Publications 2016

671 publications

Zebrafish (Danio rerio) behaviour is largely unaffected by elevated pCO2.
Vossen LE, Jutfelt F, Cocco A, Thörnqvist P, Winberg S
pii: cow065 pmc: PMC5196029
Conserv Physiol 4 (1) cow065 [2016-12-29; online 2016-12-29]
Genome Engineering Zebrafish [Service]
TRPM8 polymorphisms associated with increased risk of IBS-C and IBS-M.
Henström M, Hadizadeh F, Beyder A, ..., Farrugia G, D'Amato M
pii: gutjnl-2016-313346
Gut - (-) - [2016-12-14; online 2016-12-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
The protein phosphatase 2A regulatory subunit PR70 is a gonosomal melanoma tumor suppressor gene.
van Kempen LC, Redpath M, Elchebly M, ..., Feunteun J, Spatz A
pii: 8/369/369ra177
Sci Transl Med 8 (369) 369ra177 [2016-12-14; online 2016-12-16]
Tissue Profiling [Collaborative]
Frequent NFKBIE deletions are associated with poor outcome in primary mediastinal B-cell lymphoma.
Mansouri L, Noerenberg D, Young E, ..., Rosenquist R, Damm F
pii: blood-2016-03-704528
Blood 128 (23) 2666-2670 [2016-12-08; online 2016-09-28]
Clinical Genomics Uppsala [Collaborative]
PDGFB, a new candidate plasma biomarker for venous thromboembolism: results from the VEREMA affinity proteomics study.
Bruzelius M, Iglesias MJ, Hong MG, ..., Trégouët DA, Odeberg J
pii: blood-2016-05-711846
Blood 128 (23) e59-e66 [2016-12-08; online 2016-10-16]
Plasma Profiling [Collaborative]
An oxygen-sensitive toxin-antitoxin system.
Marimon O, Teixeira JM, Cordeiro TN, ..., Wood TK, Pons M
pii: ncomms13634 pmc: PMC5155140
Nat Commun 7 (-) 13634 [2016-12-08; online 2016-12-08]
Swedish NMR Centre (SNC) [Collaborative]
Dissecting the Metabolic Role of Mitochondria during Developmental Leaf Senescence.
Chrobok D, Law SR, Brouwer B, ..., Gardeström P, Keech O
pii: pp.16.01463 pmc: PMC5129728
Plant Physiol. 172 (4) 2132-2153 [2016-12-00; online 2016-10-21]
Swedish Metabolomics Centre (SMC) [Service]
Application of amide hydrogen/deuterium exchange mass spectrometry for epitope mapping in human cystatin C.
Prądzińska M, Behrendt I, Astorga-Wells J, ..., Rodziewicz-Motowidło S, Czaplewska P
pii: 10.1007/s00726-016-2316-y pmc: PMC5107209
Amino Acids 48 (12) 2809-2820 [2016-12-00; online 2016-08-29]
Advanced Mass Spectrometry Proteomics [Collaborative] Chemical Proteomics [Collaborative]
The endosomal transcriptional regulator RNF11 integrates degradation and transport of EGFR.
Scharaw S, Iskar M, Ori A, ..., Bork P, Pepperkok R
pii: jcb.201601090 pmc: PMC5119934
J. Cell Biol. 215 (4) 543-558 [2016-11-21; online 2016-11-08]
Cell Profiling [Collaborative]
Nuclear Magnetic Resonance Structure and Mutational Analysis of the Lactococcin A Immunity Protein.
Kristiansen PE, Persson C, Fuochi V, ..., Nissen-Meyer J, Oppegård C
pii: 10.1021/acs.biochem.6b00848
Biochemistry 55 (45) 6250-6257 [2016-11-15; online 2016-11-04]
Swedish NMR Centre (SNC) [Collaborative]
Periostin is identified as a putative metastatic marker in breast cancer-derived exosomes.
Vardaki I, Ceder S, Rutishauser D, ..., Foukakis T, Panaretakis T
pii: 11663 pmc: PMC5342715
Oncotarget 7 (46) 74966-74978 [2016-11-15; online 2016-09-03]
Advanced Mass Spectrometry Proteomics [Collaborative]
Study on genetic stability in human urothelial cells in vitro.
Chamorro CI, Zeiai S, Reinfeldt Engberg G, ..., Nordenskjöld A, Fossum M
J Tissue Eng Regen Med - (-) - [2016-11-12; online 2016-11-12]
Bioinformatics and Expression Analysis (BEA) [Service]
DcR3, TFF3, and Midkine Are Novel Serum Biomarkers in Small Intestinal Neuroendocrine Tumors.
Edfeldt K, Daskalakis K, Bäcklin C, ..., Hellman P, Stålberg P
pii: 000452891
Neuroendocrinology 105 (2) 170-181 [2016-11-09; online 2016-11-09]
Clinical Biomarkers [Service]
Case-specific potentiation of glioblastoma drugs by pterostilbene.
Schmidt L, Baskaran S, Johansson P, ..., Krona C, Nelander S
pii: 12298 pmc: PMC5341973
Oncotarget 7 (45) 73200-73215 [2016-11-08; online 2016-10-01]
Drug Discovery and Development (DDD) [Collaborative]
Looking for Missing Proteins in the Proteome of Human Spermatozoa: An Update.
Vandenbrouck Y, Lane L, Carapito C, ..., Garin J, Pineau C
J. Proteome Res. 15 (11) 3998-4019 [2016-11-04; online 2016-08-23]
Tissue Profiling [Collaborative]
Isolation and characterization of autoantibodies against human cystatin C.
Prądzińska M, Behrendt I, Spodzieja M, ..., Macur K, Czaplewska P
pii: 10.1007/s00726-016-2271-7
Amino Acids 48 (11) 2501-2518 [2016-11-00; online 2016-06-08]
Advanced Mass Spectrometry Proteomics [Collaborative] Chemical Proteomics [Collaborative]
A ribonucleotide reductase inhibitor with deoxyribonucleoside-reversible cytotoxicity.
Crona M, Codó P, Jonna VR, ..., Fernandes AP, Tholander F
pii: S1574-7891(16)30068-0
Mol Oncol 10 (9) 1375-1386 [2016-11-00; online 2016-07-26]
Protein Science Facility (PSF) [Service]
Central Metabolic Responses to Ozone and Herbivory Affect Photosynthesis and Stomatal Closure.
