concept, even if it is well understood from a mathematical perspective. Part of the problem is that the map from genotype to phenotype is very complicated.

Even though biological processes adhere to evolutionary principles and the latter are reasonably well understood, we may not be able to predict what comes out of an evolutionary process any more than we are able to predict the weather beyond a few weeks (though for a different reason).

There are definitely certain regularities in evolutionary processes, however; in a study of 2000 breast carcinomas (the METABRIC cohort) Curtis et al (2012) found 10 distinct classes of tumors each being characterized by a unique set of genes driving cancer development. Also in other types of cancer one typically finds a small number of distinct subgroups, indicating that nature (and evolution) is not behaving completely at random but following certains paths (often with many detours).

Research topics

  • Large-scale inference on the basis of thousands or even millions of parallel data sets that may come from a single or several different measurement sources (the latter case often being referred to in the genomics literature as 'integrative analysis').
  • How to take advantage of the parallelity of the data (e.g. through empirical Bayes approaches) and developing means to impose biologically reasonable (and justifiable) constraints on the models in order to ensure uniqueness and stability of estimates. 

People

Software 

  • Copynumber (Bioconductor package)
  • CGHExplorer
  • CAAI
  • CARMA
  • PART (R package)
  • Clustermap (R package)

Publications

Publications 2019

Nygård S, Lingjærde OC, Caldas C, Hovig E, Børresen-Dale AL, Helland Å, Haakensen VD (2019)
PathTracer: High-sensitivity detection of differential pathway activity in tumours
Sci Rep, 9 (1), 16332
DOI 10.1038/s41598-019-52529-3, PubMed 31704995

Lindholm EM, Ragle Aure M, Haugen MH, Kleivi Sahlberg K, Kristensen VN, Nebdal D, Børresen-Dale AL, Lingjaerde OC, Engebraaten O (2019)
miRNA expression changes during the course of neoadjuvant bevacizumab and chemotherapy treatment in breast cancer
Mol Oncol, 13 (10), 2278-2296
DOI 10.1002/1878-0261.12561, PubMed 31402562

Hamfjord J, Guren TK, Dajani O, Johansen JS, Glimelius B, Sorbye H, Pfeiffer P, Lingjærde OC, Tveit KM, Kure EH, Pallisgaard N, Spindler KG (2019)
Total circulating cell-free DNA as a prognostic biomarker in metastatic colorectal cancer before first-line oxaliplatin-based chemotherapy
Ann Oncol, 30 (7), 1088-1095
DOI 10.1093/annonc/mdz139, PubMed 31046124

Öjlert ÅK, Halvorsen AR, Nebdal D, Lund-Iversen M, Solberg S, Brustugun OT, Lingjaerde OC, Helland Å (2019)
The immune microenvironment in non-small cell lung cancer is predictive of prognosis after surgery
Mol Oncol, 13 (5), 1166-1179
DOI 10.1002/1878-0261.12475, PubMed 30854794

Johansson HJ, Socciarelli F, Vacanti NM, Haugen MH, Zhu Y, Siavelis I, Fernandez-Woodbridge A, Aure MR, Sennblad B, Vesterlund M, Branca RM, Orre LM, Huss M, Fredlund E, Beraki E, Garred Ø, Boekel J, Sauer T, Zhao W, Nord S, Höglander EK, Jans DC, Brismar H, Haukaas TH, Bathen TF et al. (2019)
Breast cancer quantitative proteome and proteogenomic landscape
Nat Commun, 10 (1), 1600
DOI 10.1038/s41467-019-09018-y, PubMed 30962452

Steen CB, Leich E, Myklebust JH, Lockmer S, Wise JF, Wahlin BE, Østenstad B, Liestøl K, Kimby E, Rosenwald A, Smeland EB, Holte H, Lingjærde OC, Brodtkorb M (2019)
A clinico-molecular predictor identifies follicular lymphoma patients at risk of early transformation after first-line immunotherapy
Haematologica, 104 (10), e460-e464
DOI 10.3324/haematol.2018.209080, PubMed 30846496

Nik-Zainal S, Davies H, Staaf J, Ramakrishna M, Glodzik D, Zou X, Martincorena I, Alexandrov LB, Martin S, Wedge DC, Van Loo P, Ju YS, Smid M, Brinkman AB, Morganella S, Aure MR, Lingjærde OC, Langerød A, Ringnér M, Ahn SM, Boyault S, Brock JE, Broeks A, Butler A, Desmedt C et al. (2019)
Author Correction: Landscape of somatic mutations in 560 breast cancer whole-genome sequences
Nature, 566 (7742), E1
DOI 10.1038/s41586-019-0883-2, PubMed 30659290

