Publications 2010

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140 publications

PubMed DOI Crossref
Tryptophan hydroxylase gene 1 (TPH1) variants associated with cerebrospinal fluid 5-hydroxyindole acetic acid and homovanillic acid concentrations in healthy volunteers.
Andreou D, Saetre P, ..., Terenius L, Jönsson EG
Psychiatry Res 180 (2-3) 63-67 [2010-12-30; online 2010-06-29]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Defining the transcriptome and proteome in three functionally different human cell lines.
Lundberg E, Fagerberg L, ..., Mann M, Uhlen M
Mol. Syst. Biol. 6 (-) 450 [2010-12-21; online 2010-12-24]
Cell Profiling NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Unbalanced translocation 9;16 in two children with dysmorphic features, and severe developmental delay: Evidence of cross-over within derivative chromosome 9 in patient #1.
Zambrano RM, Wohler E, ..., Cutting GR, Batista DA
Eur J Med Genet 54 (2) 189-193 [2010-12-07; online 2010-12-07]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Analysis of transcript and protein overlap in a human osteosarcoma cell line.
Klevebring D, Fagerberg L, ..., Uhlén M, Lundeberg J
BMC Genomics 11 (-) 684 [2010-12-02; online 2010-12-02]
Cell Profiling NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Associations of gene sequence variation and serum levels of C-reactive protein and interleukin-6 with Alzheimer's disease and dementia.
Eriksson UK, Pedersen NL, ..., Dickman PW, Bennet AM
J. Alzheimers Dis. 23 (2) 361-369 [2010-12-01; online 2010-12-01]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
A pyrosequencing study in twins shows that gastrointestinal microbial profiles vary with inflammatory bowel disease phenotypes.
Willing BP, Dicksved J, ..., Jansson JK, Engstrand L
Gastroenterology 139 (6) 1844-1854.e1 [2010-12-00; online 2010-09-08]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Distinct gene expression profiles in subsets of chronic lymphocytic leukemia expressing stereotyped IGHV4-34 B-cell receptors.
Marincevic M, Mansouri M, ..., Stamatopoulos K, Rosenquist R
Haematologica 95 (12) 2072-2079 [2010-12-00; online 2010-08-31]
Array and Analysis Facility NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
SOX10 expression in superficial spreading and nodular malignant melanomas.
Agnarsdóttir M, Sooman L, ..., Uhlen M, Hedstrand H
Melanoma Res. 20 (6) 468-478 [2010-12-00; online 2010-10-05]
Tissue Profiling
PubMed DOI Crossref
The genetic architecture of domestication in the chicken: effects of pleiotropy and linkage.
Wright D, Rubin CJ, ..., Jensen P, Andersson L
Mol. Ecol. 19 (23) 5140-5156 [2010-12-00; online 2010-11-03]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
High frequency of p16(INK4A) promoter methylation in NRAS-mutated cutaneous melanoma.
Jonsson A, Tuominen R, ..., Hansson J, Egyhazi S
J. Invest. Dermatol. 130 (12) 2809-2817 [2010-12-00; online 2010-08-13]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Interactions of dietary whole-grain intake with fasting glucose- and insulin-related genetic loci in individuals of European descent: a meta-analysis of 14 cohort studies.
Nettleton JA, McKeown NM, ..., Franks PW, Meigs JB
Diabetes Care 33 (12) 2684-2691 [2010-12-00; online 2010-08-10]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
A high-density scan of the Z chromosome in Ficedula flycatchers reveals candidate loci for diversifying selection.
Backström N, Lindell J, ..., Saetre GP, Ellegren H
Evolution 64 (12) 3461-3475 [2010-12-00; online 2010-07-16]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
SNPs in genes coding for ROS metabolism and signalling in association with docetaxel clearance.
Edvardsen H, Brunsvig PF, ..., Aamdal S, Kristensen VN
Pharmacogenomics J. 10 (6) 513-523 [2010-12-00; online 2010-02-17]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Towards a knowledge-based Human Protein Atlas.
Uhlen M, Oksvold P, ..., Björling L, Ponten F
Nat. Biotechnol. 28 (12) 1248-1250 [2010-12-00; online 2010-12-09]
Cell Profiling Protein and peptide arrays
PubMed DOI Crossref
The obesity related gene, FTO, interacts with APOE, and is associated with Alzheimer's disease risk: a prospective cohort study.
Keller L, Xu W, ..., Fratiglioni L, Graff C
J. Alzheimers Dis. 23 (3) 461-469 [2010-11-26; online 2010-11-26]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
SNP detection and prediction of variability between chicken lines using genome resequencing of DNA pools.
Marklund S, Carlborg O
BMC Genomics 11 (-) 665 [2010-11-25; online 2010-11-25]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Gene expression profiling and chromatin immunoprecipitation identify DBN1, SETMAR and HIG2 as direct targets of SOX11 in mantle cell lymphoma.
Wang X, Björklund S, ..., Christensson B, Sander B
PLoS ONE 5 (11) e14085 [2010-11-22; online 2010-11-22]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Meta-analysis identifies 13 new loci associated with waist-hip ratio and reveals sexual dimorphism in the genetic basis of fat distribution.