Papazian S, Khaling E, Bonnet C, ..., Blande JD, Albrectsen BR
pii: pp.16.01318 pmc: PMC5100778
Plant Physiol. 172 (3) 2057-2078 [2016-11-00; online 2016-10-21]
Swedish Metabolomics Centre (SMC) [Service]
Long-term outcome in young women with breast cancer: a population-based study.
Fredholm H, Magnusson K, Lindström LS, ..., Frisell J, Fredriksson I
pii: 10.1007/s10549-016-3983-9 pmc: PMC5050247
Breast Cancer Res. Treat. 160 (1) 131-143 [2016-11-00; online 2016-09-13]
Tissue Profiling [Collaborative]
The H3 chaperone function of NASP is conserved in Arabidopsis.
Maksimov V, Nakamura M, Wildhaber T, ..., Bergquist J, Hennig L
Plant J. 88 (3) 425-436 [2016-11-00; online 2016-09-15]
Mass Spectrometry-based Proteomics, Uppsala [Collaborative]
Effects of cigarette smoking on cardiovascular-related protein profiles in two community-based cohort studies.
Huang B, Svensson P, Ärnlöv J, ..., Lind L, Ingelsson E
pii: S0021-9150(16)31328-4
Atherosclerosis 254 (-) 52-58 [2016-11-00; online 2016-09-30]
Clinical Biomarkers [Service]
Rapid Newcastle Disease Virus Detection Based on Loop-Mediated Isothermal Amplification and Optomagnetic Readout
Tian B, Ma J, Zardán Gómez de la Torre T, ..., Svedlindh P, Strömberg M
ACS Sens. 1 (10) 1228-1234 [2016-10-28; online 2016-10-28]
BioMaterial Interactions (BioMat) [Collaborative]
(13)C NMR assignments of regenerated cellulose from solid-state 2D NMR spectroscopy.
Idström A, Schantz S, Sundberg J, ..., Gatenholm P, Nordstierna L
pii: S0144-8617(16)30651-8
Carbohydr Polym 151 (-) 480-487 [2016-10-20; online 2016-05-31]
Swedish NMR Centre (SNC) [Service]
Databases and Associated Tools for Glycomics and Glycoproteomics.
Lisacek F, Mariethoz J, Alocci D, ..., Jin C, Karlsson NG
Methods Mol. Biol. 1503 (-) 235-264 [2016-10-16; online 2016-10-16]
Glycoproteomics [Collaborative]
High-Throughput Analysis of the Plasma N-Glycome by UHPLC.
Adamczyk B, Stöckmann H, O'Flaherty R, Karlsson NG, Rudd PM
Methods Mol. Biol. 1503 (-) 97-108 [2016-10-16; online 2016-10-16]
Glycoproteomics [Technology development]
Analysis of the brain mural cell transcriptome.
He L, Vanlandewijck M, Raschperger E, ..., Keller A, Betsholtz C
pii: srep35108 pmc: PMC5057134
Sci Rep 6 (-) 35108 [2016-10-11; online 2016-10-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
Single-Cell Transcriptome Profiling of Human Pancreatic Islets in Health and Type 2 Diabetes.
Segerstolpe Å, Palasantza A, Eliasson P, ..., Ämmälä C, Sandberg R
pii: S1550-4131(16)30436-3 pmc: PMC5069352
Cell Metab. 24 (4) 593-607 [2016-10-11; online 2016-09-27]
Eukaryotic Single Cell Genomics (ESCG) [Service]
Supersaturation of poorly soluble drugs induced by mesoporous magnesium carbonate.
Zhang P, Zardán Gómez de la Torre T, Welch K, Bergström C, Strømme M
pii: S0928-0987(16)30347-5
Eur J Pharm Sci 93 (-) 468-474 [2016-10-10; online 2016-08-31]
BioMaterial Interactions (BioMat) [Service]
Estrogen Receptor α Promotes Breast Cancer by Reprogramming Choline Metabolism.
Jia M, Andreassen T, Jensen L, ..., Moestue SA, Dahlman-Wright K
pii: 0008-5472.CAN-15-2910
Cancer Res. 76 (19) 5634-5646 [2016-10-01; online 2016-07-28]
Swedish Metabolomics Centre (SMC) [Service]
Gene‐specific correlation of RNA and protein levels in human cells and tissues
Edfors F, Danielsson F, Hallström BM, ..., Forsström B, Uhlén M
Mol. Syst. Biol. 12 (10) 883 [2016-10-00; online 2016-10-20]
Tissue Profiling [Collaborative]
Biophysics in drug discovery: impact, challenges and opportunities.
Renaud JP, Chung CW, Danielson UH, ..., Hubbard RE, Nar H
pii: nrd.2016.123
Nat Rev Drug Discov 15 (10) 679-698 [2016-10-00; online 2016-08-16]
Drug Discovery and Development (DDD) [Technology development]
A proposal for validation of antibodies.
Uhlen M, Bandrowski A, Carr S, ..., Snyder M, Yamamoto T
pii: nmeth.3995
Nat. Methods 13 (10) 823-827 [2016-10-00; online 2016-09-07]
Cell Profiling [Collaborative]
Autoantibodies Targeting a Collecting Duct-Specific Water Channel in Tubulointerstitial Nephritis.
Landegren N, Pourmousa Lindberg M, Skov J, ..., Fenton RA, Kämpe O
pii: ASN.2015101126 pmc: PMC5042672
J. Am. Soc. Nephrol. 27 (10) 3220-3228 [2016-10-00; online 2016-03-18]
PLA and Single Cell Proteomics [Service]
Direct acquisition of organic N by white clover even in the presence of inorganic N
Czaban W, Jämtgård S, Näsholm T, ..., Nicolaisen M, Fomsgaard IS
Plant Soil 407 (1-2) 91-107 [2016-10-00; online 2016-04-15]
Swedish Metabolomics Centre (SMC) [Service]
Analysis of Body-wide Unfractionated Tissue Data to Identify a Core Human Endothelial Transcriptome.
Butler LM, Hallström BM, Fagerberg L, ..., Renné T, Odeberg J
pii: S2405-4712(16)30256-3
Cell Syst 3 (3) 287-301.e3 [2016-09-28; online 2016-09-15]
Tissue Profiling [Collaborative]
Exploration of high-density protein microarrays for antibody validation and autoimmunity profiling.