Cheng J, Demeulemeester J, Wedge DC, Vollan HKM, Pitt JJ, Russnes HG, Pandey BP, Nilsen G, Nord S, Bignell GR, White KP, Børresen-Dale AL, Campbell PJ, Kristensen VN, Stratton MR, Lingjærde OC, Moreau Y, Van Loo P (2019)
Author Correction: Pan-cancer analysis of homozygous deletions in primary tumours uncovers rare tumour suppressors
Nat Commun, 10 (1), 525
DOI 10.1038/s41467-019-08512-7, PubMed 30692535

Publications 2018

Cheng J, Demeulemeester J, Wedge DC, Vollan HKM, Pitt JJ, Russnes HG, Pandey BP, Nilsen G, Nord S, Bignell GR, White KP, Børresen-Dale AL, Campbell PJ, Kristensen VN, Stratton MR, Lingjærde OC, Moreau Y, Van Loo P (2018)
Author Correction: Pan-cancer analysis of homozygous deletions in primary tumours uncovers rare tumour suppressors
Nat Commun, 9 (1), 5397
DOI 10.1038/s41467-018-07842-2, PubMed 30559362

Tarabichi M, Martincorena I, Gerstung M, Leroi AM, Markowetz F, PCAWG Evolution and Heterogeneity Working Group, Spellman PT, Morris QD, Lingjærde OC, Wedge DC, Van Loo P (2018)
Neutral tumor evolution?
Nat Genet, 50 (12), 1630-1633
DOI 10.1038/s41588-018-0258-x, PubMed 30374075

Höglander EK, Nord S, Wedge DC, Lingjærde OC, Silwal-Pandit L, Gythfeldt HV, Vollan HKM, Fleischer T, Krohn M, Schlitchting E, Borgen E, Garred Ø, Holmen MM, Wist E, Naume B, Van Loo P, Børresen-Dale AL, Engebraaten O, Kristensen V (2018)
Time series analysis of neoadjuvant chemotherapy and bevacizumab-treated breast carcinomas reveals a systemic shift in genomic aberrations
Genome Med, 10 (1), 92
DOI 10.1186/s13073-018-0601-y, PubMed 30497530

Rye IH, Trinh A, Saetersdal AB, Nebdal D, Lingjaerde OC, Almendro V, Polyak K, Børresen-Dale AL, Helland Å, Markowetz F, Russnes HG (2018)
Intratumor heterogeneity defines treatment-resistant HER2+ breast tumors
Mol Oncol, 12 (11), 1838-1855
DOI 10.1002/1878-0261.12375, PubMed 30133130

Holte H, Beiske K, Boyle M, Trøen G, Blaker YN, Myklebust J, Kvaløy S, Rosenwald A, Lingjaerde OC, Rimsza LM, Smeland EB, Scott DW, Kolstad A (2018)
The MCL35 gene expression proliferation assay predicts high-risk MCL patients in a Norwegian cohort of younger patients given intensive first line therapy
Br J Haematol, 183 (2), 225-234
DOI 10.1111/bjh.15518, PubMed 30080252

Dean KR, Krauer F, Walløe L, Lingjærde OC, Bramanti B, Stenseth NC, Schmid BV (2018)
Reply to Park et al.: Human ectoparasite transmission of plague during the Second Pandemic is still plausible
Proc Natl Acad Sci U S A, 115 (34), E7894-E7895
DOI 10.1073/pnas.1810221115, PubMed 30076236

Våtsveen TK, Myhre MR, Steen CB, Wälchli S, Lingjærde OC, Bai B, Dillard P, Theodossiou TA, Holien T, Sundan A, Inderberg EM, Smeland EB, Myklebust JH, Oksvold MP (2018)
Artesunate shows potent anti-tumor activity in B-cell lymphoma
J Hematol Oncol, 11 (1), 23
DOI 10.1186/s13045-018-0561-0, PubMed 29458389

Dean KR, Krauer F, Walløe L, Lingjærde OC, Bramanti B, Stenseth NC, Schmid BV (2018)
Human ectoparasites and the spread of plague in Europe during the Second Pandemic
Proc Natl Acad Sci U S A, 115 (6), 1304-1309
DOI 10.1073/pnas.1715640115, PubMed 29339508

Kaveh F, Baumbusch LO, Nebdal D, Børresen-Dale AL, Lingjærde OC, Edvardsen H, Kristensen VN, Solvang HK (2018)
Correction to: A systematic comparison of copy number alterations in four types of female cancer
BMC Cancer, 18 (1), 80
DOI 10.1186/s12885-017-3766-7, PubMed 29338700

