Publications 2014

376 publications

1p36 deletion is a marker for tumour dissemination in microsatellite stable stage II-III colon cancer.
Mayrhofer M, Kultima HG, Birgisson H, ..., Glimelius B, Isaksson A
BMC Cancer 14 (-) 872 [2014-11-24; online 2014-11-24]
Array and Analysis Facility
Aberrantly activated claudin 6 and 18.2 as potential therapy targets in non-small-cell lung cancer.
Micke P, Mattsson JS, Edlund K, ..., Sahin U, Türeci O
Int. J. Cancer 135 (9) 2206-2214 [2014-11-01; online 2014-04-09]
Tissue Profiling
Replicability and robustness of genome-wide-association studies for behavioral traits.
Rietveld CA, Conley D, Eriksson N, ..., Koellinger PD, Social Science Genetics Association Consortium
Psychol Sci 25 (11) 1975-1986 [2014-11-00; online 2014-10-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
Photocatalysis induces bioactivity of an organic polymer based material
Cai Y, Strømme M, Zhang P, Engqvist H, Welch K
RSC Adv. 4 (101) 57715-57723 [2014-10-28; online 2014-10-28]
BioMaterial Interactions (BioMat)
Identification of 33 candidate oncogenes by screening for base-specific mutations.
Tuupanen S, Hänninen UA, Kondelin J, ..., Pitkänen E, Aaltonen LA
Br. J. Cancer 111 (8) 1657-1662 [2014-10-14; online 2014-08-15]
Karolinska High Throughput Center (KHTC)
NPSR1 polymorphisms influence recurrent abdominal pain in children: a population-based study.
Henström M, Zucchelli M, Söderhäll C, ..., Olén O, D'Amato M
Neurogastroenterol. Motil. 26 (10) 1417-1425 [2014-10-00; online 2014-08-06]
Mutation Analysis Facility (MAF)
Glial origin of mesenchymal stem cells in a tooth model system.
Kaukua N, Shahidi MK, Konstantinidou C, ..., Fried K, Adameyko I
Nature 513 (7519) 551-554 [2014-09-25; online 2014-08-01]
Integrated Microscopy Technologies Stockholm [Collaborative]
Histidine-rich glycoprotein uptake and turnover is mediated by mononuclear phagocytes.
Tugues S, Roche F, Noguer O, ..., Tolmachev V, Claesson-Welsh L
PLoS ONE 9 (9) e107483 [2014-09-22; online 2014-09-22]
Tissue Profiling
Characterization of stem-like cells in mucoepidermoid tracheal paediatric tumor.
Lim ML, Ooi BN, Jungebluth P, ..., Ahrlund-Richter L, Macchiarini P
PLoS ONE 9 (9) e107712 [2014-09-17; online 2014-09-17]
Bioinformatics and Expression Analysis (BEA)
The prognostic value and therapeutic target role of stathmin-1 in urinary bladder cancer.
Hemdan T, Lindén M, Lind SB, ..., Malmström PU, Segersten U
Br. J. Cancer 111 (6) 1180-1187 [2014-09-09; online 2014-07-29]
Tissue Profiling [Collaborative]
An integrative analysis of the tumorigenic role of TAZ in human non-small cell lung cancer.
Noguchi S, Saito A, Horie M, ..., Micke P, Nagase T
Clin. Cancer Res. 20 (17) 4660-4672 [2014-09-01; online 2014-06-22]
Tissue Profiling
Meta-analysis in more than 17,900 cases of ischemic stroke reveals a novel association at 12q24.12.
Kilarski LL, Achterberg S, Devan WJ, ..., Bevan S, GARNET Collaborative Research Group WTCCC2ASGCtMCatISGC
Neurology 83 (8) 678-685 [2014-08-19; online 2014-07-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
Analysis of candidate genes for lineage-specific expression changes in humans and primates.
Lindskog C, Kuhlwilm M, Davierwala A, ..., Pääbo S, Pontén F
J. Proteome Res. 13 (8) 3596-3606 [2014-08-01; online 2014-06-10]
Tissue Profiling
The human carotid body releases acetylcholine, ATP and cytokines during hypoxia.
Kåhlin J, Mkrtchian S, Ebberyd A, ..., Fagerlund MJ, Eriksson LI
Exp. Physiol. 99 (8) 1089-1098 [2014-08-00; online 2014-06-03]
Bioinformatics and Expression Analysis (BEA)
Plasma profiling reveals three proteins associated to amyotrophic lateral sclerosis.
Häggmark A, Mikus M, Mohsenchian A, ..., Kuźma-Kozakiewicz M, Nilsson P
Ann Clin Transl Neurol 1 (8) 544-553 [2014-08-00; online 2014-07-14]
Affinity Proteomics Stockholm [Collaborative]
Biological insights from 108 schizophrenia-associated genetic loci.
Schizophrenia Working Group of the Psychiatric Genomics Consortium
Nature 511 (7510) 421-427 [2014-07-24; online 2014-07-22]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
Structural basis for PTPA interaction with the invariant C-terminal tail of PP2A.