Heid IM, Jackson AU, ..., Mohlke KL, Lindgren CM
Nat. Genet. 42 (11) 949-960 [2010-11-00; online 2010-10-12]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Meiofauna reduces bacterial mineralization of naphthalene in marine sediment.
Näslund J, Nascimento FJ, Gunnarsson JS
ISME J 4 (11) 1421-1430 [2010-11-00; online 2010-05-14]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Creation of an antibody-based subcellular protein atlas.
Lundberg E, Uhlén M
Proteomics 10 (22) 3984-3996 [2010-11-00; online 2010-07-22]
Cell Profiling
PubMed DOI Crossref
Toward next generation plasma profiling via heat-induced epitope retrieval and array-based assays.
Schwenk JM, Igel U, ..., Nilsson P, Uhlen M
Mol. Cell Proteomics 9 (11) 2497-2507 [2010-11-00; online 2010-08-05]
Protein and peptide arrays
PubMed DOI Crossref
Common variants in the ATP2B1 gene are associated with susceptibility to hypertension: the Japanese Millennium Genome Project.
Tabara Y, Kohara K, ..., Ueshima H, Miki T
Hypertension 56 (5) 973-980 [2010-11-00; online 2010-10-06]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Four novel Loci (19q13, 6q24, 12q24, and 5q14) influence the microcirculation in vivo.
Ikram MK, Sim X, ..., Vingerling JR, Wong TY
PLoS Genet. 6 (10) e1001184 [2010-10-28; online 2010-10-28]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Association analysis of PALB2 and BRCA2 in bipolar disorder and schizophrenia in a scandinavian case-control sample.
Tesli M, Athanasiu L, ..., Djurovic S, Andreassen OA
Am. J. Med. Genet. B Neuropsychiatr. Genet. 153B (7) 1276-1282 [2010-10-05; online 2010-09-28]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Sensitive detection of Aβ protofibrils by proximity ligation--relevance for Alzheimer's disease.
Kamali-Moghaddam M, Pettersson FE, ..., Lannfelt L, Landegren U
BMC Neurosci 11 (-) 124 [2010-10-05; online 2010-10-05]
PLA Proteomics
PubMed DOI Crossref
Dissolution rate and apparent solubility of poorly soluble drugs in biorelevant dissolution media.
Fagerberg JH, Tsinman O, ..., Avdeef A, Bergström CA
Mol. Pharm. 7 (5) 1419-1430 [2010-10-04; online 2010-05-29]
ADME of Therapeutics (UDOPP) Uppsala Drug Optimization and Pharmaceutical Profiling (UDOPP)
PubMed DOI Crossref
A modified physiological BCS for prediction of intestinal absorption in drug discovery.
Zaki NM, Artursson P, Bergström CA
Mol. Pharm. 7 (5) 1478-1487 [2010-10-04; online 2010-08-26]
ADME of Therapeutics (UDOPP) Uppsala Drug Optimization and Pharmaceutical Profiling (UDOPP)
PubMed DOI Crossref
An exploratory model for G x E interaction on hippocampal volume in schizophrenia; obstetric complications and hypoxia-related genes.
Haukvik UK, Saetre P, ..., Jönsson EG, Agartz I
Prog. Neuropsychopharmacol. Biol. Psychiatry 34 (7) 1259-1265 [2010-10-01; online 2010-07-20]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Brain gene expression in relation to fearfulness in female red junglefowl (Gallus gallus).
Jöngren M, Westander J, Nätt D, Jensen P
Genes Brain Behav. 9 (7) 751-758 [2010-10-00; online 2010-07-06]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Somatic mosaicism for chromosome X and Y aneuploidies in monozygotic twins heterozygous for sickle cell disease mutation.
Razzaghian HR, Shahi MH, ..., Westerman MP, Dumanski JP
Am. J. Med. Genet. A 152A (10) 2595-2598 [2010-10-00; online 2010-08-25]
NGI Uppsala (SNP&SEQ Technology Platform)
DOI Crossref
Lycosid spiders and alternative food: Feeding behavior and implications for biological control
Kuusk AK, Ekbom B
Biological Control 55 (1) 20-26 [2010-10-00; online 2010-10-00]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Linkage to 20p13 including the ANGPT4 gene in families with mixed Alzheimer's disease and vascular dementia.
Sillén A, Brohede J, ..., Winblad B, Graff C
J. Hum. Genet. 55 (10) 649-655 [2010-10-00; online 2010-07-03]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
A chromatin-remodeling protein is a component of fission yeast mediator.
Khorosjutina O, Wanrooij PH, ..., Ekwall K, Gustafsson CM
J. Biol. Chem. 285 (39) 29729-29737 [2010-09-24; online 2010-07-14]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
A trans-acting locus regulates an anti-viral expression network and type 1 diabetes risk.
Heinig M, Petretto E, ..., Hubner N, Cook SA
Nature 467 (7314) 460-464 [2010-09-23; online 2010-09-10]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Pleiotropy in the presence of allelic heterogeneity: alternative genetic models for the influence of APOE on serum LDL, CSF amyloid-β42, and dementia.