Publications 2017

Josefsson SE, Huse K, Kolstad A, Beiske K, Pende D, Steen CB, Inderberg EM, Lingjærde OC, Østenstad B, Smeland EB, Levy R, Irish JM, Myklebust JH (2017)
T Cells Expressing Checkpoint Receptor TIGIT Are Enriched in Follicular Lymphoma Tumors and Characterized by Reversible Suppression of T-cell Receptor Signaling
Clin Cancer Res, 24 (4), 870-881
DOI 10.1158/1078-0432.CCR-17-2337, PubMed 29217528

Cheng J, Demeulemeester J, Wedge DC, Vollan HKM, Pitt JJ, Russnes HG, Pandey BP, Nilsen G, Nord S, Bignell GR, White KP, Børresen-Dale AL, Campbell PJ, Kristensen VN, Stratton MR, Lingjærde OC, Moreau Y, Van Loo P (2017)
Pan-cancer analysis of homozygous deletions in primary tumours uncovers rare tumour suppressors
Nat Commun, 8 (1), 1221
DOI 10.1038/s41467-017-01355-0, PubMed 29089486

Lågstad S, Zhao S, Hoff AM, Johannessen B, Lingjærde OC, Skotheim RI (2017)
chimeraviz: a tool for visualizing chimeric RNA
Bioinformatics, 33 (18), 2954-2956
DOI 10.1093/bioinformatics/btx329, PubMed 28525538

Russnes HG, Lingjærde OC, Børresen-Dale AL, Caldas C (2017)
Breast Cancer Molecular Stratification: From Intrinsic Subtypes to Integrative Clusters
Am J Pathol, 187 (10), 2152-2162
DOI 10.1016/j.ajpath.2017.04.022, PubMed 28733194

Silwal-Pandit L, Nord S, von der Lippe Gythfeldt H, Møller EK, Fleischer T, Rødland E, Krohn M, Borgen E, Garred Ø, Olsen T, Vu P, Skjerven H, Fangberget A, Holmen MM, Schlitchting E, Wille E, Nordberg Stokke M, Moen Vollan HK, Kristensen V, Langerød A, Lundgren S, Wist E, Naume B, Lingjærde OC, Børresen-Dale AL et al. (2017)
The Longitudinal Transcriptional Response to Neoadjuvant Chemotherapy with and without Bevacizumab in Breast Cancer
Clin Cancer Res, 23 (16), 4662-4670
DOI 10.1158/1078-0432.CCR-17-0160, PubMed 28487444

Ree AH, Russnes HG, Heinrich D, Dueland S, Boye K, Nygaard V, Silwal-Pandit L, Østrup O, Hovig E, Nygaard V, Rødland EA, Nakken S, Øien JT, Johansen C, Bergheim IR, Skarpeteig V, Sathermugathevan M, Sauer T, Lund-Iversen M, Beiske K, Nasser S, Julsrud L, Reisse CH, Ruud EA, Flørenes VA et al. (2017)
Implementing precision cancer medicine in the public health services of Norway: the diagnostic infrastructure and a cost estimate
ESMO Open, 2 (2), e000158
DOI 10.1136/esmoopen-2017-000158, PubMed 28761742

Aure MR, Vitelli V, Jernström S, Kumar S, Krohn M, Due EU, Haukaas TH, Leivonen SK, Vollan HK, Lüders T, Rødland E, Vaske CJ, Zhao W, Møller EK, Nord S, Giskeødegård GF, Bathen TF, Caldas C, Tramm T, Alsner J, Overgaard J, Geisler J, Bukholm IR, Naume B, Schlichting E et al. (2017)
Integrative clustering reveals a novel split in the luminal A subtype of breast cancer with impact on outcome
Breast Cancer Res, 19 (1), 44
DOI 10.1186/s13058-017-0812-y, PubMed 28356166

Publications 2016

Taraldsrud E, Aukrust P, Jørgensen S, Lingjærde OC, Olweus J, Myklebust JH, Fevang B (2016)
Patterns of constitutively phosphorylated kinases in B cells are associated with disease severity in common variable immunodeficiency
Clin Immunol, 175, 69-74
DOI 10.1016/j.clim.2016.11.014, PubMed 27919819

Kaveh F, Baumbusch LO, Nebdal D, Børresen-Dale AL, Lingjærde OC, Edvardsen H, Kristensen VN, Solvang HK (2016)
A systematic comparison of copy number alterations in four types of female cancer
BMC Cancer, 16 (1), 913
DOI 10.1186/s12885-016-2899-4, PubMed 27876019

Sandhu V, Wedge DC, Bowitz Lothe IM, Labori KJ, Dentro SC, Buanes T, Skrede ML, Dalsgaard AM, Munthe E, Myklebost O, Lingjærde OC, Børresen-Dale AL, Ikdahl T, Van Loo P, Nord S, Kure EH (2016)
The Genomic Landscape of Pancreatic and Periampullary Adenocarcinoma
Cancer Res, 76 (17), 5092-102
DOI 10.1158/0008-5472.CAN-16-0658, PubMed 27488532