Sjöberg R, Mattsson C, Andersson E, ..., Ayoglu B, Nilsson P
pii: S1871-6784(15)00154-5
N Biotechnol 33 (5 Pt A) 582-592 [2016-09-25; online 2015-09-30]
Autoimmunity Profiling [Technology development]
Naphthalene Derivatives from the Roots of Pentas parvifolia and Pentas bussei.
Abdissa N, Pan F, Gruhonjic A, ..., Yenesew A, Erdélyi M
J. Nat. Prod. 79 (9) 2181-2187 [2016-09-23; online 2016-08-12]
Swedish NMR Centre (SNC) [Service]
Genetic Spectrum of Idiopathic Restrictive Cardiomyopathy Uncovered by Next-Generation Sequencing.
Kostareva A, Kiselev A, Gudkova A, ..., Sejersen T, Shlyakhto E
pmc: PMC5035084 pii: PONE-D-16-01559
PLoS ONE 11 (9) e0163362 [2016-09-23; online 2016-09-23]
Clinical Genomics Stockholm [Service]
Linkage between Fitness of Yeast Cells and Adenylate Kinase Catalysis
Tükenmez H, Magnussen HM, Kovermann M, Byström A, Wolf-Watz M
PLoS ONE 11 (9) e0163115 [2016-09-19; online 2016-09-19]
Swedish NMR Centre (SNC) [Service]
NUDT15 Hydrolyzes 6-Thio-DeoxyGTP to Mediate the Anticancer Efficacy of 6-Thioguanine.
Valerie NC, Hagenkort A, Page BD, ..., Jemth AS, Helleday T
pii: 0008-5472.CAN-16-0584
Cancer Res. 76 (18) 5501-5511 [2016-09-15; online 2016-08-16]
Protein Science Facility (PSF) [Service]
Multimodal Imaging of Chemically Fixed Cells in Preparation for NanoSIMS
Lovrić J, Malmberg P, Johansson BR, Fletcher JS, Ewing AG
Anal. Chem. 88 (17) 8841-8848 [2016-09-06; online 2016-08-09]
Gothenburg Imaging Mass Spectrometry [Collaborative]
Repeated LPS Injection Induces Distinct Changes in the Kynurenine Pathway in Mice.
Larsson MK, Faka A, Bhat M, ..., Schwieler L, Erhardt S
pii: 10.1007/s11064-016-1939-4
Neurochem. Res. 41 (9) 2243-2255 [2016-09-00; online 2016-05-12]
Drug Discovery and Development (DDD) [Collaborative]
Clinical impact of recurrently mutated genes on lymphoma diagnostics: state-of-the-art and beyond.
Rosenquist R, Rosenwald A, Du MQ, ..., Stamatopoulos K, European Research Initiative on CLL (ERIC) and the European Association for Haematopathology (EAHP)
pii: haematol.2015.134510 pmc: PMC5060016
Haematologica 101 (9) 1002-1009 [2016-09-00; online 2016-09-02]
Clinical Genomics Uppsala [Collaborative]
Tissue microarray profiling in human heart failure.
Lal S, Nguyen L, Tezone R, ..., Li A, Dos Remedios C
Proteomics 16 (17) 2319-2326 [2016-09-00; online 2016-08-11]
Tissue Profiling [Collaborative]
Exploring structure and interactions of the bacterial adaptor protein YjbH by crosslinking mass spectrometry.
Al-Eryani Y, Ib Rasmussen M, Kjellström S, ..., Emanuelsson C, von Wachenfeldt C
Proteins 84 (9) 1234-1245 [2016-09-00; online 2016-06-15]
Targeted and Structural Proteomics [Service]
Autoantibody targets in vaccine-associated narcolepsy.
Häggmark-Månberg A, Zandian A, Forsström B, ..., Olsson T, Nilsson P
Autoimmunity 49 (6) 421-433 [2016-09-00; online 2016-05-22]
Autoimmunity Profiling [Collaborative]
Endarterectomy patients with elevated levels of circulating IL-16 have fewer cardiovascular events during follow-up.
Grönberg C, Asciutto G, Persson A, ..., Gonçalves I, Björkbacka H
pii: S1043-4666(16)30137-5
Cytokine 85 (-) 137-139 [2016-09-00; online 2016-06-28]
Clinical Biomarkers [Service]
Protein profiling in serum after traumatic brain injury in rats reveals potential injury markers.
Thelin EP, Just D, Frostell A, ..., Nilsson P, Bellander BM
pii: S0166-4328(16)30576-9
Behav. Brain Res. - (-) - [2016-08-31; online 2016-08-31]
Plasma Profiling [Collaborative]
Phosphorylation of Leukotriene C4 Synthase at Serine 36 Impairs Catalytic Activity.
Ahmad S, Ytterberg AJ, Thulasingam M, ..., Rinaldo-Matthis A, Haeggström JZ
J. Biol. Chem. 291 (35) 18410-18418 [2016-08-26; online 2016-06-30]
Advanced Mass Spectrometry Proteomics [Collaborative]
Enantioselective Organocatalyzed Transformations of β-Ketoesters.
Govender T, Arvidsson PI, Maguire GE, Kruger HG, Naicker T
Chem. Rev. 116 (16) 9375-9437 [2016-08-24; online 2016-07-28]
Drug Discovery and Development (DDD) [Collaborative]
Cinobufagin Modulates Human Innate Immune Responses and Triggers Antibacterial Activity.
Xie S, Spelmink L, Codemo M, ..., Henriques-Normark B, Olliver M
pii: PONE-D-16-09427 pmc: PMC4986986
PLoS ONE 11 (8) e0160734 [2016-08-16; online 2016-08-16]
Mass Spectrometry-based Proteomics, Uppsala [Service]
Metastasis Stimulation by Hypoxia and Acidosis-Induced Extracellular Lipid Uptake Is Mediated by Proteoglycan-Dependent Endocytosis.
Menard JA, Christianson HC, Kucharzewska P, ..., Johansson MC, Belting M
pii: 0008-5472.CAN-15-2831
Cancer Res. 76 (16) 4828-4840 [2016-08-15; online 2016-05-19]
Targeted and Structural Proteomics [Service]
Substituent Effects on the [N-I-N](+) Halogen Bond.
