Publications 2012

243 publications

Mice lacking a Myc enhancer that includes human SNP rs6983267 are resistant to intestinal tumors.
Sur IK, Hallikas O, Vähärautio A, ..., Aaltonen LA, Taipale J
pii: science.1228606
Science 338 (6112) 1360-1363 [2012-12-07; online 2012-11-03]
Karolinska High Throughput Center (KHTC)
High-resolution mapping of linear antibody epitopes using ultrahigh-density peptide microarrays.
Buus S, Rockberg J, Forsström B, ..., Uhlen M, Schafer-Nielsen C
pii: M112.020800 pmc: PMC3518105
Mol. Cell Proteomics 11 (12) 1790-1800 [2012-12-00; online 2012-09-18]
Autoimmunity Profiling [Service]
PCR-based multiparametric assays in single cells.
Darmanis S, Gallant C, Landegren U
pii: clinchem.2012.195867
Clin. Chem. 58 (12) 1618-1619 [2012-12-00; online 2012-10-17]
PLA and Single Cell Proteomics
Transcription factor PROX1: its role in development and cancer.
Elsir T, Smits A, Lindström MS, Nistér M
Cancer Metastasis Rev. 31 (3-4) 793-805 [2012-12-00; online 2012-06-27]
Tissue Profiling
Automated analysis and reannotation of subcellular locations in confocal images from the Human Protein Atlas.
Li J, Newberg JY, Uhlén M, Lundberg E, Murphy RF
pii: PONE-D-12-11801 pmc: PMC3511558
PLoS ONE 7 (11) e50514 [2012-11-30; online 2012-11-30]
Cell Profiling
TPX2 and AURKA promote 20q amplicon-driven colorectal adenoma to carcinoma progression.
Sillars-Hardebol AH, Carvalho B, Tijssen M, ..., Fijneman RJ, Meijer GA
pii: gutjnl-2011-301153
Gut 61 (11) 1568-1575 [2012-11-00; online 2011-12-31]
Tissue Profiling
Reclassification of the Candida haemulonii complex as Candida haemulonii (C. haemulonii group I), C. duobushaemulonii sp. nov. (C. haemulonii group II), and C. haemulonii var. vulnera var. nov.: three multiresistant human pathogenic yeasts.
Cendejas-Bueno E, Kolecka A, Alastruey-Izquierdo A, ..., Gómez-López A, Boekhout T
pii: JCM.02248-12 pmc: PMC3486233 GENBANK: JX459660 GENBANK: JX459661 GENBANK: JX459662 GENBANK: JX459663 GENBANK: JX459664 GENBANK: JX459665 GENBANK: JX459666 GENBANK: JX459667 GENBANK: JX459668 GENBANK: JX459669 GENBANK: JX459670 GENBANK: JX459671 GENBANK: JX459672 GENBANK: JX459673 GENBANK: JX459674 GENBANK: JX459675 GENBANK: JX459676 GENBANK: JX459677 GENBANK: JX459678 GENBANK: JX459679 GENBANK: JX459680 GENBANK: JX459681 GENBANK: JX459682 GENBANK: JX459683 GENBANK: JX459684 GENBANK: JX459685 GENBANK: JX459686 GENBANK: JX459687 GENBANK: JX459688 GENBANK: JX459689 GENBANK: JX459690 GENBANK: JX459691 GENBANK: JX459692 GENBANK: JX459693 GENBANK: JX459694 GENBANK: JX459695 GENBANK: JX459696 GENBANK: JX459697 GENBANK: JX459698 GENBANK: JX459699 GENBANK: JX459700 GENBANK: JX459701 GENBANK: JX459702 GENBANK: JX459703 GENBANK: JX459704 GENBANK: JX459705 GENBANK: JX459706 GENBANK: JX459707 GENBANK: JX459708 GENBANK: JX459709 GENBANK: JX459710 GENBANK: JX459711 GENBANK: JX459712 GENBANK: JX459713 GENBANK: JX459714 GENBANK: JX459715 