Clinical Genomics Linköping

Genome-wide DNA methylation profiling in Lyme neuroborreliosis reveals altered methylation patterns of HLA genes.

Henningsson AJ, Hellberg S, Lerm M, Sayyab S

J. Infect. Dis. - (-) - [2023-10-12; online 2023-10-12]

Selected β-glucans act as immune-training agents by improving anti-mycobacterial activity in human macrophages - a pilot study.

Braian C, Karlsson L, Das J, Lerm M

J Innate Immun 15 (1) 751-764 [2023-09-21; online 2023-09-21]

Epigenetic modifications appear in the human placenta following anxiety and depression during pregnancy.

Martinez CA, Marteinsdottir I, Josefsson A, ..., Theodorsson E, Rodriguez-Martinez H

Placenta 140 (-) 72-79 [2023-09-07; online 2023-08-01]

Differential DNA Methylation of MicroRNA-Encoding Genes in Psoriatic Epidermis Highlights the Wnt Pathway.

Verma D, Kasic NK, Jeppsson F, ..., Das J, Enerbäck C

J. Invest. Dermatol. 143 (8) 1594-1597.e14 [2023-08-00; online 2023-02-27]

Domain landscapes of somatic NF1 mutations in pheochromocytoma and paraganglioma.

Tabebi M, Frikha F, Volpe M, Gimm O, Söderkvist P

Gene 872 (-) 147432 [2023-07-01; online 2023-04-14]

Mating modifies the expression of crucial oxidative-reductive transcripts in the pig oviductal sperm reservoir: is the female ensuring sperm survival?

Álvarez-Rodríguez M, Roca J, Martínez EA, Rodríguez-Martínez H

Front Endocrinol (Lausanne) 14 (-) 1042176 [2023-06-07; online 2023-06-07]

Stress-sensitive dynamics of miRNAs and Elba1 in Drosophila embryogenesis.

Örkenby L, Skog S, Ekman H, ..., Nätt D, Öst A

Mol. Syst. Biol. 19 (5) e11148 [2023-05-09; online 2023-03-20]

methylR: a graphical interface for comprehensive DNA methylation array data analysis.

Volpe M, Das J

Bioinformatics 39 (4) - [2023-04-03; online 2023-04-12]

Clinical Genomics Linköping [Technology development]

Ahlberg E, Martí M, Govindaraj D, ..., Jenmalm MC, Tingö L

Pediatr Allergy Immunol 34 (4) e13952 [2023-04-00; online 2023-04-27]

miRNome and Proteome Profiling of Human Keratinocytes and Adipose Derived Stem Cells Proposed miRNA-Mediated Regulations of Epidermal Growth Factor and Interleukin 1-Alpha.

Shahin H, Abdallah S, Das J, ..., Elmasry M, El-Serafi AT

Int J Mol Sci 24 (5) - [2023-03-04; online 2023-03-04]

Nuclear and mitochondrial DNA alterations in pheochromocytomas and paragangliomas, and their potential treatment.

Tabebi M, Söderkvist P, Gimm O

Endocr. Relat. Cancer 30 (1) - [2023-01-01; online 2022-12-08]

Year 2022

A new cut&run low volume-urea (LoV-U) protocol optimized for transcriptional co-factors uncovers Wnt/b-catenin tissue-specific genomic targets.

Zambanini G, Nordin A, Jonasson M, Pagella P, Cantù C

Development - (-) - [2022-11-10; online 2022-11-10]

Case report: Two sisters with a germline CHEK2 variant and distinct endocrine neoplasias.

Vallera RD, Ding Y, Hatanpaa KJ, ..., Dahia PLM, Ghayee HK

Front Endocrinol (Lausanne) 13 (-) 1024108 [2022-11-07; online 2022-11-07]

The oncogenic transcription factor FOXQ1 is a differential regulator of Wnt target genes.

Pizzolato G, Moparthi L, Söderholm S, Cantù C, Koch S

J. Cell. Sci. 135 (19) - [2022-10-01; online 2022-10-10]

Implementing precision medicine in a regionally organized healthcare system in Sweden.

Fioretos T, Wirta V, Cavelier L, ..., Edsjö A, Rosenquist R

Nat. Med. 28 (10) 1980-1982 [2022-10-00; online 2022-09-20]

Clinical Genomics Gothenburg [Collaborative] Clinical Genomics Linköping [Service] Clinical Genomics Stockholm [Collaborative] Clinical Genomics Umeå [Service] Clinical Genomics Uppsala [Collaborative]

Methylation associated with long- or short-term survival in glioblastoma patients from the Nordic phase 3 trial.

Łysiak M, Das J, Malmström A, Söderkvist P

Front Genet 13 (-) 934519 [2022-08-25; online 2022-08-25]

Bioinformatics Support for Computational Resources [Service] Clinical Genomics Linköping [Service]

Autosomal recessive congenital hereditary corneal dystrophy associated with a novel SLC4A11 mutation in two consanguineous Tunisian families.

Chibani Z, Abid IZ, Söderkvist P, Feki J, Aifa MH

Br J Ophthalmol 106 (2) 281-287 [2022-02-00; online 2021-04-20]

Genetic Alterations in Mitochondrial DNA Are Complementary to Nuclear DNA Mutations in Pheochromocytomas.

Tabebi M, Łysiak M, Dutta RK, ..., Gimm O, Söderkvist P

Cancers (Basel) 14 (2) - [2022-01-06; online 2022-01-06]

Loss of SDHB Induces a Metabolic Switch in the hPheo1 Cell Line toward Enhanced OXPHOS.