Sveen A, Løes IM, Alagaratnam S, Nilsen G, Høland M, Lingjærde OC, Sorbye H, Berg KC, Horn A, Angelsen JH, Knappskog S, Lønning PE, Lothe RA (2016)
Intra-patient Inter-metastatic Genetic Heterogeneity in Colorectal Cancer as a Key Determinant of Survival after Curative Liver Resection
PLoS Genet, 12 (7), e1006225
DOI 10.1371/journal.pgen.1006225, PubMed 27472274

Haukaas TH, Euceda LR, Giskeødegård GF, Lamichhane S, Krohn M, Jernström S, Aure MR, Lingjærde OC, Schlichting E, Garred Ø, Due EU, Mills GB, Sahlberg KK, Børresen-Dale AL, Bathen TF, Oslo Breast Cancer Consortium (OSBREAC) (2016)
Metabolic clusters of breast cancer in relation to gene- and protein expression subtypes
Cancer Metab, 4, 12
DOI 10.1186/s40170-016-0152-x, PubMed 27350877

Blaker YN, Spetalen S, Brodtkorb M, Lingjaerde OC, Beiske K, Østenstad B, Sander B, Wahlin BE, Melen CM, Myklebust JH, Holte H, Delabie J, Smeland EB (2016)
The tumour microenvironment influences survival and time to transformation in follicular lymphoma in the rituximab era
Br J Haematol, 175 (1), 102-14
DOI 10.1111/bjh.14201, PubMed 27341313

Nik-Zainal S, Davies H, Staaf J, Ramakrishna M, Glodzik D, Zou X, Martincorena I, Alexandrov LB, Martin S, Wedge DC, Van Loo P, Ju YS, Smid M, Brinkman AB, Morganella S, Aure MR, Lingjærde OC, Langerød A, Ringnér M, Ahn SM, Boyault S, Brock JE, Broeks A, Butler A, Desmedt C et al. (2016)
Landscape of somatic mutations in 560 breast cancer whole-genome sequences
Nature, 534 (7605), 47-54
DOI 10.1038/nature17676, PubMed 27135926

Publications 2015

Hamfjord J, Saldova R, Stöckmann H, Sandhu V, Bowitz Lothe IM, Buanes T, Lingjærde OC, Labori KJ, Rudd PM, Kure EH (2015)
Serum N-Glycome Characterization in Patients with Resectable Periampullary Adenocarcinoma
J Proteome Res, 14 (12), 5144-56
DOI 10.1021/acs.jproteome.5b00395, PubMed 26515733

Sandhu V, Bowitz Lothe IM, Labori KJ, Skrede ML, Hamfjord J, Dalsgaard AM, Buanes T, Dube G, Kale MM, Sawant S, Kulkarni-Kale U, Børresen-Dale AL, Lingjærde OC, Kure EH (2015)
Differential expression of miRNAs in pancreatobiliary type of periampullary adenocarcinoma and its associated stroma
Mol Oncol, 10 (2), 303-16
DOI 10.1016/j.molonc.2015.10.011, PubMed 26590090

Kjersem JB, Thomsen M, Guren T, Hamfjord J, Carlsson G, Gustavsson B, Ikdahl T, Indrebø G, Pfeiffer P, Lingjærde O, Tveit KM, Wettergren Y, Kure EH (2015)
AGXT and ERCC2 polymorphisms are associated with clinical outcome in metastatic colorectal cancer patients treated with 5-FU/oxaliplatin
Pharmacogenomics J, 16 (3), 272-9
DOI 10.1038/tpj.2015.54, PubMed 26261061

Borge KS, Nord S, Van Loo P, Lingjærde OC, Gunnes G, Alnæs GI, Solvang HK, Lüders T, Kristensen VN, Børresen-Dale AL, Lingaas F (2015)
Canine Mammary Tumours Are Affected by Frequent Copy Number Aberrations, including Amplification of MYC and Loss of PTEN
PLoS One, 10 (5), e0126371
DOI 10.1371/journal.pone.0126371, PubMed 25955013

Tinholt M, Vollan HK, Sahlberg KK, Jernström S, Kaveh F, Lingjærde OC, Kåresen R, Sauer T, Kristensen V, Børresen-Dale AL, Sandset PM, Iversen N (2015)
Tumor expression, plasma levels and genetic polymorphisms of the coagulation inhibitor TFPI are associated with clinicopathological parameters and survival in breast cancer, in contrast to the coagulation initiator TF
Breast Cancer Res, 17, 44
DOI 10.1186/s13058-015-0548-5, PubMed 25882602