GENBANK: JX459716 GENBANK: JX459717 GENBANK: JX459718 GENBANK: JX459719 GENBANK: JX459720 GENBANK: JX459721 GENBANK: JX459722 GENBANK: JX459723 GENBANK: JX459724 GENBANK: JX459725 GENBANK: JX459726 GENBANK: JX459727 GENBANK: JX459728 GENBANK: JX459729 GENBANK: JX459730 GENBANK: JX459731 GENBANK: JX459732 GENBANK: JX459733 GENBANK: JX459734 GENBANK: JX459735 GENBANK: JX459736 GENBANK: JX459737 GENBANK: JX459738 GENBANK: JX459739 GENBANK: JX459740 GENBANK: JX459741 GENBANK: JX459742 GENBANK: JX459743 GENBANK: JX459744 GENBANK: JX459745 GENBANK: JX459746 GENBANK: JX459747 GENBANK: JX459748 GENBANK: JX459749 GENBANK: JX459750 GENBANK: JX459751 GENBANK: JX459752 GENBANK: JX459753 GENBANK: JX459754 GENBANK: JX459755 GENBANK: JX459756 GENBANK: JX459757 GENBANK: JX459758 GENBANK: JX459759 GENBANK: JX459760 GENBANK: JX459761 GENBANK: JX459762 GENBANK: JX459763 GENBANK: JX459764 GENBANK: JX459765 GENBANK: JX459766 GENBANK: JX459767 GENBANK: JX459768 GENBANK: JX459769 GENBANK: JX459770 GENBANK: JX459771 GENBANK: JX459772 GENBANK: JX459773 GENBANK: JX459774 GENBANK: JX459775 GENBANK: JX459776 GENBANK: JX459777 GENBANK: JX459778 GENBANK: JX459779 GENBANK: JX459780 GENBANK: JX459781 GENBANK: JX459782 GENBANK: JX459783 GENBANK: JX459784 GENBANK: JX459785 GENBANK: JX459786 GENBANK: JX459787 GENBANK: JX459788 GENBANK: JX459789 GENBANK: JX459790 GENBANK: JX459791 GENBANK: JX459792
J. Clin. Microbiol. 50 (11) 3641-3651 [2012-11-00; online 2012-09-07]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
Consistent mutation status within histologically heterogeneous lung cancer lesions.
Mattsson JS, Imgenberg-Kreuz J, Edlund K, Botling J, Micke P
Histopathology 61 (4) 744-748 [2012-10-00; online 2012-03-31]
Tissue Profiling
Chemosensory proteins, major salivary factors in caterpillar mandibular glands.
Celorio-Mancera Mde L, Sundmalm SM, Vogel H, ..., Zubarev RA, Janz N
pii: S0965-1748(12)00097-5
Insect Biochem. Mol. Biol. 42 (10) 796-805 [2012-10-00; online 2012-08-14]
Advanced Mass Spectrometry Proteomics
Genome-wide and locus specific alterations in CDC73/HRPT2-mutated parathyroid tumors.
Sulaiman L, Haglund F, Hashemi J, ..., Larsson C, Juhlin CC
pii: PONE-D-12-17703 pmc: PMC3460869
PLoS ONE 7 (9) e46325 [2012-09-28; online 2012-09-28]
Bioinformatics and Expression Analysis (BEA)
Elevated MARK2-dependent phosphorylation of Tau in Alzheimer's disease.
Gu GJ, Wu D, Lund H, ..., Landegren U, Kamali-Moghaddam M
pii: C06R73LN268U5222
J. Alzheimers Dis. 33 (3) 699-713 [2012-09-25; online 2012-09-25]
Clinical Biomarkers PLA and Single Cell Proteomics
Role of sepsis in the development of limb muscle weakness in a porcine intensive care unit model.
Aare S, Radell P, Eriksson LI, ..., Hoffman EP, Larsson L
pii: physiolgenomics.00031.2012
Physiol. Genomics 44 (18) 865-877 [2012-09-18; online 2012-08-02]
Array and Analysis Facility
Molecular tools for companion diagnostics.