Löw C, Quistgaard EM, Kovermann M, ..., Balbach J, Nordlund P
Biol. Chem. 395 (7-8) 881-889 [2014-07-00; online 2014-07-09]
Protein Science Facility (PSF)
Affinity proteomics within rare diseases: a BIO-NMD study for blood biomarkers of muscular dystrophies.
Ayoglu B, Chaouch A, Lochmüller H, ..., Nilsson P, Al-Khalili Szigyarto C
EMBO Mol Med 6 (7) 918-936 [2014-07-00; online 2014-06-13]
Affinity Proteomics Stockholm [Collaborative]
CXCR4 Antagonists
Castaldo C, Benicchi T, Otrocka M, ..., Varrone M, Porcari V
J Biomol Screen 19 (6) 859-869 [2014-07-00; online 2014-07-00]
Chemical Biology Consortium Sweden (CBCS) [Service]
Tyrosine phosphorylation profiling via in situ proximity ligation assay.
Elfineh L, Classon C, Asplund A, ..., Kamali-Moghaddam M, Lind SB
BMC Cancer 14 (-) 435 [2014-06-13; online 2014-06-13]
Affinity Proteomics Uppsala
Decreased decorin expression in the tumor microenvironment.
Bozoky B, Savchenko A, Guven H, ..., Klein G, Szekely L
Cancer Med 3 (3) 485-491 [2014-06-00; online 2014-03-19]
Tissue Profiling
Nucleosome regulatory dynamics in response to TGFβ.
Enroth S, Andersson R, Bysani M, ..., Komorowski J, Wadelius C
Nucleic Acids Res. 42 (11) 6921-6934 [2014-06-00; online 2014-04-29]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
Garbage in, garbage out: a critical evaluation of strategies used for validation of immunohistochemical biomarkers.
O'Hurley G, Sjöstedt E, Rahman A, ..., Gallagher WM, Lindskog C
Mol Oncol 8 (4) 783-798 [2014-06-00; online 2014-04-15]
Tissue Profiling
Structure and inhibition of mouse leukotriene C4 synthase.
Niegowski D, Kleinschmidt T, Ahmad S, ..., Rinaldo-Matthis A, Haeggström JZ
PLoS ONE 9 (5) e96763 [2014-05-08; online 2014-05-08]
Chemical Biology Consortium Sweden (CBCS) [Service] Protein Science Facility (PSF)
Responsibility and cooperativeness are constrained, not determined.
Garcia D, Stråge A, Lundström S, ..., Kerekes N, Anckarsäter H
Front Psychol 5 (-) 308 [2014-05-07; online 2014-05-07]
Mutation Analysis Facility (MAF)
Quality control and conduct of genome-wide association meta-analyses.
Winkler TW, Day FR, Croteau-Chonka DC, ..., Loos RJ, Genetic Investigation of Anthropometric Traits (GIANT) Consortium
Nat Protoc 9 (5) 1192-1212 [2014-05-00; online 2014-04-24]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
Protein biomarker validation via proximity ligation assays.
Blokzijl A, Nong R, Darmanis S, ..., Landegren U, Kamali-Moghaddam M
Biochim. Biophys. Acta 1844 (5) 933-939 [2014-05-00; online 2013-08-13]
Affinity Proteomics Uppsala
High-throughput transcription profiling identifies putative epigenetic regulators of hematopoiesis.
Prasad P, Rönnerblad M, Arner E, ..., Ekwall K, FANTOM consortium
Blood 123 (17) e46-e57 [2014-04-24; online 2014-03-29]
Bioinformatics and Expression Analysis (BEA)
Clinical and genetic features of pediatric acute lymphoblastic leukemia in Down syndrome in the Nordic countries.
Lundin C, Forestier E, Klarskov Andersen M, ..., Swedish Cytogenetic Leukemia Study Group (SCLSG) , NOPHO Leukemia Cytogenetic Study Group (NLCSG)
J Hematol Oncol 7 (-) 32 [2014-04-11; online 2014-04-11]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
WNT5A-mediated β-catenin-independent signalling is a novel regulator of cancer cell metabolism.
Sherwood V, Chaurasiya SK, Ekström EJ, ..., James P, Andersson T
Carcinogenesis 35 (4) 784-794 [2014-04-00; online 2013-12-03]
Tissue Profiling
Investigation of molecular alterations of AKT-3 in triple-negative breast cancer.
O'Hurley G, Daly E, O'Grady A, ..., Kay EW, Gallagher WM
Histopathology 64 (5) 660-670 [2014-04-00; online 2013-10-22]
Tissue Profiling
The novel diagnostic biomarkers for focal segmental glomerulosclerosis.
Nafar M, Kalantari S, Samavat S, ..., Rutishuser D, Zubarev RA
Int J Nephrol 2014 (-) 574261 [2014-03-26; online 2014-03-26]
Advanced Mass Spectrometry Proteomics
Epitope-specific antibody response is controlled by immunoglobulin V(H) polymorphisms.
Raposo B, Dobritzsch D, Ge C, ..., Schneider G, Holmdahl R
J. Exp. Med. 211 (3) 405-411 [2014-03-10; online 2014-02-19]
Protein Science Facility (PSF)
A chromosome-centric analysis of antibodies directed toward the human proteome using Antibodypedia.