Aure MR, Jernström S, Krohn M, Vollan HK, Due EU, Rødland E, Kåresen R, Oslo Breast Cancer Research Consortium (OSBREAC), Ram P, Lu Y, Mills GB, Sahlberg KK, Børresen-Dale AL, Lingjærde OC, Kristensen VN (2015)
Integrated analysis reveals microRNA networks coordinately expressed with key proteins in breast cancer
Genome Med, 7 (1), 21
DOI 10.1186/s13073-015-0135-5, PubMed 25873999

Potapenko IO, Lüders T, Russnes HG, Helland Å, Sørlie T, Kristensen VN, Nord S, Lingjærde OC, Børresen-Dale AL, Haakensen VD (2015)
Glycan-related gene expression signatures in breast cancer subtypes; relation to survival
Mol Oncol, 9 (4), 861-76
DOI 10.1016/j.molonc.2014.12.013, PubMed 25655580

Publications 2014

Sandhu V, Bowitz Lothe IM, Labori KJ, Lingjærde OC, Buanes T, Dalsgaard AM, Skrede ML, Hamfjord J, Haaland T, Eide TJ, Børresen-Dale AL, Ikdahl T, Kure EH (2014)
Molecular signatures of mRNAs and miRNAs as prognostic biomarkers in pancreatobiliary and intestinal types of periampullary adenocarcinomas
Mol Oncol, 9 (4), 758-71
DOI 10.1016/j.molonc.2014.12.002, PubMed 25579086

Vollan HK, Rueda OM, Chin SF, Curtis C, Turashvili G, Shah S, Lingjærde OC, Yuan Y, Ng CK, Dunning MJ, Dicks E, Provenzano E, Sammut S, McKinney S, Ellis IO, Pinder S, Purushotham A, Murphy LC, Kristensen VN, METABRIC Group, Brenton JD, Pharoah PD, Børresen-Dale AL, Aparicio S, Caldas C (2014)
A tumor DNA complex aberration index is an independent predictor of survival in breast and ovarian cancer
Mol Oncol, 9 (1), 115-27
DOI 10.1016/j.molonc.2014.07.019, PubMed 25169931

Kristensen VN, Lingjærde OC, Russnes HG, Vollan HK, Frigessi A, Børresen-Dale AL (2014)
Principles and methods of integrative genomic analyses in cancer
Nat Rev Cancer, 14 (5), 299-313
DOI 10.1038/nrc3721, PubMed 24759209

Zhao X, Rødland EA, Sørlie T, Vollan HK, Russnes HG, Kristensen VN, Lingjærde OC, Børresen-Dale AL (2014)
Systematic assessment of prognostic gene signatures for breast cancer shows distinct influence of time and ER status
BMC Cancer, 14, 211
DOI 10.1186/1471-2407-14-211, PubMed 24645668

Russnes HG, Lønning PE, Børresen-Dale AL, Lingjærde OC (2014)
The multitude of molecular analyses in cancer: the opening of Pandora’s box
Genome Biol, 15 (9), 447
DOI 10.1186/s13059-014-0447-6, PubMed 25316146

Publications 2013

Brodtkorb M, Lingjærde OC, Huse K, Trøen G, Hystad M, Hilden VI, Myklebust JH, Leich E, Rosenwald A, Delabie J, Holte H, Smeland EB (2013)
Whole-genome integrative analysis reveals expression signatures predicting transformation in follicular lymphoma
Blood, 123 (7), 1051-4
DOI 10.1182/blood-2013-07-512392, PubMed 24357726

Aure MR, Leivonen SK, Fleischer T, Zhu Q, Overgaard J, Alsner J, Tramm T, Louhimo R, Alnæs GI, Perälä M, Busato F, Touleimat N, Tost J, Børresen-Dale AL, Hautaniemi S, Troyanskaya OG, Lingjærde OC, Sahlberg KK, Kristensen VN (2013)
Individual and combined effects of DNA methylation and copy number alterations on miRNA expression in breast tumors
Genome Biol, 14 (11), R126
DOI 10.1186/gb-2013-14-11-r126, PubMed 24257477

Nilsen G, Borgan O, Liestøl K, Lingjærde OC (2013)
Identifying clusters in genomics data by recursive partitioning
Stat Appl Genet Mol Biol, 12 (5), 637-52
DOI 10.1515/sagmb-2013-0016, PubMed 23942354

Kjersem JB, Ikdahl T, Lingjaerde OC, Guren T, Tveit KM, Kure EH (2013)
Plasma microRNAs predicting clinical outcome in metastatic colorectal cancer patients receiving first-line oxaliplatin-based treatment
Mol Oncol, 8 (1), 59-67
DOI 10.1016/j.molonc.2013.09.001, PubMed 24119443

