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2. Additional file 1 of Case report: recurrent pituitary adenoma has increased load of somatic variants

Author

Peculis, Raitis, Balcere, Inga, Radovica-Spalvina, Ilze, Konrade, Ilze, Caune, Olivija, Megnis, Kaspars, Rovite, Vita, Stukens, Janis, Nazarovs, Jurijs, Breiksa, Austra, Kiecis, Aigars, Silamikelis, Ivars, Pirags, Valdis, and Klovins, Janis

Abstract

Additional file 1. Timeline following the CARE guidelines. Additional clinical data. A detailed description of Materials and Methods used in the study.

Published
2020
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3. Additional file 3 of Case report: recurrent pituitary adenoma has increased load of somatic variants

Author

Peculis, Raitis, Balcere, Inga, Radovica-Spalvina, Ilze, Konrade, Ilze, Caune, Olivija, Megnis, Kaspars, Rovite, Vita, Stukens, Janis, Nazarovs, Jurijs, Breiksa, Austra, Kiecis, Aigars, Silamikelis, Ivars, Pirags, Valdis, and Klovins, Janis

Subjects
Data_FILES
Abstract

Additional file 3. Document file (30 pages) describing alignment quality metrics for each sample (10 pages per sample).

Published
2020
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4. Additional file 2: of Genes reveal traces of common recent demographic history for most of the Uralic-speaking populations

Author

Tambets, Kristiina, Bayazit Yunusbayev, Hudjashov, Georgi, Anne-Mai IlumäE, Rootsi, Siiri, Honkola, Terhi, Vesakoski, Outi, Atkinson, Quentin, Skoglund, Pontus, Kushniarevich, Alena, Litvinov, Sergey, Maere Reidla, Metspalu, Ene, Saag, Lehti, Rantanen, Timo, Karmin, Monika, Jßri Parik, Zhadanov, Sergey, Gubina, Marina, Damba, Larisa, Bermisheva, Marina, Reisberg, Tuuli, Khadizhat Dibirova, Evseeva, Irina, Nelis, Mari, Klovins, Janis, Metspalu, Andres, Tþnu Esko, Balanovsky, Oleg, Balanovska, Elena, Khusnutdinova, Elza, Osipova, Ludmila, Voevoda, Mikhail, Villems, Richard, Kivisild, Toomas, and Metspalu, Mait

Abstract

Table S2. Ethnolinguistic characteristics of studied Uralic populations. (PDF 15 kb)

Published
2018
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5. Additional file 3: of Genes reveal traces of common recent demographic history for most of the Uralic-speaking populations

Author

Tambets, Kristiina, Bayazit Yunusbayev, Hudjashov, Georgi, Anne-Mai IlumäE, Rootsi, Siiri, Honkola, Terhi, Vesakoski, Outi, Atkinson, Quentin, Skoglund, Pontus, Kushniarevich, Alena, Litvinov, Sergey, Maere Reidla, Metspalu, Ene, Saag, Lehti, Rantanen, Timo, Karmin, Monika, Jßri Parik, Zhadanov, Sergey, Gubina, Marina, Damba, Larisa, Bermisheva, Marina, Reisberg, Tuuli, Khadizhat Dibirova, Evseeva, Irina, Nelis, Mari, Klovins, Janis, Metspalu, Andres, Tþnu Esko, Balanovsky, Oleg, Balanovska, Elena, Khusnutdinova, Elza, Osipova, Ludmila, Voevoda, Mikhail, Villems, Richard, Kivisild, Toomas, and Metspalu, Mait

Abstract

Figure S1. Principal component analysis of the studied Uralic-speaking populations in Eurasian context. Figure S2. FST distances of the studied Uralic-speaking populations in the global context. Figure S3. ADMIXTURE analysis. Figure S4. D-statistics. Figure S5. fineSTRUCTURE tree. Figure S6. fineSTRUCTURE heatmap. Figure S7. Admixture dates of ALDER. Figure S8. Outgroup f3 test between modern and ancient samples. Figure S9. Outgroup f3 results plotted pairwise against each other. Figure S10. Admixture graphs. Figure S11. Phylogenetic network of Y chromosome hg Q. Figure S12. Trees constructed from linguistic and genetic data of Uralic peoples. Figure S13. Comparison of autosomal and X chromosomal outgroup f3 statistics for Estonians, Udmurts and Khanty. (PDF 11550 kb)