Carlsson AC, Mehmeti K, Uhrbom M, ..., Rissanen K, Erdélyi M
J. Am. Chem. Soc. 138 (31) 9853-9863 [2016-08-10; online 2016-06-17]
Swedish NMR Centre (SNC) [Service]
Inconsistent results in the analysis of ALK rearrangements in non-small cell lung cancer.
Mattsson JS, Brunnström H, Jabs V, ..., Micke P, Svensson MA
pii: 10.1186/s12885-016-2646-x pmc: PMC4974795
BMC Cancer 16 (-) 603 [2016-08-05; online 2016-08-05]
Tissue Profiling [Collaborative]
Mutation-Induced Population Shift in the MexR Conformational Ensemble Disengages DNA Binding: A Novel Mechanism for MarR Family Derepression.
Anandapadamanaban M, Pilstål R, Andresen C, ..., Wallner B, Sunnerhagen M
pii: S0969-2126(16)30133-2
Structure 24 (8) 1311-1321 [2016-08-02; online 2016-07-14]
Protein Science Facility (PSF) [Collaborative]
ω-3 Polyunsaturated Fatty Acid Biomarkers and Coronary Heart Disease: Pooling Project of 19 Cohort Studies.
Del Gobbo LC, Imamura F, Aslibekyan S, ..., Mozaffarian D, Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) Fatty Acids and Outcomes Research Consortium (FORCe)
JAMA Intern Med 176 (8) 1155-1166 [2016-08-01; online 2016-07-01]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
Profilin connects actin assembly with microtubule dynamics.
Nejedla M, Sadi S, Sulimenko V, ..., Aspenström P, Karlsson R
pii: mbc.E15-11-0799 pmc: PMC4966980
Mol. Biol. Cell 27 (15) 2381-2393 [2016-08-01; online 2016-06-17]
Advanced Light Microscopy (ALM) [Collaborative]
Kinetic investigation of human 5-lipoxygenase with arachidonic acid.
Mittal M, Kumar RB, Balagunaseelan N, ..., Haeggström JZ, Rinaldo-Matthis A
pii: S0960-894X(16)30636-9
Bioorg. Med. Chem. Lett. 26 (15) 3547-3551 [2016-08-01; online 2016-06-11]
Protein Science Facility (PSF) [Service]
Impact of ocean acidification on antimicrobial activity in gills of the blue mussel (Mytilus edulis).
Hernroth B, Baden S, Tassidis H, ..., Bergström Lind S, Bergquist J
pii: S1050-4648(16)30157-7
Fish Shellfish Immunol. 55 (-) 452-459 [2016-08-00; online 2016-06-08]
Mass Spectrometry-based Proteomics, Uppsala [Collaborative]
Intra-tumour IgA1 is common in cancer and is correlated with poor prognosis in bladder cancer.
Welinder C, Jirström K, Lehn S, ..., Danielsson L, Jansson B
pii: S2405-8440(16)30369-3 pii: e00143 pmc: PMC4992093
Heliyon 2 (8) e00143 [2016-08-00; online 2016-08-16]
Targeted and Structural Proteomics [Service]
Neuroprotective potential of Linezolid: a quantitative and distribution study via mass spectrometry.
Baijnath S, Shobo A, Bester LA, ..., Naicker T, Govender T
pii: 10.1007/s10735-016-9685-0
J. Mol. Histol. 47 (4) 429-435 [2016-08-00; online 2016-06-22]
Drug Discovery and Development (DDD) [Collaborative]
SATB2 is expressed in Merkel cell carcinoma.
Fukuhara M, Agnarsdóttir M, Edqvist PH, Coter A, Ponten F
pii: 10.1007/s00403-016-1655-6
Arch. Dermatol. Res. 308 (6) 449-454 [2016-08-00; online 2016-06-04]
Tissue Profiling [Technology development]
Analysis of neural crest-derived clones reveals novel aspects of facial development.
Kaucka M, Ivashkin E, Gyllborg D, ..., Hellander A, Adameyko I
pii: 1600060 pmc: PMC4972470
Sci Adv 2 (8) e1600060 [2016-08-00; online 2016-08-03]
Advanced Light Microscopy (ALM) [Collaborative]
Developmental exposure to progestins causes male bias and precocious puberty in zebrafish (Danio rerio).
Svensson J, Mustafa A, Fick J, Schmitz M, Brunström B
pii: S0166-445X(16)30173-4
Aquat. Toxicol. 177 (-) 316-323 [2016-08-00; online 2016-06-14]
Genome Engineering Zebrafish [Service]
Direct imaging of elemental distributions in tissue sections by laser ablation mass spectrometry.
Shariatgorji M, Nilsson A, Bonta M, ..., Limbeck A, Andrén PE
pii: S1046-2023(16)30154-2
Methods 104 (-) 86-92 [2016-07-15; online 2016-06-02]
National Resource for Mass Spectrometry Imaging [Service]
A C2HC zinc finger is essential for the RING-E2 interaction of the ubiquitin ligase RNF125.
Bijlmakers MJ, Teixeira JM, Boer R, ..., Pons M, Crosas B
pii: srep29232 pmc: PMC4944129
Sci Rep 6 (-) 29232 [2016-07-14; online 2016-07-14]
Swedish NMR Centre (SNC) [Collaborative]
Identification of Inhibitors of Pseudomonas aeruginosa Exotoxin-S ADP-Ribosyltransferase Activity.
Pinto AF, Ebrahimi M, Saleeb M, ..., Elofsson M, Schüler H
pii: 1087057116629923
J Biomol Screen 21 (6) 590-595 [2016-07-00; online 2016-02-05]
Protein Science Facility (PSF) [Service]
Prevention of apoptosis averts glomerular tubular disconnection and podocyte loss in proteinuric kidney disease.
Burlaka I, Nilsson LM, Scott L, ..., Brismar H, Aperia A
pii: S0085-2538(16)30114-4
Kidney Int. 90 (1) 135-148 [2016-07-00; online 2016-05-25]
Advanced Light Microscopy (ALM) [Collaborative]
Effects of Fluoxetine on Human Embryo Development.