Alm T, von Feilitzen K, Lundberg E, Sivertsson Å, Uhlén M
J. Proteome Res. 13 (3) 1669-1676 [2014-03-07; online 2014-02-19]
Spatial Proteomics
ZapE is a novel cell division protein interacting with FtsZ and modulating the Z-ring dynamics.
Marteyn BS, Karimova G, Fenton AK, ..., Sansonetti PJ, Tang CM
MBio 5 (2) e00022-e00014 [2014-03-04; online 2014-03-04]
Protein Science Facility (PSF)
Genome-wide trans-ancestry meta-analysis provides insight into the genetic architecture of type 2 diabetes susceptibility.
DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium , Asian Genetic Epidemiology Network Type 2 Diabetes (AGEN-T2D) Consortium , South Asian Type 2 Diabetes (SAT2D) Consortium , ..., McCarthy MI, Morris AP
Nat. Genet. 46 (3) 234-244 [2014-03-00; online 2014-02-11]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
Urinary prognostic biomarkers in patients with focal segmental glomerulosclerosis.
Kalantari S, Nafar M, Samavat S, ..., Rutishauser D, Zubarev R
Nephrourol Mon 6 (2) e16806 [2014-03-00; online 2014-03-09]
Advanced Mass Spectrometry Proteomics
Antibody performance in western blot applications is context-dependent.
Algenäs C, Agaton C, Fagerberg L, ..., Ottosson Takanen J, Hober S
Biotechnol J 9 (3) 435-445 [2014-03-00; online 2014-01-10]
Spatial Proteomics Tissue Profiling
Crystal structures of leukotriene C4 synthase in complex with product analogs: implications for the enzyme mechanism.
Niegowski D, Kleinschmidt T, Olsson U, ..., Rinaldo-Matthis A, Haeggström JZ
J. Biol. Chem. 289 (8) 5199-5207 [2014-02-21; online 2013-12-25]
Protein Science Facility (PSF)
Structural and functional insights into peptidoglycan access for the lytic amidase LytA of Streptococcus pneumoniae.
Mellroth P, Sandalova T, Kikhney A, ..., Henriques-Normark B, Achour A
MBio 5 (1) e01120-e01113 [2014-02-11; online 2014-02-11]
Protein Science Facility (PSF)
Prognostic polypeptide blood plasma biomarkers of Alzheimer's disease progression.
Yang H, Lyutvinskiy Y, Herukka SK, ..., Rutishauser D, Zubarev RA
J. Alzheimers Dis. 40 (3) 659-666 [2014-02-08; online 2014-02-08]
Advanced Mass Spectrometry Proteomics
Subtyping of gliomas of various WHO grades by the application of immunohistochemistry.
Popova SN, Bergqvist M, Dimberg A, ..., Sooman L, Alafuzoff I
Histopathology 64 (3) 365-379 [2014-02-00; online 2014-01-15]
Tissue Profiling
Glioma-derived macrophage migration inhibitory factor (MIF) promotes mast cell recruitment in a STAT5-dependent manner.
Põlajeva J, Bergström T, Edqvist PH, ..., Forsberg Nilsson K, Tchougounova E
Mol Oncol 8 (1) 50-58 [2014-02-00; online 2013-10-05]
Tissue Profiling
Product formation controlled by substrate dynamics in leukotriene A4 hydrolase.
Stsiapanava A, Tholander F, Kumar RB, ..., Haeggström JZ, Rinaldo-Matthis A
Biochim. Biophys. Acta 1844 (2) 439-446 [2014-02-00; online 2013-12-18]
Protein Science Facility (PSF)
FuseFISH: robust detection of transcribed gene fusions in single cells.
Semrau S, Crosetto N, Bienko M, ..., Chiarle R, van Oudenaarden A
Cell Rep 6 (1) 18-23 [2014-01-16; online 2013-12-27]
Advanced FISH Technologies [Technology development]
Metrics for the Human Proteome Project 2013-2014 and strategies for finding missing proteins.
Lane L, Bairoch A, Beavis RC, ..., Lundberg E, Omenn GS
J. Proteome Res. 13 (1) 15-20 [2014-01-03; online 2013-12-25]
Spatial Proteomics
A systematic analysis of commonly used antibodies in cancer diagnostics.
Gremel G, Bergman J, Djureinovic D, ..., Micke P, Pontén F
Histopathology 64 (2) 293-305 [2014-01-00; online 2013-12-18]
Tissue Profiling
A population-based assessment of germline HOXB13 G84E mutation and prostate cancer risk.
Karlsson R, Aly M, Clements M, ..., Grönberg H, Wiklund F
Eur. Urol. 65 (1) 169-176 [2014-01-00; online 2012-07-31]
Mutation Analysis Facility (MAF)
Translational study between structure and biological response of nanocellulose from wood and green algae
Hua K, Carlsson DO, Ålander E, ..., Mihranyan A, Ferraz N
RSC Adv. 4 (6) 2892-2903 [2014-00-00; online 2014-00-00]
BioMaterial Interactions (BioMat)