Bennet AM, Reynolds CA, ..., Pedersen NL, Prince JA
J. Alzheimers Dis. 22 (1) 129-134 [2010-09-18; online 2010-09-18]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Trisomy and triploidy are sources of embryo mortality in the zebra finch.
Forstmeier W, Ellegren H
Proc. Biol. Sci. 277 (1694) 2655-2660 [2010-09-07; online 2010-05-07]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Association of IFIH1 and other autoimmunity risk alleles with selective IgA deficiency.
Ferreira RC, Pan-Hammarström Q, ..., Behrens TW, Hammarström L
Nat. Genet. 42 (9) 777-780 [2010-09-00; online 2010-08-10]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Profiling protein expression and interactions: proximity ligation as a tool for personalized medicine.
Blokzijl A, Friedman M, Pontén F, Landegren U
J. Intern. Med. 268 (3) 232-245 [2010-09-00; online 2010-08-11]
PLA Proteomics
PubMed DOI Crossref
Small-molecule screening using a whole-cell viral replication reporter gene assay identifies 2-{[2-(benzoylamino)benzoyl]amino}-benzoic acid as a novel antiadenoviral compound.
Andersson EK, Strand M, ..., Mei YF, Wadell G
Antimicrob. Agents Chemother. 54 (9) 3871-3877 [2010-09-00; online 2010-06-30]
Laboratories for Chemical Biology Umeå (LCBU)
PubMed DOI Crossref
High-density screening reveals a different spectrum of genomic aberrations in chronic lymphocytic leukemia patients with 'stereotyped' IGHV3-21 and IGHV4-34 B-cell receptors.
Marincevic M, Cahill N, ..., Stamatopoulos K, Rosenquist R
Haematologica 95 (9) 1519-1525 [2010-09-00; online 2010-04-28]
Array and Analysis Facility
PubMed DOI Crossref
Production of ectomycorrhizal mycelium peaks during canopy closure in Norway spruce forests.
Wallander H, Johansson U, ..., Brandström Durling M, Lindahl BD
New Phytol. 187 (4) 1124-1134 [2010-09-00; online 2010-06-22]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Expression of the RNA-binding protein RBM3 is associated with a favourable prognosis and cisplatin sensitivity in epithelial ovarian cancer.
Ehlén A, Brennan DJ, ..., Pontén F, Jirström K
J Transl Med 8 (-) 78 [2010-08-20; online 2010-08-20]
Tissue Profiling
PubMed
Familial cutaneous melanoma.
Hansson J
Adv. Exp. Med. Biol. 685 (-) 134-145 [2010-08-07; online 2010-08-07]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Niemann-Pick C1 modulates hepatic triglyceride metabolism and its genetic variation contributes to serum triglyceride levels.
Uronen RL, Lundmark P, ..., Syvänen AC, Ikonen E
Arterioscler. Thromb. Vasc. Biol. 30 (8) 1614-1620 [2010-08-00; online 2010-05-22]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Topoisomerase I amplification in melanoma is associated with more advanced tumours and poor prognosis.
Ryan D, Rafferty M, ..., Dervan PA, Gallagher WM
Pigment Cell Melanoma Res 23 (4) 542-553 [2010-08-00; online 2010-05-15]
Tissue Profiling
PubMed DOI Crossref
Sex-linked barring in chickens is controlled by the CDKN2A /B tumour suppressor locus.
Hellström AR, Sundström E, ..., Kerje S, Andersson L
Pigment Cell Melanoma Res 23 (4) 521-530 [2010-08-00; online 2010-04-09]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
No evidence for Z-chromosome rearrangements between the pied flycatcher and the collared flycatcher as judged by gene-based comparative genetic maps.
Backström N, Palkopoulou E, Qvarnström A, Ellegren H
Mol. Ecol. 19 (16) 3394-3405 [2010-08-00; online 2010-07-31]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
The role of IL-1beta in reduced IL-7 production by stromal and epithelial cells: a model for impaired T-cell numbers in the gut during HIV-1 infection.
Thang PH, Ruffin N, ..., Vivar N, Chiodi F
J. Intern. Med. 268 (2) 181-193 [2010-08-00; online 2010-05-26]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Genome-wide association study identifies a sequence variant within the DAB2IP gene conferring susceptibility to abdominal aortic aneurysm.
Gretarsdottir S, Baas AF, ..., Thorsteinsdottir U, Stefansson K
Nat. Genet. 42 (8) 692-697 [2010-08-00; online 2010-07-14]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Association of genetic risk variants with expression of proximal genes identifies novel susceptibility genes for cardiovascular disease.
Folkersen L, van't Hooft F, ..., Eriksson P, BiKE and ASAP study groups
Circ Cardiovasc Genet 3 (4) 365-373 [2010-08-00; online 2010-06-22]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Identification of novel exons and transcribed regions by chimpanzee transcriptome sequencing.
Wetterbom A, Ameur A, ..., Gyllensten U, Cavelier L
Genome Biol. 11 (7) R78 [2010-07-23; online 2010-07-23]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
A functional polymorphism in the HMGCR promoter affects transcriptional activity but not the risk for Alzheimer disease in Swedish populations.