Zieba A, Grannas K, Söderberg O, ..., Nilsson M, Landegren U
pii: S1871-6784(12)00088-X
N Biotechnol 29 (6) 634-640 [2012-09-15; online 2012-05-29]
PLA and Single Cell Proteomics
A tool to facilitate clinical biomarker studies--a tissue dictionary based on the Human Protein Atlas.
Kampf C, Bergman J, Oksvold P, ..., Uhlén M, Ponten F
pii: 1741-7015-10-103 pmc: PMC3523031
BMC Med 10 (-) 103 [2012-09-12; online 2012-09-12]
Cell Profiling Tissue Profiling
Loss-of-heterozygosity on chromosome 19q in early-stage serous ovarian cancer is associated with recurrent disease.
Skirnisdottir I, Mayrhofer M, Rydåker M, Akerud H, Isaksson A
pii: 1471-2407-12-407 pmc: PMC3495882
BMC Cancer 12 (-) 407 [2012-09-12; online 2012-09-12]
Array and Analysis Facility
GCH1-polymorphism and pain sensitivity among women with provoked vestibulodynia.
Heddini U, Bohm-Starke N, Grönbladh A, ..., Nilsson KW, Johannesson U
pii: 1744-8069-8-68 pmc: PMC3489821
Mol Pain 8 (-) 68 [2012-09-12; online 2012-09-12]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
Large-scale association analysis provides insights into the genetic architecture and pathophysiology of type 2 diabetes.
Morris AP, Voight BF, Teslovich TM, ..., McCarthy MI, DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium
Nat. Genet. 44 (9) 981-990 [2012-09-00; online 2012-08-14]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
Evidence of association between interferon regulatory factor 5 gene polymorphisms and asthma.
Wang C, Rose-Zerilli MJ, Koppelman GH, ..., Syvänen AC, Dideberg V
pii: S0378-1119(12)00596-3
Gene 504 (2) 220-225 [2012-08-10; online 2012-05-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
Erlin-2 is associated with active γ-secretase in brain and affects amyloid β-peptide production.
Teranishi Y, Hur JY, Gu GJ, ..., Frykman S, Tjernberg LO
pii: S0006-291X(12)01239-9
Biochem. Biophys. Res. Commun. 424 (3) 476-481 [2012-08-03; online 2012-07-10]
PLA and Single Cell Proteomics
Platelet-derived growth factor over-expression in retinal progenitors results in abnormal retinal vessel formation.
Edqvist PH, Niklasson M, Vidal-Sanz M, Hallböök F, Forsberg-Nilsson K
pii: PONE-D-11-21303 pmc: PMC3411765
PLoS ONE 7 (8) e42488 [2012-08-03; online 2012-08-03]
Tissue Profiling
Unraveling assembly of stream biofilm communities.
Besemer K, Peter H, Logue JB, ..., Tranvik LJ, Battin TJ
pii: ismej2011205 pmc: PMC3400417
ISME J 6 (8) 1459-1468 [2012-08-00; online 2012-01-13]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
Profiling cellular protein complexes by proximity ligation with dual tag microarray readout.
Hammond M, Nong RY, Ericsson O, Pardali K, Landegren U
pii: PONE-D-12-05955 pmc: PMC3393744
PLoS ONE 7 (7) e40405 [2012-07-10; online 2012-07-10]
PLA and Single Cell Proteomics
Aversive and reinforcing opioid effects: a pharmacogenomic twin study.
Angst MS, Lazzeroni LC, Phillips NG, ..., Swan GE, Clark JD
pii: 00000542-201207000-00012 pmc: PMC3428265 mid: NIHMS386120
Anesthesiology 117 (1) 22-37 [2012-07-00; online 2012-06-21]
Mutation Analysis Facility (MAF)
Pain sensitivity and opioid analgesia: a pharmacogenomic twin study.