Tabebi M, Kumar Dutta R, Skoglund C, Söderkvist P, Gimm O

Int J Mol Sci 23 (1) - [2022-01-05; online 2022-01-05]

Year 2021

Increased diagnostic sensitivity of palpation-guided thyroid nodule fine-needle aspiration cytology by BRAF V600E-mutation analysis.

Gimm O, Ivansson K, Beka E, ..., Garvin S, Söderkvist P

J Pathol Clin Res 7 (6) 556-564 [2021-11-00; online 2021-06-22]

5´XP sRNA-seq: efficient identification of transcripts with and without 5´ phosphorylation reveals evolutionary conserved small RNA.

Kugelberg U, Nätt D, Skog S, Kutter C, Öst A

RNA Biol 18 (11) 1588-1599 [2021-11-00; online 2020-12-31]

Genetic Variant Score and Arrhythmogenic Right Ventricular Cardiomyopathy Phenotype in Plakophilin-2 Mutation Carriers.

Svensson A, Platonov PG, Haugaa KH, ..., Svendsen JH, Gunnarsson C

Cardiology 146 (6) 763-771 [2021-09-01; online 2021-09-01]

EBF1 and PAX5 control pro-B cell expansion via opposing regulation of the Myc gene.

Somasundaram R, Jensen CT, Tingvall-Gustafsson J, ..., Ungerbäck J, Sigvardsson M

Blood 137 (22) 3037-3049 [2021-06-03; online 2021-02-24]

B Lymphocyte Specification Is Preceded by Extensive Epigenetic Priming in Multipotent Progenitors.

Strid T, Okuyama K, Tingvall-Gustafsson J, ..., Ungerbäck J, Sigvardsson M

J. Immunol. 206 (11) 2700-2713 [2021-06-01; online 2021-05-21]

Complement-Opsonized HIV Modulates Pathways Involved in Infection of Cervical Mucosal Tissues: A Transcriptomic and Proteomic Study.

Svanberg C, Ellegård R, Crisci E, ..., Shankar EM, Larsson M

Front Immunol 12 (-) 625649 [2021-05-20; online 2021-05-20]

Bioinformatics Support for Computational Resources [Service] Clinical Genomics Linköping [Service]

X-chromosome variants are associated with aldosterone producing adenomas.

Dutta RK, Larsson M, Arnesen T, ..., Gimm O, Söderkvist P

Sci Rep 11 (1) 10562 [2021-05-18; online 2021-05-18]

Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics Linköping [Service]

Association between inflammasome-related polymorphisms and psoriatic arthritis.

Juneblad K, Kastbom A, Johansson L, ..., Söderkvist P, Alenius G

Scand. J. Rheumatol. 50 (3) 206-212 [2021-05-00; online 2020-12-10]

Deletions on Chromosome Y and Downregulation of the SRY Gene in Tumor Tissue Are Associated with Worse Survival of Glioblastoma Patients.

Łysiak M, Smits A, Roodakker KR, ..., Söderkvist P, Malmström A

Cancers (Basel) 13 (7) - [2021-03-31; online 2021-03-31]

Sex Disparities in MGMT Promoter Methylation and Survival in Glioblastoma: Further Evidence from Clinical Cohorts.

Smits A, Lysiak M, Magnusson A, ..., Söderkvist P, Malmström A

J Clin Med 10 (4) - [2021-02-03; online 2021-02-03]

Year 2020

Activation of RAS Signalling is Associated with Altered Cell Adhesion in Phaeochromocytoma.

Rossitti HM, Dutta RK, Larsson C, ..., Söderkvist P, Gimm O

Int J Mol Sci 21 (21) 8072 [2020-10-29; online 2020-10-29]

Bioinformatics Support for Computational Resources [Service] Clinical Genomics Linköping [Service]

ABCB1 single-nucleotide variants and survival in patients with glioblastoma treated with radiotherapy concomitant with temozolomide.

Malmström A, Łysiak M, Åkesson L, ..., Green H, Söderkvist P

Pharmacogenomics J. 20 (2) 213-219 [2020-04-00; online 2019-10-17]

Bioinformatics Support for Computational Resources [Service] Clinical Genomics Linköping [Service]

Do we really know who has an MGMT methylated glioma? Results of an international survey regarding use of MGMT analyses for glioma.

Malmström A, Łysiak M, Kristensen BW, ..., Henriksson R, Söderkvist P

Neurooncol Pract 7 (1) 68-76 [2020-01-00; online 2019-09-24]

Year 2019

Novel BEST1 gene mutations associated with two different forms of macular dystrophy in Tunisian families.

Chibani Z, Abid IZ, Molbaek A, ..., Feki J, Hmani-Aifa M

Clin Exp Ophthalmol 47 (8) 1063-1073 [2019-11-00; online 2019-07-24]

Assessment of genetic and non-genetic risk factors for venous thromboembolism in glioblastoma - The predictive significance of B blood group.

Heenkenda MK, Malmström A, Lysiak M, ..., Uppugunduri S, Osman A

Thromb. Res. 183 (-) 136-142 [2019-11-00; online 2019-10-22]

A somatic mutation in CLCN2 identified in a sporadic aldosterone-producing adenoma.

Dutta RK, Arnesen T, Heie A, ..., Söderkvist P, Gimm O

Eur. J. Endocrinol. 181 (5) K37-K41 [2019-11-00; online 2019-09-07]