Keller L, Murphy C, ..., Graff C, Meaney S
Brain Res. 1344 (-) 185-191 [2010-07-16; online 2010-05-11]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Induction patterns of new CYP1 genes in environmentally exposed rainbow trout.
Jönsson ME, Gao K, ..., Goldstone JV, Brandt I
Aquat. Toxicol. 98 (4) 311-321 [2010-07-15; online 2010-04-08]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Different SNP combinations in the GCH1 gene and use of labor analgesia.
Dabo F, Grönbladh A, ..., Sundström-Poromaa I, Akerud H
Mol Pain 6 (-) 41 [2010-07-15; online 2010-07-15]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Genome-wide analysis of ETS-family DNA-binding in vitro and in vivo.
Wei GH, Badis G, ..., Bulyk ML, Taipale J
EMBO J. 29 (13) 2147-2160 [2010-07-07; online 2010-06-03]
Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
Topoisomerase I regulates open chromatin and controls gene expression in vivo.
Durand-Dubief M, Persson J, ..., Hartsuiker E, Ekwall K
EMBO J. 29 (13) 2126-2134 [2010-07-07; online 2010-06-08]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Dynamics of HIV-1 quasispecies during antiviral treatment dissected using ultra-deep pyrosequencing.
Hedskog C, Mild M, ..., Andersson B, Albert J
PLoS ONE 5 (7) e11345 [2010-07-07; online 2010-07-07]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Classification of DNA sequences using Bloom filters.
Stranneheim H, Käller M, ..., Arvestad L, Lundeberg J
Bioinformatics 26 (13) 1595-1600 [2010-07-01; online 2010-05-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Subcellular distribution and expression of prenylated Rab acceptor 1 domain family, member 2 (PRAF2) in malignant glioma: Influence on cell survival and migration.
Borsics T, Lundberg E, ..., Wester K, Bachmann AS
Cancer Sci. 101 (7) 1624-1631 [2010-07-00; online 2010-04-24]
Cell Profiling
PubMed DOI Crossref
Tissue factor pathway inhibitor-2 is induced by fluid shear stress in vascular smooth muscle cells and affects cell proliferation and survival.
Ekstrand J, Razuvaev A, ..., Roy J, Hedin U
J. Vasc. Surg. 52 (1) 167-175 [2010-07-00; online 2010-06-12]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Gene expression analysis in hypoplastic lungs in the nitrofen model of congenital diaphragmatic hernia.
Burgos CM, Uggla AR, ..., Frenckner B, Nord M
J. Pediatr. Surg. 45 (7) 1445-1454 [2010-07-00; online 2010-07-20]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Revolutionizing membrane protein overexpression in bacteria.
Schlegel S, Klepsch M, ..., Slotboom DJ, de Gier JW
Microb Biotechnol 3 (4) 403-411 [2010-07-00; online 2009-09-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Characterization of the RNA content of chromatin.
Mondal T, Rasmussen M, ..., Isaksson A, Kanduri C
Genome Res. 20 (7) 899-907 [2010-07-00; online 2010-04-21]
Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Ontogenetic complexity of sexual dimorphism and sex-specific selection.
Mank JE, Nam K, Brunström B, Ellegren H
Mol. Biol. Evol. 27 (7) 1570-1578 [2010-07-00; online 2010-02-10]
Array and Analysis Facility
PubMed DOI Crossref
Genetic evidence of multiple loci in dystocia--difficult labour.
Algovik M, Kivinen K, ..., Westgren M, Kere J
BMC Med. Genet. 11 (-) 105 [2010-06-30; online 2010-06-30]
Bioinformatics and Expression Analysis (BEA)
PubMed
HIV-1 exposed uninfected men who have sex with men have increased levels of salivary CC-chemokines associated with sexual behavior.
Hasselrot K, Bratt G, ..., Sandström E, Broliden K
AIDS 24 (10) 1569-1575 [2010-06-19; online 2010-06-16]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Genome-wide mapping of estrogen receptor-beta-binding regions reveals extensive cross-talk with transcription factor activator protein-1.
Zhao C, Gao H, ..., Gustafsson JA, Dahlman-Wright K
Cancer Res. 70 (12) 5174-5183 [2010-06-15; online 2010-05-27]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Interstitial Deletions at 6q14.1-q15 Associated with Obesity, Developmental Delay and a Distinct Clinical Phenotype.
Wentzel C, Lynch SA, ..., Annerén G, Thuresson AC
Mol Syndromol 1 (2) 75-81 [2010-06-09; online 2010-06-09]
Array and Analysis Facility NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Analysis of oestrogen regulation of alpha-, beta- and gamma-secretase gene and protein expression in cultured human neuronal and glial cells.
Nord LC, Sundqvist J, Andersson E, Fried G
Neurodegener Dis 7 (6) 349-364 [2010-06-04; online 2010-06-04]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Genetic diversity and differentiation among Lagopus lagopus populations in Scandinavia and Scotland: evolutionary significant units confirmed by SNP markers.