Kaihola H, Yaldir FG, Hreinsson J, ..., Åkerud H, Sundström-Poromaa I
Front Cell Neurosci 10 (-) 160 [2016-06-16; online 2016-06-16]
Mass Spectrometry-based Proteomics, Uppsala [Collaborative]
Regulation of Bone Morphogenetic Protein Signaling by ADP-ribosylation
Watanabe Y, Papoutsoglou P, Maturi V, ..., Heldin CH, Moustakas A
J. Biol. Chem. 291 (24) 12706-12723 [2016-06-10; online 2016-04-21]
PLA and Single Cell Proteomics [Service]
Elevated levels of FN1 and CCL2 in bronchoalveolar lavage fluid from sarcoidosis patients.
Hamsten C, Wiklundh E, Grönlund H, ..., Grunewald J, Häggmark-Månberg A
pii: 10.1186/s12931-016-0381-0 pmc: PMC4893268
Respir. Res. 17 (1) 69 [2016-06-04; online 2016-06-04]
Plasma Profiling [Collaborative]
Aerobic exercise augments muscle transcriptome profile of resistance exercise.
Lundberg TR, Fernandez-Gonzalo R, Tesch PA, Rullman E, Gustafsson T
pii: ajpregu.00035.2016 pmc: PMC4935502
Am. J. Physiol. Regul. Integr. Comp. Physiol. 310 (11) R1279-R1287 [2016-06-01; online 2016-04-13]
Bioinformatics and Expression Analysis (BEA) [Service]
Guidance Molecule SEMA3A Restricts Tumor Growth by Differentially Regulating the Proliferation of Tumor-Associated Macrophages.
Wallerius M, Wallmann T, Bartish M, ..., Andersson J, Rolny C
pii: 0008-5472.CAN-15-2596
Cancer Res. 76 (11) 3166-3178 [2016-06-01; online 2016-04-06]
Tissue Profiling [Collaborative]
The oxidized phospholipid PazePC promotes permeabilization of mitochondrial membranes by Bax.
Lidman M, Pokorná Š, Dingeldein AP, ..., Hof M, Gröbner G
pii: S0005-2736(16)30080-3
Biochim. Biophys. Acta 1858 (6) 1288-1297 [2016-06-00; online 2016-03-04]
Swedish NMR Centre (SNC) [Collaborative]
Common and Rare Genetic Variation in CCR2, CCR5, or CX3CR1 and Risk of Atherosclerotic Coronary Heart Disease and Glucometabolic Traits.
Golbus JR, Stitziel NO, Zhao W, ..., Reilly MP, CARDIoGRAMplusC4D, Myocardial Infarction Genetics (MIGen), Exome Sequencing Project and Early-Onset Myocardial Infarction (ESP EOMI), and the Pakistan Risk of Myocardial Infarction Study (PROMIS) Consortia*
pii: CIRCGENETICS.115.001374 pmc: PMC5015681 mid: NIHMS771705
Circ Cardiovasc Genet 9 (3) 250-258 [2016-06-00; online 2016-03-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
Targeting Serglycin Prevents Metastasis in Murine Mammary Carcinoma.
Roy A, Femel J, Huijbers EJ, ..., Olsson AK, Åbrink M
pii: PONE-D-16-04737 pmc: PMC4880347 GEO: GSE67806
PLoS ONE 11 (5) e0156151 [2016-05-25; online 2016-05-25]
Array and Analysis Facility [Service]
New technologies for DNA analysis--a review of the READNA Project.
McGinn S, Bauer D, Brefort T, ..., Willcocks JP, Gut IG
pii: S1871-6784(15)00163-6
N Biotechnol 33 (3) 311-330 [2016-05-25; online 2015-10-31]
Clinical Genomics Uppsala [Collaborative]
Chroman-4-one and chromone based somatostatin β-turn mimetics.
Fridén-Saxin M, Seifert T, Malo M, ..., Grøtli M, Luthman K
pii: S0223-5234(16)30136-2
Eur J Med Chem 114 (-) 59-64 [2016-05-23; online 2016-02-21]
Swedish NMR Centre (SNC) [Service]
A combined computational and structural model of the full-length human prolactin receptor.
Bugge K, Papaleo E, Haxholm GW, ..., Lindorff-Larsen K, Kragelund BB
pii: ncomms11578 pmc: PMC4869255
Nat Commun 7 (-) 11578 [2016-05-13; online 2016-05-13]
Swedish NMR Centre (SNC) [Service]
The Effects of High Steady State Auxin Levels on Root Cell Elongation in Brachypodium.
Pacheco-Villalobos D, Díaz-Moreno SM, van der Schuren A, ..., Bulone V, Hardtke CS
pii: tpc.16.01057
Plant Cell - (-) - [2016-05-05; online 2016-05-05]
Swedish Metabolomics Centre (SMC) [Service]
Sister Chromatid Cohesion Establishment Factor ESCO1 Operates by Substrate-Assisted Catalysis.
Kouznetsova E, Kanno T, Karlberg T, ..., Sjögren C, Schüler H
pii: S0969-2126(16)30032-6
Structure 24 (5) 789-796 [2016-05-03; online 2016-04-21]
Protein Science Facility (PSF) [Service]
Multiplexed MALDI-MS arrays for screening of MIP solid phase extraction materials
Jagadeesan KK, Wierzbicka C, Laurell T, ..., Shinde S, Ekström S
Journal of Chromatography B 1021 (-) 213-220 [2016-05-00; online 2016-05-00]
Targeted and Structural Proteomics [Service]
Metabolomics study of fatigue in patients with rheumatoid arthritis naïve to biological treatment.
Surowiec I, Gjesdal CG, Jonsson G, ..., Trygg J, Omdal R
pii: 10.1007/s00296-016-3426-2
Rheumatol. Int. 36 (5) 703-711 [2016-05-00; online 2016-01-25]
Swedish Metabolomics Centre (SMC) [Service]
TOR Signaling and Nutrient Sensing.
Dobrenel T, Caldana C, Hanson J, ..., Veit B, Meyer C
Annu Rev Plant Biol 67 (-) 261-285 [2016-04-29; online 2016-02-26]
Swedish Metabolomics Centre (SMC) [Service]
Elevated Levels of SOX10 in Serum from Vitiligo and Melanoma Patients, Analyzed by Proximity Ligation Assay
Blokzijl A, Chen LE, Gustafsdottir SM, ..., Kamali-Moghaddam M, Hedstrand H
PLoS ONE 11 (4) e0154214 [2016-04-25; online 2016-04-25]
PLA and Single Cell Proteomics [Collaborative]
Hypoxia regulates global membrane protein endocytosis through caveolin-1 in cancer cells.