Myhre S, Lingjærde OC, Hennessy BT, Aure MR, Carey MS, Alsner J, Tramm T, Overgaard J, Mills GB, Børresen-Dale AL, Sørlie T (2013)
Influence of DNA copy number and mRNA levels on the expression of breast cancer related proteins
Mol Oncol, 7 (3), 704-18
DOI 10.1016/j.molonc.2013.02.018, PubMed 23562353

Baumbusch LO, Helland Å, Wang Y, Liestøl K, Schaner ME, Holm R, Etemadmoghadam D, Alsop K, Brown P, Australian Ovarian Cancer Study Group, Mitchell G, Fereday S, DeFazio A, Bowtell DD, Kristensen GB, Lingjærde OC, Børresen-Dale AL (2013)
High levels of genomic aberrations in serous ovarian cancers are associated with better survival
PLoS One, 8 (1), e54356
DOI 10.1371/journal.pone.0054356, PubMed 23372714

Aure MR, Steinfeld I, Baumbusch LO, Liestøl K, Lipson D, Nyberg S, Naume B, Sahlberg KK, Kristensen VN, Børresen-Dale AL, Lingjærde OC, Yakhini Z (2013)
Identifying in-trans process associated genes in breast cancer by integrated analysis of copy number and expression data
PLoS One, 8 (1), e53014
DOI 10.1371/journal.pone.0053014, PubMed 23382830

Publications 2012

Nilsen G, Liestøl K, Van Loo P, Moen Vollan HK, Eide MB, Rueda OM, Chin SF, Russell R, Baumbusch LO, Caldas C, Børresen-Dale AL, Lingjaerde OC (2012)
Copynumber: Efficient algorithms for single- and multi-track copy number segmentation
BMC Genomics, 13, 591
DOI 10.1186/1471-2164-13-591, PubMed 23442169

Borgan E, Lindholm EM, Moestue S, Mælandsmo GM, Lingjærde OC, Gribbestad IS, Børresen-Dale AL, Engebraaten O, Sørlie T (2012)
Subtype-specific response to bevacizumab is reflected in the metabolome and transcriptome of breast cancer xenografts
Mol Oncol, 7 (1), 130-42
DOI 10.1016/j.molonc.2012.10.005, PubMed 23142657

Van Loo P, Nilsen G, Nordgard SH, Vollan HK, Børresen-Dale AL, Kristensen VN, Lingjærde OC (2012)
Analyzing cancer samples with SNP arrays
Methods Mol Biol, 802, 57-72
DOI 10.1007/978-1-61779-400-1_4, PubMed 22130873

Publications 2011

Haakensen VD, Lingjaerde OC, Lüders T, Riis M, Prat A, Troester MA, Holmen MM, Frantzen JO, Romundstad L, Navjord D, Bukholm IK, Johannesen TB, Perou CM, Ursin G, Kristensen VN, Børresen-Dale AL, Helland A (2011)
Gene expression profiles of breast biopsies from healthy women identify a group with claudin-low features
BMC Med Genomics, 4, 77
DOI 10.1186/1755-8794-4-77, PubMed 22044755

Borgan E, Navon R, Vollan HK, Schlichting E, Sauer T, Yakhini Z, Lingjærde OC, Sørlie T, Børresen-Dale AL (2011)
Ischemia caused by time to freezing induces systematic microRNA and mRNA responses in cancer tissue
Mol Oncol, 5 (6), 564-76
DOI 10.1016/j.molonc.2011.08.004, PubMed 21917534

Solvang HK, Lingjærde OC, Frigessi A, Børresen-Dale AL, Kristensen VN (2011)
Linear and non-linear dependencies between copy number aberrations and mRNA expression reveal distinct molecular pathways in breast cancer
BMC Bioinformatics, 12, 197
DOI 10.1186/1471-2105-12-197, PubMed 21609452

Zhao X, Rødland EA, Sørlie T, Naume B, Langerød A, Frigessi A, Kristensen VN, Børresen-Dale AL, Lingjærde OC (2011)
Combining gene signatures improves prediction of breast cancer survival
PLoS One, 6 (3), e17845
DOI 10.1371/journal.pone.0017845, PubMed 21423775

Publications 2010

Borgan E, Sitter B, Lingjærde OC, Johnsen H, Lundgren S, Bathen TF, Sørlie T, Børresen-Dale AL, Gribbestad IS (2010)
Merging transcriptomics and metabolomics--advances in breast cancer profiling
BMC Cancer, 10, 628
DOI 10.1186/1471-2407-10-628, PubMed 21080935