Quintela M, Berlin S, Wang B, Höglund J
Mol. Ecol. 19 (12) 2380-2393 [2010-06-01; online 2010-07-20]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Tissue tumor marker expression in smokers, including serum cotinine concentrations, in women with cervical intraepithelial neoplasia or normal squamous cervical epithelium.
Samir R, Asplund A, ..., Pekar G, Hellberg D
Am. J. Obstet. Gynecol. 202 (6) 579.e1-579.e7 [2010-06-00; online 2010-01-12]
Tissue Profiling
PubMed DOI Crossref
Multiplexed massively parallel SELEX for characterization of human transcription factor binding specificities.
Jolma A, Kivioja T, ..., Ukkonen E, Taipale J
Genome Res. 20 (6) 861-873 [2010-06-00; online 2010-04-10]
Karolinska High Throughput Center (KHTC) NGI Uppsala (SNP&SEQ Technology Platform)
PubMed
Alpha terpineol: a potential anticancer agent which acts through suppressing NF-kappaB signalling.
Hassan SB, Gali-Muhtasib H, Göransson H, Larsson R
Anticancer Res. 30 (6) 1911-1919 [2010-06-00; online 2010-07-24]
Array and Analysis Facility
PubMed DOI Crossref
Improving Bayesian credibility intervals for classifier error rates using maximum entropy empirical priors.
Gustafsson MG, Wallman M, ..., Andersson CR, Isaksson A
Artif Intell Med 49 (2) 93-104 [2010-06-00; online 2010-03-30]
Array and Analysis Facility
PubMed DOI Crossref
A variant near the interleukin-6 gene is associated with fat mass in Caucasian men.
Andersson N, Strandberg L, ..., Jansson JO, Osteoporotic Fractures in Men MrOS Research Group
Int J Obes (Lond) 34 (6) 1011-1019 [2010-06-00; online 2010-02-17]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Genetic analysis of metabolic traits in an intercross between body weight-selected chicken lines.
Ek W, Strömstedt L, ..., Andersson L, Carlborg O
Physiol. Genomics 42 (1) 20-22 [2010-06-00; online 2010-03-25]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed
Antibody-based proteomics for discovery and exploration of proteins expressed in pancreatic islets.
Lindskog C, Asplund A, ..., Korsgren O, Ponten F
Discov Med 9 (49) 565-578 [2010-06-00; online 2010-07-01]
Tissue Profiling
PubMed DOI Crossref
Genetics of HPA-axis, depression and suicidality.
Wasserman D, Wasserman J, Sokolowski M
Eur. Psychiatry 25 (5) 278-280 [2010-06-00; online 2010-05-07]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Molecular make-up of the glomerular filtration barrier.
Patrakka J, Tryggvason K
Biochem. Biophys. Res. Commun. 396 (1) 164-169 [2010-05-21; online 2010-05-25]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Analysis of lipid pathway genes indicates association of sequence variation near SREBF1/TOM1L2/ATPAF2 with dementia risk.
Reynolds CA, Hong MG, ..., Pedersen NL, Prince JA
Hum. Mol. Genet. 19 (10) 2068-2078 [2010-05-15; online 2010-02-20]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Adipose tissue pathways involved in weight loss of cancer cachexia.
Dahlman I, Mejhert N, ..., Rydén M, Arner P
Br. J. Cancer 102 (10) 1541-1548 [2010-05-11; online 2010-04-22]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Genetic risk factors in lupus nephritis and IgA nephropathy--no support of an overlap.
Vuong MT, Gunnarsson I, ..., Jacobson SH, Padyukov L
PLoS ONE 5 (5) e10559 [2010-05-10; online 2010-05-10]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Chd1 remodelers maintain open chromatin and regulate the epigenetics of differentiation.
Persson J, Ekwall K
Exp. Cell Res. 316 (8) 1316-1323 [2010-05-01; online 2010-03-10]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Gene-specific and global methylation patterns predict outcome in patients with acute myeloid leukemia.
Deneberg S, Grövdal M, ..., Hellström-Lindberg E, Lehmann S
Leukemia 24 (5) 932-941 [2010-05-00; online 2010-03-20]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Abundance and expression of enantioselective rdpA and sdpA dioxygenase genes during degradation of the racemic herbicide (R,S)-2-(2,4-dichlorophenoxy)propionate in soil.
Paulin MM, Nicolaisen MH, Sørensen J
Appl. Environ. Microbiol. 76 (9) 2873-2883 [2010-05-00; online 2010-03-23]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Detailed physiologic characterization reveals diverse mechanisms for novel genetic Loci regulating glucose and insulin metabolism in humans.
Ingelsson E, Langenberg C, ..., Florez JC, MAGIC investigators
Diabetes 59 (5) 1266-1275 [2010-05-00; online 2010-02-27]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed
The impact of RNA standardization and heterogeneous gene expression on the results of cDNA array of human breast carcinoma.
Khoshnoud R, He Q, ..., Rutqvist LE, Skog S
Int. J. Mol. Med. 25 (5) 735-741 [2010-05-00; online 2010-04-08]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Mapping of the fibroblast growth factors in human white adipose tissue.