Bourseau-Guilmain E, Menard JA, Lindqvist E, ..., Welinder C, Belting M
pii: ncomms11371 pmc: PMC4842985
Nat Commun 7 (-) 11371 [2016-04-20; online 2016-04-20]
Targeted and Structural Proteomics [Service]
Na+-K+-ATPase, a new class of plasma membrane receptors.
Aperia A, Akkuratov EE, Fontana JM, Brismar H
pii: ajpcell.00359.2015
Am. J. Physiol., Cell Physiol. 310 (7) C491-C495 [2016-04-01; online 2016-01-23]
Advanced Light Microscopy (ALM) [Collaborative]
A saposin-lipoprotein nanoparticle system for membrane proteins.
Frauenfeld J, Löving R, Armache JP, ..., Cheng Y, Nordlund P
Nat. Methods 13 (4) 345-351 [2016-04-00; online 2016-03-07]
Protein Science Facility (PSF) [Service]
Immunostimulatory AdCD40L gene therapy combined with low-dose cyclophosphamide in metastatic melanoma patients
Loskog A, Maleka A, Mangsbo S, ..., Tötterman TH, Ullenhag G
Br J Cancer 114 (8) 872-880 [2016-04-00; online 2016-03-31]
Clinical Biomarkers [Service]
Global gray-level thresholding based on object size.
Ranefall P, Wählby C
cb.uu.se: http://www.cb.uu.se/~petter/downloads/CellClusters/ cb.uu.se: http://www.cb.uu.se/~petter/downloads/SIP/ murphylab.web.cmu.edu: http://murphylab.web.cmu.edu/data/2009_ISBI_Nuclei.html smal.we: http://smal.ws/wp/software/synthetic-data-generator/
Cytometry A 89 (4) 385-390 [2016-04-00; online 2016-01-23]
BioImage Informatics [Technology development]
Fish from Head to Tail: The 9th European Zebrafish Meeting in Oslo.
Griffiths G, Müller F, Ledin J, ..., Press CM, Aleström P
Zebrafish 13 (2) 132-137 [2016-04-00; online 2016-02-09]
Genome Engineering Zebrafish [Collaborative]
Multiplexed protein profiling by sequential affinity capture.
Ayoglu B, Birgersson E, Mezger A, ..., Nilsson P, Schwenk JM
Proteomics 16 (8) 1251-1256 [2016-04-00; online 2016-03-05]
Plasma Profiling [Technology development]
Solution structure of the calmodulin-like C-terminal domain of Entamoeba α-actinin2.
Karlsson G, Persson C, Mayzel M, Hedenström M, Backman L
Proteins 84 (4) 461-466 [2016-04-00; online 2016-02-05]
Swedish NMR Centre (SNC) [Collaborative]
Single-cell transcriptome analysis of endometrial tissue.
Krjutškov K, Katayama S, Saare M, ..., Salumets A, Kere J
pii: dew008 pmc: PMC4791917
Hum. Reprod. 31 (4) 844-853 [2016-04-00; online 2016-02-13]
Bioinformatics and Expression Analysis (BEA) [Service]
Super-resolution microscopy reveals γ-secretase at both sides of the neuronal synapse.
Schedin-Weiss S, Caesar I, Winblad B, Blom H, Tjernberg LO
pii: 10.1186/s40478-016-0296-5 pmc: PMC4818506
Acta Neuropathol Commun 4 (-) 29 [2016-03-31; online 2016-03-31]
Advanced Light Microscopy (ALM) [Collaborative]
A Facile Synthesis of NODASA-Functionalized Peptide
Naicker T, Albericio F, Dutta J, ..., Kruger H, Govender T
Synlett 27 (11) 1685-1688 [2016-03-30; online 2016-03-30]
Drug Discovery and Development (DDD) [Collaborative]
System-wide Clinical Proteomics of Breast Cancer Reveals Global Remodeling of Tissue Homeostasis.
Pozniak Y, Balint-Lahat N, Rudolph JD, ..., Barshack I, Geiger T
pii: S2405-4712(16)30031-X
Cell Syst 2 (3) 172-184 [2016-03-23; online 2016-03-03]
Tissue Profiling [Collaborative]
On-Water Synthesis of Biaryl Sulfonyl Fluorides.
Chinthakindi PK, Kruger HG, Govender T, Naicker T, Arvidsson PI
J. Org. Chem. 81 (6) 2618-2623 [2016-03-18; online 2016-02-24]
Drug Discovery and Development (DDD) [Collaborative]
Thiazolino 2-Pyridone Amide Inhibitors of Chlamydia trachomatis Infectivity.
Good JA, Silver J, Núñez-Otero C, ..., Bergström S, Almqvist F
J. Med. Chem. 59 (5) 2094-2108 [2016-03-10; online 2016-02-22]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
Analysis of the Cerebrospinal Fluid Proteome in Alzheimer's Disease.
Khoonsari PE, Häggmark A, Lönnberg M, ..., Kultima K, Shevchenko G
pii: PONE-D-15-44118 pmc: PMC4780771
PLoS ONE 11 (3) e0150672 [2016-03-07; online 2016-03-07]
Plasma Profiling [Collaborative]
Disruption of POGZ Is Associated with Intellectual Disability and Autism Spectrum Disorders.
Stessman HA, Willemsen MH, Fenckova M, ..., Eichler EE, Kleefstra T
pii: S0002-9297(16)00055-0 pmc: PMC4890241
Am. J. Hum. Genet. 98 (3) 541-552 [2016-03-03; online 2016-03-05]
Clinical Genomics Stockholm [Service]
Oncogene-Induced Senescence in Pituitary Adenomas--an Immunohistochemical Study.
Manojlovic-Gacic E, Skender-Gazibara M, Popovic V, ..., Pontén F, Casar-Borota O
pii: 10.1007/s12022-015-9405-4
Endocr. Pathol. 27 (1) 1-11 [2016-03-00; online 2015-11-18]
Tissue Profiling [Collaborative]
Biochemical Conversion of Torrefied Norway Spruce After Pretreatment with Acid or Ionic Liquid
Normark M, Pommer L, Gräsvik J, ..., Winestrand S, Jönsson LJ
Bioenerg. Res. 9 (1) 355-368 [2016-03-00; online 2015-11-26]
Swedish NMR Centre (SNC) [Collaborative]
The transcriptional coregulator MAML1 affects DNA methylation and gene expression patterns in human embryonic kidney cells.