Angst MS, Phillips NG, Drover DR, ..., Lazzeroni LC, Clark JD
pii: S0304-3959(12)00098-X pmc: PMC3377769 mid: NIHMS365869
Pain 153 (7) 1397-1409 [2012-07-00; online 2012-03-27]
Mutation Analysis Facility (MAF)
Validation of affinity reagents using antigen microarrays.
Sjöberg R, Sundberg M, Gundberg A, ..., Uhlén M, Nilsson P
pii: S1871-6784(11)00257-3
N Biotechnol 29 (5) 555-563 [2012-06-15; online 2011-12-03]
Autoimmunity Profiling [Technology development]
Classification of protein profiles from antibody microarrays using heat and detergent treatment.
Häggmark A, Neiman M, Drobin K, ..., Nilsson P, Schwenk JM
pii: S1871-6784(11)00225-1
N Biotechnol 29 (5) 564-570 [2012-06-15; online 2011-10-26]
Plasma Profiling [Technology development]
Visualising individual sequence-specific protein-DNA interactions in situ.
Weibrecht I, Gavrilovic M, Lindbom L, ..., Wählby C, Söderberg O
pii: S1871-6784(11)00186-5
N Biotechnol 29 (5) 589-598 [2012-06-15; online 2011-09-13]
BioImage Informatics [Collaborative] PLA and Single Cell Proteomics
Integrative approach to pain genetics identifies pain sensitivity loci across diseases.
Ruau D, Dudley JT, Chen R, ..., Butte AJ, Angst MS
pii: PCOMPBIOL-D-12-00028 pmc: PMC3369906
PLoS Comput. Biol. 8 (6) e1002538 [2012-06-07; online 2012-06-07]
Mutation Analysis Facility (MAF)
Selection-driven gene loss in bacteria.
Koskiniemi S, Sun S, Berg OG, Andersson DI
pii: PGENETICS-D-12-00783 pmc: PMC3386194
PLoS Genet. 8 (6) e1002787 [2012-06-00; online 2012-06-28]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
Common and low-frequency genetic variants in the PCSK9 locus influence circulating PCSK9 levels.
Chernogubova E, Strawbridge R, Mahdessian H, ..., Hamsten A, van 't Hooft FM
pii: ATVBAHA.111.240549
Arterioscler. Thromb. Vasc. Biol. 32 (6) 1526-1534 [2012-06-00; online 2012-03-31]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
GABA-A channel subunit expression in human glioma correlates with tumor histology and clinical outcome.
Smits A, Jin Z, Elsir T, ..., Aronica E, Birnir B
pii: PONE-D-12-03413 pmc: PMC3355166
PLoS ONE 7 (5) e37041 [2012-05-17; online 2012-05-17]
Tissue Profiling
Novel pancreatic beta cell-specific proteins: antibody-based proteomics for identification of new biomarker candidates.
Lindskog C, Korsgren O, Pontén F, ..., Johansson L, Danielsson A
pii: S1874-3919(12)00141-8
J Proteomics 75 (9) 2611-2620 [2012-05-17; online 2012-04-03]
Tissue Profiling
MAGI1 copy number variation in bipolar affective disorder and schizophrenia.
Karlsson R, Graae L, Lekman M, ..., Belin AC, Paddock S
pii: S0006-3223(12)00086-8
Biol. Psychiatry 71 (10) 922-930 [2012-05-15; online 2012-03-03]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
Differential evolutionary wiring of the tyrosine kinase Btk.
Nawaz HM, Kylsten P, Hamada N, ..., Smith CI, Lindvall JM
pii: PONE-D-12-01915 pmc: PMC3344829
PLoS ONE 7 (5) e35640 [2012-05-04; online 2012-05-04]
Bioinformatics and Expression Analysis (BEA)
Systematic validation of antibody binding and protein subcellular localization using siRNA and confocal microscopy.
Stadler C, Hjelmare M, Neumann B, ..., Uhlén M, Lundberg E
pii: S1874-3919(12)00070-X
J Proteomics 75 (7) 2236-2251 [2012-04-03; online 2012-03-01]
Cell Profiling
Tumor-mast cell interactions: induction of pro-tumorigenic genes and anti-tumorigenic 4-1BB in MCs in response to Lewis Lung Carcinoma.