Van Loo P, Nordgard SH, Lingjærde OC, Russnes HG, Rye IH, Sun W, Weigman VJ, Marynen P, Zetterberg A, Naume B, Perou CM, Børresen-Dale AL, Kristensen VN (2010)
Allele-specific copy number analysis of tumors
Proc Natl Acad Sci U S A, 107 (39), 16910-5
DOI 10.1073/pnas.1009843107, PubMed 20837533

Sørlie T, Borgan E, Myhre S, Vollan HK, Russnes H, Zhao X, Nilsen G, Lingjaerde OC, Børresen-Dale AL, Rødland E (2010)
The importance of gene-centring microarray data
Lancet Oncol, 11 (8), 719-20; author reply 720-1
DOI 10.1016/S1470-2045(10)70174-1, PubMed 20688275

Russnes HG, Vollan HKM, Lingjærde OC, Krasnitz A, Lundin P, Naume B, Sørlie T, Borgen E, Rye IH, Langerød A, Chin SF, Teschendorff AE, Stephens PJ, Månér S, Schlichting E, Baumbusch LO, Kåresen R, Stratton MP, Wigler M, Caldas C, Zetterberg A, Hicks J, Børresen-Dale AL (2010)
Genomic architecture characterizes tumor progression paths and fate in breast cancer patients
Sci Transl Med, 2 (38), 38ra47
DOI 10.1126/scitranslmed.3000611, PubMed 20592421

Eide MB, Liestøl K, Lingjaerde OC, Hystad ME, Kresse SH, Meza-Zepeda L, Myklebost O, Trøen G, Aamot HV, Holte H, Smeland EB, Delabie J (2010)
Genomic alterations reveal potential for higher grade transformation in follicular lymphoma and confirm parallel evolution of tumor cell clones
Blood, 116 (9), 1489-97
DOI 10.1182/blood-2010-03-272278, PubMed 20505157

Naume B, Zhao X, Synnestvedt M, Borgen E, Russnes HG, Lingjaerde OC, Stromberg M, Wiedswang G, Kvalheim G, Karesen R, Nesland JM, Borresen-Dale AL, Sorlie T (2010)
Presence of bone marrow micrometastasis is associated with different recurrence risk within molecular subtypes of breast cancer (vol 1, pg 160, 2007)
Mol. Oncol., 4 (2), 169

Haakensen VD, Biong M, Lingjærde OC, Holmen MM, Frantzen JO, Chen Y, Navjord D, Romundstad L, Lüders T, Bukholm IK, Solvang HK, Kristensen VN, Ursin G, Børresen-Dale AL, Helland A (2010)
Expression levels of uridine 5'-diphospho-glucuronosyltransferase genes in breast tissue from healthy women are associated with mammographic density
Breast Cancer Res, 12 (4), R65
DOI 10.1186/bcr2632, PubMed 20799965

Publications 2009

Potapenko IO, Haakensen VD, Lüders T, Helland A, Bukholm I, Sørlie T, Kristensen VN, Lingjaerde OC, Børresen-Dale AL (2009)
Glycan gene expression signatures in normal and malignant breast tissue; possible role in diagnosis and progression
Mol Oncol, 4 (2), 98-118
DOI 10.1016/j.molonc.2009.12.001, PubMed 20060370

Publications 2008

Baumbusch LO, Aarøe J, Johansen FE, Hicks J, Sun H, Bruhn L, Gunderson K, Naume B, Kristensen VN, Liestøl K, Børresen-Dale AL, Lingjaerde OC (2008)
Comparison of the Agilent, ROMA/NimbleGen and Illumina platforms for classification of copy number alterations in human breast tumors
BMC Genomics, 9, 379
DOI 10.1186/1471-2164-9-379, PubMed 18691401

Nordgard SH, Alnaes GI, Hihn B, Lingjaerde OC, Liestøl K, Tsalenko A, Sørlie T, Lønning PE, Børresen-Dale AL, Kristensen VN (2008)
Pathway based analysis of SNPs with relevance to 5-FU therapy: relation to intratumoral mRNA expression and survival
Int J Cancer, 123 (3), 577-85
DOI 10.1002/ijc.23541, PubMed 18498133

Horlings HM, Bergamaschi A, Nordgard SH, Kim YH, Han W, Noh DY, Salari K, Joosse SA, Reyal F, Lingjaerde OC, Kristensen VN, Børresen-Dale AL, Pollack J, van de Vijver MJ (2008)
ESR1 gene amplification in breast cancer: a common phenomenon?
Nat Genet, 40 (7), 807-8; author reply 810-2
DOI 10.1038/ng0708-807, PubMed 18583965

Nygård S, Borgan O, Lingjaerde OC, Størvold HL (2008)
Partial least squares Cox regression for genome-wide data
Lifetime Data Anal, 14 (2), 179-95
DOI 10.1007/s10985-007-9076-7, PubMed 18188699