Published
2018
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6. Additional file 12: of Genes reveal traces of common recent demographic history for most of the Uralic-speaking populations

Author

Tambets, Kristiina, Bayazit Yunusbayev, Hudjashov, Georgi, Anne-Mai IlumäE, Rootsi, Siiri, Honkola, Terhi, Vesakoski, Outi, Atkinson, Quentin, Skoglund, Pontus, Kushniarevich, Alena, Litvinov, Sergey, Maere Reidla, Metspalu, Ene, Saag, Lehti, Rantanen, Timo, Karmin, Monika, Jßri Parik, Zhadanov, Sergey, Gubina, Marina, Damba, Larisa, Bermisheva, Marina, Reisberg, Tuuli, Khadizhat Dibirova, Evseeva, Irina, Nelis, Mari, Klovins, Janis, Metspalu, Andres, Tþnu Esko, Balanovsky, Oleg, Balanovska, Elena, Khusnutdinova, Elza, Osipova, Ludmila, Voevoda, Mikhail, Villems, Richard, Kivisild, Toomas, and Metspalu, Mait

Abstract

Table S11. Details of Globetrotter regional analysis. (PDF 50 kb)

Published
2018
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8. Additional file 1: of Many obesity-associated SNPs strongly associate with DNA methylation changes at proximal promoters and enhancers

Author

Voisin, Sarah, Almén, Markus, Zheleznyakova, Galina, Lundberg, Lina, Zarei, Sanaz, Castillo, Sandra, Eriksson, Fia, Nilsson, Emil, Blüher, Matthias, Böttcher, Yvonne, Kovacs, Peter, Klovins, Janis, Rask-Andersen, Mathias, and Schiöth, Helgi

Abstract

Description of the 52 investigated SNPs. SNPs in bold are SNPs for which significant associations with DNA methylation were found. *Number in parenthesis = number of individuals with missing genotypes. (DOCX 108 kb)

Published
2015
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9. Additional file 6: of Many obesity-associated SNPs strongly associate with DNA methylation changes at proximal promoters and enhancers

Author

Voisin, Sarah, Almén, Markus, Zheleznyakova, Galina, Lundberg, Lina, Zarei, Sanaz, Castillo, Sandra, Eriksson, Fia, Nilsson, Emil, Blüher, Matthias, Böttcher, Yvonne, Kovacs, Peter, Klovins, Janis, Rask-Andersen, Mathias, and Schiöth, Helgi

Subjects
nervous system
Abstract

Chromatin states at the genomic position of the 107 CpGs, in the 11 investigated tissues. AN adipose nuclei, BrainAC brain anterior caudate, BrainAG brain angular gyrus, BrainCG brain cingulate gyrus, BrainHIPPO brain hippocampus, BrainITL brain inferior temporal lobe, BrainSN brain substantia nigra, PBMC peripheral blood mononuclear primary cells, PI pancreatic islets, SM skeletal muscle. (DOCX 36 kb)

Published
2015
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10. Additional file 8: of Many obesity-associated SNPs strongly associate with DNA methylation changes at proximal promoters and enhancers

Author

Voisin, Sarah, Almén, Markus, Zheleznyakova, Galina, Lundberg, Lina, Zarei, Sanaz, Castillo, Sandra, Eriksson, Fia, Nilsson, Emil, Blüher, Matthias, Böttcher, Yvonne, Kovacs, Peter, Klovins, Janis, Rask-Andersen, Mathias, and Schiöth, Helgi