Putnik M, Brodin D, Wojdacz TK, ..., Dahlman-Wright K, Wallberg AE
pii: 10.1007/s11033-016-3946-6
Mol. Biol. Rep. 43 (3) 141-150 [2016-03-00; online 2016-02-08]
Bioinformatics and Expression Analysis (BEA) [Service]
Characterization of genetic variation in TLR8 in relation to allergic rhinitis.
Henmyr V, Lind-Halldén C, Carlberg D, ..., Säll T, Cardell LO
Allergy 71 (3) 333-341 [2016-03-00; online 2015-11-12]
Mutation Analysis Facility (MAF)
Innovation in the prognostication of chronic lymphocytic leukemia: how far beyond TP53 gene analysis can we go?
Pospisilova S, Sutton LA, Malcikova J, ..., Ghia P, European Research Initiative on CLL (ERIC)
pii: haematol.2015.139246 pmc: PMC4815716
Haematologica 101 (3) 263-265 [2016-03-00; online 2016-03-02]
Clinical Genomics Uppsala [Service]
Efficient Isotope Editing of Proteins for Site-Directed Vibrational Spectroscopy.
Peuker S, Andersson H, Gustavsson E, ..., Erdelyi M, Westenhoff S
J. Am. Chem. Soc. 138 (7) 2312-2318 [2016-02-24; online 2016-02-10]
Swedish NMR Centre (SNC) [Collaborative]
The genome of the seagrass Zostera marina reveals angiosperm adaptation to the sea.
Olsen JL, Rouzé P, Verhelst B, ..., Reusch TB, Van de Peer Y
pii: nature16548 BioProject: PRJNA41721 GENBANK: KG963492 GENBANK: KG963493 GENBANK: KG963494 GENBANK: KG963495 GENBANK: KG963496 GENBANK: KG963497 GENBANK: KG963498 GENBANK: KG963499 GENBANK: KG963500 GENBANK: KG963501 GENBANK: KG963502 GENBANK: KG963503 GENBANK: KG963504 GENBANK: KG963505 GENBANK: KG963506 GENBANK: KG963507 GENBANK: KG963508 GENBANK: KG963509 GENBANK: KG963510 GENBANK: KG963511 GENBANK: KG963512 GENBANK: KG963513 GENBANK: KG963514 GENBANK: KG963515 GENBANK: KG963516 GENBANK: KG963517 GENBANK: KG963518 GENBANK: KG963519 GENBANK: KG963520 GENBANK: KG963521 GENBANK: KG963522 GENBANK: KG963523 GENBANK: KG963524 GENBANK: KG963525 GENBANK: KG963526 GENBANK: KG963527 GENBANK: KG963528 GENBANK: KG963529 GENBANK: KG963530 GENBANK: KG963531 GENBANK: KG963532 GENBANK: KG963533 GENBANK: KG963534 GENBANK: KG963535 GENBANK: KG963536 GENBANK: KG963537 GENBANK: KG963538 GENBANK: KG963539 GENBANK: KG963540 GENBANK: KG963541 GENBANK: KG963542 GENBANK: KG963543 GENBANK: KG963544 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KG963933 GENBANK: KG963934 GENBANK: KG963935 GENBANK: KG963936 GENBANK: KG963937 GENBANK: KG963938 GENBANK: KG963939 GENBANK: KG963940 GENBANK: KG963941 GENBANK: KG963942 GENBANK: KG963943 GENBANK: KG963944 GENBANK: KG963945 GENBANK: KG963946 GENBANK: KG963947 GENBANK: KG963948 GENBANK: KG963949 GENBANK: KG963950 GENBANK: KG963951 GENBANK: KG963952 GENBANK: KG963953 GENBANK: KG963954 GENBANK: KG963955 GENBANK: KG963956 GENBANK: KG963957 GENBANK: KG963958 GENBANK: KG963959 GENBANK: KG963960 GENBANK: KG963961 GENBANK: KG963962 GENBANK: KG963963 GENBANK: KG963964 GENBANK: KG963965 GENBANK: KG963966 GENBANK: KG963967 GENBANK: KG963968 GENBANK: KG963969 GENBANK: KG963970 GENBANK: KG963971 GENBANK: KG963972 GENBANK: KG963973 GENBANK: KG963974 GENBANK: KG963975 GENBANK: KG963976 GENBANK: KG963977 GENBANK: KG963978 GENBANK: KG963979 GENBANK: KG963980 GENBANK: KG963981 GENBANK: KG963982 GENBANK: KG963983 GENBANK: KG963984 GENBANK: KG963985 GENBANK: KG963986 GENBANK: KG963987 GENBANK: KG963988 GENBANK: KG963989 GENBANK: KG963990 GENBANK: KG963991 GENBANK: KG963992 GENBANK: KG963993 GENBANK: KG963994 GENBANK: KG963995 GENBANK: KG963996 GENBANK: KG963997 GENBANK: KG963998 GENBANK: KG963999 GENBANK: KG964000 GENBANK: KG964001 GENBANK: KG964002 GENBANK: KG964003 GENBANK: KG964004 GENBANK: KG964005 GENBANK: KG964006 GENBANK: KG964007 GENBANK: KG964008 GENBANK: KG964009 GENBANK: KG964010 GENBANK: KG964011 GENBANK: KG964012 GENBANK: KG964013 GENBANK: KG964014 GENBANK: KG964015 GENBANK: KG964016 GENBANK: KG964017 GENBANK: KG964018 GENBANK: KG964019 GENBANK: KG964020 GENBANK: KG964021 GENBANK: KG964022 GENBANK: KG964023 GENBANK: KG964024 GENBANK: KG964025 GENBANK: KG964026 GENBANK: KG964027 GENBANK: KG964028 GENBANK: KG964029 GENBANK: KG964030 GENBANK: KG964031 GENBANK: KG964032 GENBANK: KG964033 GENBANK: KG964034 GENBANK: KG964035 GENBANK: KG964036 GENBANK: KG964037 GENBANK: KG964038 