Mejhert N, Galitzky J, ..., Arner P, Rydén M
J. Clin. Endocrinol. Metab. 95 (5) 2451-2457 [2010-05-00; online 2010-03-17]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
A STAT4 risk allele is associated with ischaemic cerebrovascular events and anti-phospholipid antibodies in systemic lupus erythematosus.
Svenungsson E, Gustafsson J, ..., Syvänen AC, Rönnblom L
Ann. Rheum. Dis. 69 (5) 834-840 [2010-05-00; online 2009-09-19]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Variation in STAT4 is associated with systemic lupus erythematosus in a Finnish family cohort.
Hellquist A, Sandling JK, ..., Syvänen AC, Kere J
Ann. Rheum. Dis. 69 (5) 883-886 [2010-05-00; online 2009-09-01]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
A single fixation protocol for proteome-wide immunofluorescence localization studies.
Stadler C, Skogs M, ..., Uhlén M, Lundberg E
J Proteomics 73 (6) 1067-1078 [2010-04-18; online 2009-11-10]
Cell Profiling
PubMed DOI Crossref
Increased throughput by parallelization of library preparation for massive sequencing.
Lundin S, Stranneheim H, ..., Klevebring D, Lundeberg J
PLoS ONE 5 (4) e10029 [2010-04-06; online 2010-04-06]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Tumour-specific HMG-CoAR is an independent predictor of recurrence free survival in epithelial ovarian cancer.
Brennan DJ, Brändstedt J, ..., O'Herlihy C, Jirstrom K
BMC Cancer 10 (-) 125 [2010-04-01; online 2010-04-01]
Tissue Profiling
PubMed DOI Crossref
The recombination landscape of the zebra finch Taeniopygia guttata genome.
Backström N, Forstmeier W, ..., Kempenaers B, Ellegren H
Genome Res. 20 (4) 485-495 [2010-04-00; online 2010-03-31]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
ELMOD2, a candidate gene for idiopathic pulmonary fibrosis, regulates antiviral responses.
Pulkkinen V, Bruce S, ..., Matikainen S, Kere J
FASEB J. 24 (4) 1167-1177 [2010-04-00; online 2009-12-08]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Reaction mechanism of 5,8-linoleate diol synthase, 10R-dioxygenase, and 8,11-hydroperoxide isomerase of Aspergillus clavatus.
Jernerén F, Garscha U, ..., Hamberg M, Oliw EH
Biochim. Biophys. Acta 1801 (4) 503-507 [2010-04-00; online 2010-01-05]
NGI Uppsala (Uppsala Genome Center)
PubMed
Increased serum progesterone and estradiol correlate to increased COX-2 tissue expression in cervical intraepithelial neoplasia.
Samir R, Tot T, ..., Pekar G, Hellberg D
Anticancer Res. 30 (4) 1217-1222 [2010-04-00; online 2010-06-10]
Tissue Profiling
PubMed DOI Crossref
Copy number variation, chromosome rearrangement, and their association with recombination during avian evolution.
Völker M, Backström N, ..., Ellegren H, Griffin DK
Genome Res. 20 (4) 503-511 [2010-04-00; online 2010-03-31]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Linkage and genome-wide association analysis of obesity-related phenotypes: association of weight with the MGAT1 gene.
Johansson A, Marroni F, ..., Gyllensten U, EUROSPAN Consortium
Obesity (Silver Spring) 18 (4) 803-808 [2010-04-00; online 2009-10-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Novel associations of multiple genetic loci with plasma levels of factor VII, factor VIII, and von Willebrand factor: The CHARGE (Cohorts for Heart and Aging Research in Genome Epidemiology) Consortium.
Smith NL, Chen MH, ..., Tang W, O'Donnell CJ
Circulation 121 (12) 1382-1392 [2010-03-30; online 2010-03-17]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Genome-wide characterisation of the Gcn5 histone acetyltransferase in budding yeast during stress adaptation reveals evolutionarily conserved and diverged roles.
Xue-Franzén Y, Johnsson A, ..., Bürglin TR, Wright AP
BMC Genomics 11 (-) 200 [2010-03-25; online 2010-03-25]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Whole-genome resequencing reveals loci under selection during chicken domestication.
Rubin CJ, Zody MC, ..., Lindblad-Toh K, Andersson L
Nature 464 (7288) 587-591 [2010-03-25; online 2010-03-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
In-depth transcriptome analysis reveals novel TARs and prevalent antisense transcription in human cell lines.
Klevebring D, Bjursell M, Emanuelsson O, Lundeberg J
PLoS ONE 5 (3) e9762 [2010-03-25; online 2010-03-25]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Short-term antibiotic treatment has differing long-term impacts on the human throat and gut microbiome.
Jakobsson HE, Jernberg C, ..., Jansson JK, Engstrand L
PLoS ONE 5 (3) e9836 [2010-03-24; online 2010-03-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Sustained inflammation due to nuclear factor-kappa B activation in irradiated human arteries.
Halle M, Gabrielsen A, ..., Farnebo F, Tornvall P
J. Am. Coll. Cardiol. 55 (12) 1227-1236 [2010-03-23; online 2010-03-20]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Investigation of gene dosage imbalances in patients with Noonan syndrome using multiplex ligation-dependent probe amplification analysis.