Wensman H, Kamgari N, Johansson A, ..., Rönnberg E, Pejler G
pii: S0161-5890(12)00010-7
Mol. Immunol. 50 (4) 210-219 [2012-04-00; online 2012-02-22]
Array and Analysis Facility
The interleukin-6 receptor as a target for prevention of coronary heart disease: a mendelian randomisation analysis.
Interleukin-6 Receptor Mendelian Randomisation Analysis (IL6R MR) Consortium , Swerdlow DI, Holmes MV, ..., Hingorani AD, Casas JP
Lancet 379 (9822) 1214-1224 [2012-03-31; online 2012-03-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
Interleukin-6 receptor pathways in coronary heart disease: a collaborative meta-analysis of 82 studies.
IL6R Genetics Consortium Emerging Risk Factors Collaboration , Sarwar N, Butterworth AS, ..., Harari O, Danesh J
pii: S0140-6736(11)61931-4 pmc: PMC3316940
Lancet 379 (9822) 1205-1213 [2012-03-31; online 2012-03-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
The transcriptome of the adenovirus infected cell.
Zhao H, Dahlö M, Isaksson A, Syvänen AC, Pettersson U
pii: S0042-6822(11)00564-2
Virology 424 (2) 115-128 [2012-03-15; online 2012-01-13]
Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
Scalable in situ hybridization on tissue arrays for validation of novel cancer and tissue-specific biomarkers.
Kiflemariam S, Andersson S, Asplund A, Pontén F, Sjöblom T
pii: PONE-D-11-18464 pmc: PMC3297615
PLoS ONE 7 (3) e32927 [2012-03-08; online 2012-03-08]
Tissue Profiling
Variation in the oxytocin receptor gene is associated with pair-bonding and social behavior.
Walum H, Lichtenstein P, Neiderhiser JM, ..., Larsson H, Westberg L
pii: S0006-3223(11)00860-2 pmc: PMC3266986 mid: NIHMS325804
Biol. Psychiatry 71 (5) 419-426 [2012-03-01; online 2011-10-22]
Mutation Analysis Facility (MAF)
Identification of autophagosome-associated proteins and regulators by quantitative proteomic analysis and genetic screens.
Dengjel J, Høyer-Hansen M, Nielsen MO, ..., Jäättelä M, Andersen JS
pii: M111.014035 pmc: PMC3316729
Mol. Cell Proteomics 11 (3) M111.014035 [2012-03-00; online 2012-02-09]
Cell Profiling
Antibody-based protein profiling of the human chromosome 21.
Uhlén M, Oksvold P, Älgenäs C, ..., Kondo T, Sivertsson Å
pii: M111.013458 pmc: PMC3316724
Mol. Cell Proteomics 11 (3) M111.013458 [2012-03-00; online 2011-11-02]
Cell Profiling Tissue Profiling
Characterization of MRFAP1 turnover and interactions downstream of the NEDD8 pathway.
Larance M, Kirkwood KJ, Xirodimas DP, ..., Uhlen M, Lamond AI
pii: M111.014407 pmc: PMC3316733
Mol. Cell Proteomics 11 (3) M111.014407 [2012-03-00; online 2011-11-01]
Cell Profiling
Genome wide analysis reveals association of a FTO gene variant with epigenetic changes.
Almén MS, Jacobsson JA, Moschonis G, ..., Fredriksson R, Schiöth HB
pii: S0888-7543(11)00281-3
Genomics 99 (3) 132-137 [2012-03-00; online 2012-01-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
BCL2L1 has a functional role in colorectal cancer and its protein expression is associated with chromosome 20q gain.
Sillars-Hardebol AH, Carvalho B, Beliën JA, ..., Fijneman RJ, Meijer GA
J. Pathol. 226 (3) 442-450 [2012-02-00; online 2011-10-20]
Tissue Profiling