GENBANK: KG964039 GENBANK: KG964040 GENBANK: KG964041 GENBANK: KG964042 GENBANK: KG964043 GENBANK: KG964044 GENBANK: KG964045 GENBANK: KG964046 GENBANK: KG964047 GENBANK: KG964048 GENBANK: KG964049 GENBANK: KG964050 GENBANK: KG964051 GENBANK: KG964052 GENBANK: KG964053 GENBANK: KG964054 GENBANK: KG964055 GENBANK: KG964056 GENBANK: KG964057 GENBANK: KG964058 GENBANK: KG964059 GENBANK: KG964060 GENBANK: KG964061 GENBANK: KG964062 GENBANK: KG964063 GENBANK: KG964064 GENBANK: KG964065 GENBANK: KG964066 GENBANK: KG964067 GENBANK: KG964068 GENBANK: KG964069 GENBANK: KG964070 GENBANK: KG964071 GENBANK: KG964072 GENBANK: KG964073 GENBANK: KG964074 GENBANK: KG964075 GENBANK: KG964076 GENBANK: KG964077 GENBANK: KG964078 GENBANK: KG964079 GENBANK: KG964080 GENBANK: KG964081 GENBANK: KG964082 GENBANK: KG964083 GENBANK: KG964084 GENBANK: KG964085 GENBANK: KG964086 GENBANK: KG964087 GENBANK: KG964088 GENBANK: KG964089 GENBANK: KG964090 GENBANK: KG964091 GENBANK: KG964092 GENBANK: KG964093 GENBANK: KG964094 GENBANK: KG964095 GENBANK: KG964096 GENBANK: KG964097 GENBANK: KG964098 GENBANK: KG964099 GENBANK: KG964100 GENBANK: KG964101 GENBANK: KG964102 GENBANK: KG964103 GENBANK: KG964104 GENBANK: KG964105 GENBANK: KG964106 GENBANK: KG964107 GENBANK: KG964108 GENBANK: KG964109 GENBANK: KG964110 GENBANK: KG964111 GENBANK: KG964112 GENBANK: KG964113 GENBANK: KG964114 GENBANK: KG964115 GENBANK: KG964116 GENBANK: KG964117 GENBANK: KG964118 GENBANK: KG964119 GENBANK: KG964120 GENBANK: KG964121 GENBANK: KG964122 GENBANK: KG964123 GENBANK: KG964124 GENBANK: KG964125 GENBANK: KG964126 GENBANK: KG964127 GENBANK: KG964128 GENBANK: KG964129 GENBANK: KG964130 GENBANK: KG964131 GENBANK: KG964132 GENBANK: KG964133 GENBANK: KG964134 GENBANK: KG964135 GENBANK: KG964136 GENBANK: KG964137 GENBANK: KG964138 GENBANK: KG964139 GENBANK: KG964140 GENBANK: KG964141 GENBANK: KG964142 GENBANK: KG964143 GENBANK: KG964144 GENBANK: KG964145 GENBANK: KG964146 GENBANK: KG964147 GENBANK: KG964148 GENBANK: KG964149 GENBANK: KG964150 GENBANK: KG964151 GENBANK: KG964152 GENBANK: KG964153 GENBANK: KG964154 GENBANK: KG964155 GENBANK: KG964156 GENBANK: KG964157 GENBANK: KG964158 GENBANK: KG964159 GENBANK: KG964160 GENBANK: KG964161 GENBANK: KG964162 GENBANK: KG964163 GENBANK: KG964164 GENBANK: KG964165 GENBANK: KG964166 GENBANK: KG964167 GENBANK: KG964168 GENBANK: KG964169 GENBANK: KG964170 GENBANK: KG964171 GENBANK: KG964172 GENBANK: KG964173 GENBANK: KG964174 GENBANK: KG964175 GENBANK: KG964176 GENBANK: KG964177 GENBANK: KG964178 GENBANK: KG964179 GENBANK: KG964180 GENBANK: KG964181 GENBANK: KG964182 GENBANK: KG964183 GENBANK: KG964184 GENBANK: KG964185 GENBANK: KG964186 GENBANK: KG964187 GENBANK: KG964188 GENBANK: KG964189 GENBANK: KG964190 GENBANK: KG964191 GENBANK: KG964192 GENBANK: KG964193 GENBANK: KG964194 GENBANK: KG964195 GENBANK: KG964196 GENBANK: KG964197 GENBANK: KG964198 GENBANK: KG964199 GENBANK: KG964200 GENBANK: KG964201 GENBANK: KG964202 GENBANK: KG964203 GENBANK: KG964204 GENBANK: KG964205 GENBANK: KG964206 GENBANK: KG964207 GENBANK: KG964208 GENBANK: KG964209 GENBANK: KG964210 GENBANK: KG964211 GENBANK: KG964212 GENBANK: KG964213 GENBANK: KG964214 GENBANK: KG964215 GENBANK: KG964216 GENBANK: KG964217 GENBANK: KG964218 GENBANK: KG964219 GENBANK: KG964220 GENBANK: KG964221 GENBANK: KG964222 GENBANK: KG964223 GENBANK: KG964224 GENBANK: KG964225 GENBANK: KG964226 GENBANK: KG964227 GENBANK: KG964228 GENBANK: KG964229 GENBANK: KG964230 GENBANK: KG964231 GENBANK: KG964232 GENBANK: KG964233 GENBANK: KG964234 GENBANK: KG964235 GENBANK: KG964236 GENBANK: KG964237 GENBANK: KG964238 GENBANK: KG964239 GENBANK: KG964240 GENBANK: KG964241 GENBANK: KG964242 GENBANK: KG964243 GENBANK: KG964244 GENBANK: KG964245 GENBANK: KG964246 GENBANK: KG964247 GENBANK: KG964248 GENBANK: KG964249 GENBANK: KG964250 GENBANK: KG964251 GENBANK: KG964252 GENBANK: KG964253 GENBANK: KG964254 GENBANK: KG964255 GENBANK: KG964256 GENBANK: KG964257 GENBANK: KG964258 GENBANK: KG964259 GENBANK: KG964260 GENBANK: KG964261 GENBANK: KG964262 GENBANK: KG964263 GENBANK: KG964264 GENBANK: KG964265 GENBANK: KG964266 GENBANK: KG964267 GENBANK: KG964268