Publications 2007

Bøvelstad HM, Nygård S, Størvold HL, Aldrin M, Borgan Ø, Frigessi A, Lingjaerde OC (2007)
Predicting survival from microarray data--a comparative study
Bioinformatics, 23 (16), 2080-7
DOI 10.1093/bioinformatics/btm305, PubMed 17553857

Naume B, Zhao X, Synnestvedt M, Borgen E, Russnes HG, Lingjaerde OC, Strømberg M, Wiedswang G, Kvalheim G, Kåresen R, Nesland JM, Børresen-Dale AL, Sørlie T (2007)
Presence of bone marrow micrometastasis is associated with different recurrence risk within molecular subtypes of breast cancer
Mol Oncol, 1 (2), 160-71
DOI 10.1016/j.molonc.2007.03.004, PubMed 19383292

Publications 2006

Lagerløv P, Loeb M, Slettevoll J, Lingjaerde OC, Fetveit A (2006)
Severity of illness and the use of paracetamol in febrile preschool children; a case simulation study of parents' assessments
Fam Pract, 23 (6), 618-23
DOI 10.1093/fampra/cml046, PubMed 17035288

Ribeiro FR, Diep CB, Jerónimo C, Henrique R, Lopes C, Eknaes M, Lingjaerde OC, Lothe RA, Teixeira MR (2006)
Statistical dissection of genetic pathways involved in prostate carcinogenesis
Genes Chromosomes Cancer, 45 (2), 154-63
DOI 10.1002/gcc.20279, PubMed 16235241

Kristensen VN, Tsalenko A, Geisler J, Faldaas A, Grenaker GI, Lingjaerde OC, Fjeldstad S, Yakhini Z, Lønning PE, Børresen-Dale AL (2006)
Multilocus analysis of SNP and metabolic data within a given pathway
BMC Genomics, 7, 5
DOI 10.1186/1471-2164-7-5, PubMed 16412218

Publications 2005

Lekve K, Ellingsen KE, Lingjaerde OC, Gjøsaeter J, Stenseth NC (2005)
Spatio-temporal variability of richness estimators: coastal marine fish communities as examples
Oecologia, 144 (2), 308-17
DOI 10.1007/s00442-005-0049-9, PubMed 15800740

Publications 2004

Lingjaerde OC, Baumbusch LO, Liestøl K, Glad IK, Børresen-Dale AL (2004)
CGH-Explorer: a program for analysis of array-CGH data
Bioinformatics, 21 (6), 821-2
DOI 10.1093/bioinformatics/bti113, PubMed 15531610

Stenseth NC, Shabbar A, Chan KS, Boutin S, Rueness EK, Ehrich D, Hurrell JW, Lingjaerde OC, Jakobsen KS (2004)
Snow conditions may create an invisible barrier for lynx
Proc Natl Acad Sci U S A, 101 (29), 10632-4
DOI 10.1073/pnas.0308674101, PubMed 15249676

Stenseth NC, Ehrich D, Rueness EK, Lingjaerde OC, Chan KS, Boutin S, O'Donoghue M, Robinson DA, Viljugrein H, Jakobsen KS (2004)
The effect of climatic forcing on population synchrony and genetic structuring of the Canadian lynx
Proc Natl Acad Sci U S A, 101 (16), 6056-61
DOI 10.1073/pnas.0307123101, PubMed 15067131

Vik JO, Stenseth NC, Tavecchia G, Mysterud A, Lingjaerde OC (2004)
Ecology: living in synchrony on Greenland coasts?
Nature, 427 (6976), 697-8; discussion 698
DOI 10.1038/427697a, PubMed 14973473

Publications 2002

Akbari A, Albregtsen F, Lingjaerde OC (2002)
Adaptive weighted least squares method for the estimation of DNA fragment lengths from agarose gels
Electrophoresis, 23 (2), 176-81
DOI 10.1002/1522-2683(200202)23:2<176::AID-ELPS176>3.0.CO;2-1, PubMed 11840520

Publications 2001

Sudbø J, Reith A, Lingjaerde OC (2001)
Gene-expression profiles in hereditary breast cancer
N Engl J Med, 344 (26), 2029
PubMed 11430338

Publications 1997

Goplen AK, Dunlop O, Liestøl K, Lingjaerde OC, Bruun JN, Maehlen J (1997)
The impact of primary central nervous system lymphoma in AIDS patients: a population-based autopsy study from Oslo
J Acquir Immune Defic Syndr Hum Retrovirol, 14 (4), 351-4
DOI 10.1097/00042560-199704010-00007, PubMed 9111477

Published Apr. 2, 2019 2:47 PM - Last modified May 24, 2019 12:12 PM