Subjects
otorhinolaryngologic diseases
Abstract

eQTLs found in four eQTL databases for each of the significant 28 SNPs. 1Investigated tissues: subcutaneous adipose tissue, aorta artery, tibial artery, esophagus mucosa, esophagus muscularis, heart left ventricle, lung, skeletal muscle, tibial nerve, sun-exposed skin, lower leg, stomach, thyroid, whole blood. 2Investigated tissues/cell lines: lymphoblastoid cell line (LCL), liver, monocytes, fibroblasts, T cells, brain cortex. 3Investigated tissues/cell lines: lymphoblastoid cell line (LCL), liver, brain cerebellum, brain frontal cortex, brain temporal cortex, brain pons. (DOCX 25 kb)

Published
2015
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11. Additional file 10: of Many obesity-associated SNPs strongly associate with DNA methylation changes at proximal promoters and enhancers

Author

Voisin, Sarah, Almén, Markus, Zheleznyakova, Galina, Lundberg, Lina, Zarei, Sanaz, Castillo, Sandra, Eriksson, Fia, Nilsson, Emil, Blüher, Matthias, Böttcher, Yvonne, Kovacs, Peter, Klovins, Janis, Rask-Andersen, Mathias, and Schiöth, Helgi

Abstract

Replication of the 107 SNP-CpG associations found in blood. *Coefficient of the linear model associated with the obesity-associated SNP: positive for increased methylation with presence of risk allele; coefficients are calculated using M values. Coefficients with a hash symbol correspond to associations with raw p value

Published
2015
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12. Additional file 4: of Many obesity-associated SNPs strongly associate with DNA methylation changes at proximal promoters and enhancers

Author

Voisin, Sarah, Almén, Markus, Zheleznyakova, Galina, Lundberg, Lina, Zarei, Sanaz, Castillo, Sandra, Eriksson, Fia, Nilsson, Emil, Blüher, Matthias, Böttcher, Yvonne, Kovacs, Peter, Klovins, Janis, Rask-Andersen, Mathias, and Schiöth, Helgi

Abstract

Description of the 107 associated CpGs found in blood and their annotation. *Coefficient of the linear model associated with the obesity-associated SNP: positive for increased methylation with presence of risk allele; coefficients are calculated using M values. (DOCX 38 kb)

Published
2015
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13. Additional file 3: of Many obesity-associated SNPs strongly associate with DNA methylation changes at proximal promoters and enhancers

Author

Voisin, Sarah, Almén, Markus, Zheleznyakova, Galina, Lundberg, Lina, Zarei, Sanaz, Castillo, Sandra, Eriksson, Fia, Nilsson, Emil, Blüher, Matthias, Böttcher, Yvonne, Kovacs, Peter, Klovins, Janis, Rask-Andersen, Mathias, and Schiöth, Helgi

Abstract

Cell lines and target transcription factors of the ChIA-PET libraries. #Cell types are described in ENCODE project [89]. *Target transcription factors and their corresponding antibodies are described in the ENCODE project [90]. (DOCX 11 kb)

Published
2015
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14. Additional file 2: of Significantly altered peripheral blood cell DNA methylation profile as a result of immediate effect of metformin use in healthy individuals

Author

Elbere, Ilze, Silamikelis, Ivars, Ustinova, Monta, Kalnina, Ineta, Zaharenko, Linda, Peculis, Raitis, Konrade, Ilze, Ciuculete, Diana, Zhukovsky, Christina, Gudra, Dita, Radovica-Spalvina, Ilze, Davids Fridmanis, Pirags, Valdis, Schiรถth, Helgi, and Klovins, Janis

Subjects
3. Good health
Abstract

List of inclusion/exclusion criteria. (DOCX 14 kb)

15. Additional file 2: of Significantly altered peripheral blood cell DNA methylation profile as a result of immediate effect of metformin use in healthy individuals

Author

Elbere, Ilze, Silamikelis, Ivars, Ustinova, Monta, Kalnina, Ineta, Zaharenko, Linda, Peculis, Raitis, Konrade, Ilze, Ciuculete, Diana, Zhukovsky, Christina, Gudra, Dita, Radovica-Spalvina, Ilze, Davids Fridmanis, Pirags, Valdis, Schiรถth, Helgi, and Klovins, Janis

Subjects
3. Good health
Abstract

List of inclusion/exclusion criteria. (DOCX 14 kb)

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