Nyström AM, Ekvall S, ..., Annerén G, Bondeson ML
Eur J Med Genet 53 (3) 117-121 [2010-03-17; online 2010-03-17]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Global and unbiased detection of splice junctions from RNA-seq data.
Ameur A, Wetterbom A, Feuk L, Gyllensten U
Genome Biol. 11 (3) R34 [2010-03-17; online 2010-03-17]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
The sexually antagonistic genes of Drosophila melanogaster.
Innocenti P, Morrow EH
PLoS Biol. 8 (3) e1000335 [2010-03-16; online 2010-03-16]
Array and Analysis Facility
PubMed DOI Crossref
The tryptophan hydroxylase 1 (TPH1) gene, schizophrenia susceptibility, and suicidal behavior: a multi-centre case-control study and meta-analysis.
Saetre P, Lundmark P, ..., Terenius L, Jönsson EG
Am. J. Med. Genet. B Neuropsychiatr. Genet. 153B (2) 387-396 [2010-03-05; online 2009-06-16]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Association between methylenetetrahydrofolate reductase (MTHFR) C677T polymorphism and age of onset in schizophrenia.
Vares M, Saetre P, ..., Terenius L, Jönsson EG
Am. J. Med. Genet. B Neuropsychiatr. Genet. 153B (2) 610-618 [2010-03-05; online 2009-09-12]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Comparative genomics based on massive parallel transcriptome sequencing reveals patterns of substitution and selection across 10 bird species.
Künstner A, Wolf JB, ..., Warren WC, Ellegren H
Mol. Ecol. 19 Suppl 1 (-) 266-276 [2010-03-00; online 2010-04-02]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Appearance of Cxcl10-expressing cell clusters is common for traumatic brain injury and neurodegenerative disorders.
Israelsson C, Bengtsson H, ..., Hillered L, Ebendal T
Eur. J. Neurosci. 31 (5) 852-863 [2010-03-00; online 2010-04-09]
Array and Analysis Facility
PubMed DOI Crossref
The impact of tissue fixatives on morphology and antibody-based protein profiling in tissues and cells.
Paavilainen L, Edvinsson A, ..., Pontén F, Wester K
J. Histochem. Cytochem. 58 (3) 237-246 [2010-03-00; online 2009-11-11]
Tissue Profiling
PubMed
Molecular profiling using tissue microarrays as a tool to identify predictive biomarkers in laryngeal cancer treated with radiotherapy.
Holgersson G, Ekman S, ..., Hellström K, Bergström S
Cancer Genomics Proteomics 7 (1) 1-7 [2010-02-26; online 2010-02-26]
Tissue Profiling
PubMed DOI Crossref
Gene-specific FACS sorting method for target selection in high-throughput amplicon sequencing.
Sandberg J, Neiman M, Ahmadian A, Lundeberg J
BMC Genomics 11 (-) 140 [2010-02-26; online 2010-02-26]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
High-density linkage mapping and evolution of paralogs and orthologs in Salix and Populus.
Berlin S, Lagercrantz U, ..., Ost T, Rönnberg-Wästljung AC
BMC Genomics 11 (-) 129 [2010-02-23; online 2010-02-23]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Coffee consumption and CYP1A2 genotype in relation to bone mineral density of the proximal femur in elderly men and women: a cohort study.
Hallström H, Melhus H, ..., Syvänen AC, Michaëlsson K
Nutr Metab (Lond) 7 (-) 12 [2010-02-22; online 2010-02-22]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
DNA methylation for subtype classification and prediction of treatment outcome in patients with childhood acute lymphoblastic leukemia.
Milani L, Lundmark A, ..., Lönnerholm G, Syvänen AC
Blood 115 (6) 1214-1225 [2010-02-11; online 2009-12-08]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
SUMOylation mediates the nuclear translocation and signaling of the IGF-1 receptor.
Sehat B, Tofigh A, ..., Lagergren J, Larsson O
Sci Signal 3 (108) ra10 [2010-02-09; online 2010-02-09]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Coexisting NRAS and BRAF mutations in primary familial melanomas with specific CDKN2A germline alterations.
Jovanovic B, Egyhazi S, ..., Hayward NK, Hansson J
J. Invest. Dermatol. 130 (2) 618-620 [2010-02-00; online 2009-09-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Sensitive plasma protein analysis by microparticle-based proximity ligation assays.
Darmanis S, Nong RY, ..., Landegren U, Kamali-Moghaddam M
Mol. Cell Proteomics 9 (2) 327-335 [2010-02-00; online 2009-12-04]
PLA Proteomics
PubMed DOI Crossref
Genetic variants and disease-associated factors contribute to enhanced interferon regulatory factor 5 expression in blood cells of patients with systemic lupus erythematosus.
Feng D, Stone RC, ..., Rönnblom L, Barnes BJ
Arthritis Rheum. 62 (2) 562-573 [2010-02-00; online 2010-01-30]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Global gene expression analysis of rodent motor neurons following spinal cord injury associates molecular mechanisms with development of postinjury spasticity.
Wienecke J, Westerdahl AC, ..., Kiehn O, Ryge J
J. Neurophysiol. 103 (2) 761-778 [2010-02-00; online 2009-11-27]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Schizosaccharomyces pombe genome-wide nucleosome mapping reveals positioning mechanisms distinct from those of Saccharomyces cerevisiae.
Lantermann AB, Straub T, ..., Ekwall K, Korber P
Nat. Struct. Mol. Biol. 17 (2) 251-257 [2010-02-00; online 2010-01-31]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Connective tissue growth factor is expressed in malignant cells of Hodgkin lymphoma but not in other mature B-cell lymphomas.
Birgersdotter A, Baumforth KR, ..., Porwit A, Ernberg I
Am. J. Clin. Pathol. 133 (2) 271-280 [2010-02-00; online 2010-01-23]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Genetic variation in GIPR influences the glucose and insulin responses to an oral glucose challenge.
Saxena R, Hivert MF, ..., Wareham NJ, Watanabe RM
Nat. Genet. 42 (2) 142-148 [2010-02-00; online 2010-01-19]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Comparative protein profiling of serum and plasma using an antibody suspension bead array approach.
Schwenk JM, Igel U, ..., Uhlén M, Nilsson P
Proteomics 10 (3) 532-540 [2010-02-00; online 2009-12-03]
Protein and peptide arrays
PubMed DOI Crossref
Sequence variation in SORL1 and dementia risk in Swedes.
Reynolds CA, Hong MG, ..., Bennet AM, Prince JA
Neurogenetics 11 (1) 139-142 [2010-02-00; online 2009-08-05]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
New genetic loci implicated in fasting glucose homeostasis and their impact on type 2 diabetes risk.
Dupuis J, Langenberg C, ..., Florez JC, Barroso I
Nat. Genet. 42 (2) 105-116 [2010-02-00; online 2010-01-19]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Infection of mast cells with live streptococci causes a toll-like receptor 2- and cell-cell contact-dependent cytokine and chemokine response.
Rönnberg E, Guss B, Pejler G
Infect. Immun. 78 (2) 854-864 [2010-02-00; online 2009-11-26]
Array and Analysis Facility
PubMed DOI Crossref
Genetic and biochemical studies of SNPs of the mitochondrial A beta-degrading protease, hPreP.
Pinho CM, Björk BF, ..., Glaser E, Graff C
Neurosci. Lett. 469 (2) 204-208 [2010-01-22; online 2009-12-08]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Differential genome-wide array-based methylation profiles in prognostic subsets of chronic lymphocytic leukemia.
Kanduri M, Cahill N, ..., Isaksson A, Rosenquist R
Blood 115 (2) 296-305 [2010-01-14; online 2009-11-10]
Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Association study of PDE4B gene variants in Scandinavian schizophrenia and bipolar disorder multicenter case-control samples.
Kähler AK, Otnaess MK, ..., Andreassen OA, Djurovic S
Am. J. Med. Genet. B Neuropsychiatr. Genet. 153B (1) 86-96 [2010-01-05; online 2009-04-08]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
A computational screen for site selective A-to-I editing detects novel sites in neuron specific Hu proteins.
Ensterö M, Akerborg O, ..., Ohman M, Lagergren J
BMC Bioinformatics 11 (-) 6 [2010-01-04; online 2010-01-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Large but not small copy-number alterations correlate to high-risk genomic aberrations and survival in chronic lymphocytic leukemia: a high-resolution genomic screening of newly diagnosed patients.
Gunnarsson R, Isaksson A, ..., Juliusson G, Rosenquist R
Leukemia 24 (1) 211-215 [2010-01-00; online 2009-09-11]
Array and Analysis Facility
PubMed DOI Crossref
Characterization of the cytotoxic properties of the benzimidazole fungicides, benomyl and carbendazim, in human tumour cell lines and primary cultures of patient tumour cells.
Laryea D, Gullbo J, ..., Larsson R, Nygren P
Anticancer Drugs 21 (1) 33-42 [2010-01-00; online 2009-09-30]
Array and Analysis Facility
PubMed DOI Crossref
Modeling of environmental effects in genome-wide association studies identifies SLC2A2 and HP as novel loci influencing serum cholesterol levels.
Igl W, Johansson A, ..., Gyllensten U, EUROSPAN Consortium
PLoS Genet. 6 (1) e1000798 [2010-01-00; online 2010-01-08]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Association of polymorphisms in the SLIT2 axonal guidance gene with anger in suicide attempters.
Sokolowski M, Wasserman J, Wasserman D
Mol. Psychiatry 15 (1) 10-11 [2010-01-00; online 2009-12-24]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
The 2009 Nobel conference on the role of genetics in promoting suicide prevention and the mental health of the population.
Wasserman D, Terenius L, Wasserman J, Sokolowski M
Mol. Psychiatry 15 (1) 12-17 [2010-01-00; online 2009-12-24]
NGI Uppsala (SNP&SEQ Technology Platform)
DOI Crossref
Tissue-Specific Protein Expression in Human Cells, Tissues and Organs
Gry M, Oksvold P, Pontén F, Uhlén M
JPB 03 (10) - [2010-00-00; online 2010-00-00]
Tissue Profiling
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