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Differential expression of viral agents in lymphoma tissues of patients with ABC diffuse large B-cell lymphoma from high and low endemic infectious disease regions.

Högfeldt T, Jaing C, Loughlin KM, Thissen J, Gardner S, Bahnassy AA, Gharizadeh B, Lundahl J, Österborg A, Porwit A, Zekri AN, Khaled HM, Mellstedt H, Moshfegh A.

Oncol Lett. 2016 Oct;12(4):2782-2788. Epub 2016 Aug 16.


Prevalence and genotype distribution of cervical human papillomavirus (HPV) among women in urban Tianjin, China.

Chen X, Wallin KL, Duan M, Gharizadeh B, Zheng B, Qu P.

J Med Virol. 2015 Nov;87(11):1966-72. doi: 10.1002/jmv.24248. Epub 2015 Jun 12.


Making sense of intratumor genetic heterogeneity: altered frequency of androgen receptor CAG repeat length variants in breast cancer tissues.

Gottlieb B, Alvarado C, Wang C, Gharizadeh B, Babrzadeh F, Richards B, Batist G, Basik M, Beitel LK, Trifiro M.

Hum Mutat. 2013 Apr;34(4):610-8. doi: 10.1002/humu.22287. Epub 2013 Mar 8.


Deep sequencing of the hepatitis B virus in hepatocellular carcinoma patients reveals enriched integration events, structural alterations and sequence variations.

Toh ST, Jin Y, Liu L, Wang J, Babrzadeh F, Gharizadeh B, Ronaghi M, Toh HC, Chow PK, Chung AY, Ooi LL, Lee CG.

Carcinogenesis. 2013 Apr;34(4):787-98. doi: 10.1093/carcin/bgs406. Epub 2012 Dec 30.


Whole-genome sequencing of the efficient industrial fuel-ethanol fermentative Saccharomyces cerevisiae strain CAT-1.

Babrzadeh F, Jalili R, Wang C, Shokralla S, Pierce S, Robinson-Mosher A, Nyren P, Shafer RW, Basso LC, de Amorim HV, de Oliveira AJ, Davis RW, Ronaghi M, Gharizadeh B, Stambuk BU.

Mol Genet Genomics. 2012 Jun;287(6):485-94. doi: 10.1007/s00438-012-0695-7. Epub 2012 May 6.


The shaping of modern human immune systems by multiregional admixture with archaic humans.

Abi-Rached L, Jobin MJ, Kulkarni S, McWhinnie A, Dalva K, Gragert L, Babrzadeh F, Gharizadeh B, Luo M, Plummer FA, Kimani J, Carrington M, Middleton D, Rajalingam R, Beksac M, Marsh SG, Maiers M, Guethlein LA, Tavoularis S, Little AM, Green RE, Norman PJ, Parham P.

Science. 2011 Oct 7;334(6052):89-94. doi: 10.1126/science.1209202. Epub 2011 Aug 25.


Although divergent in residues of the peptide binding site, conserved chimpanzee Patr-AL and polymorphic human HLA-A*02 have overlapping peptide-binding repertoires.

Gleimer M, Wahl AR, Hickman HD, Abi-Rached L, Norman PJ, Guethlein LA, Hammond JA, Draghi M, Adams EJ, Juo S, Jalili R, Gharizadeh B, Ronaghi M, Garcia KC, Hildebrand WH, Parham P.

J Immunol. 2011 Feb 1;186(3):1575-88. doi: 10.4049/jimmunol.1002990. Epub 2011 Jan 5.


High-fidelity gene synthesis by retrieval of sequence-verified DNA identified using high-throughput pyrosequencing.

Matzas M, Stähler PF, Kefer N, Siebelt N, Boisguérin V, Leonard JT, Keller A, Stähler CF, Häberle P, Gharizadeh B, Babrzadeh F, Church GM.

Nat Biotechnol. 2010 Dec;28(12):1291-4. doi: 10.1038/nbt.1710. Epub 2010 Nov 28.


Pyrosequencing enhancement for better detection limit and sequencing homopolymers.

Gong M, Foo SH, Lin L, Liu ET, Gharizadeh B, Goel S.

Biochem Biophys Res Commun. 2010 Oct 8;401(1):117-23. doi: 10.1016/j.bbrc.2010.09.022. Epub 2010 Sep 15.


Nucleic acid template and the risk of a PCR-Induced HIV-1 drug resistance mutation.

Varghese V, Wang E, Babrzadeh F, Bachmann MH, Shahriar R, Liu T, Mappala SJ, Gharizadeh B, Fessel WJ, Katzenstein D, Kassaye S, Shafer RW.

PLoS One. 2010 Jun 7;5(6):e10992. doi: 10.1371/journal.pone.0010992.


Six RNA viruses and forty-one hosts: viral small RNAs and modulation of small RNA repertoires in vertebrate and invertebrate systems.

Parameswaran P, Sklan E, Wilkins C, Burgon T, Samuel MA, Lu R, Ansel KM, Heissmeyer V, Einav S, Jackson W, Doukas T, Paranjape S, Polacek C, dos Santos FB, Jalili R, Babrzadeh F, Gharizadeh B, Grimm D, Kay M, Koike S, Sarnow P, Ronaghi M, Ding SW, Harris E, Chow M, Diamond MS, Kirkegaard K, Glenn JS, Fire AZ.

PLoS Pathog. 2010 Feb 12;6(2):e1000764. doi: 10.1371/journal.ppat.1000764.


High throughput sequencing reveals a complex pattern of dynamic interrelationships among human T cell subsets.

Wang C, Sanders CM, Yang Q, Schroeder HW Jr, Wang E, Babrzadeh F, Gharizadeh B, Myers RM, Hudson JR Jr, Davis RW, Han J.

Proc Natl Acad Sci U S A. 2010 Jan 26;107(4):1518-23. doi: 10.1073/pnas.0913939107. Epub 2010 Jan 4.


Minority variants associated with transmitted and acquired HIV-1 nonnucleoside reverse transcriptase inhibitor resistance: implications for the use of second-generation nonnucleoside reverse transcriptase inhibitors.

Varghese V, Shahriar R, Rhee SY, Liu T, Simen BB, Egholm M, Hanczaruk B, Blake LA, Gharizadeh B, Babrzadeh F, Bachmann MH, Fessel WJ, Shafer RW.

J Acquir Immune Defic Syndr. 2009 Nov 1;52(3):309-15. doi: 10.1097/QAI.0b013e3181bca669.


Ultra-deep pyrosequencing of hepatitis B virus quasispecies from nucleoside and nucleotide reverse-transcriptase inhibitor (NRTI)-treated patients and NRTI-naive patients.

Margeridon-Thermet S, Shulman NS, Ahmed A, Shahriar R, Liu T, Wang C, Holmes SP, Babrzadeh F, Gharizadeh B, Hanczaruk B, Simen BB, Egholm M, Shafer RW.

J Infect Dis. 2009 May 1;199(9):1275-85. doi: 10.1086/597808.


Minority human immunodeficiency virus type 1 variants in antiretroviral-naive persons with reverse transcriptase codon 215 revertant mutations.

Mitsuya Y, Varghese V, Wang C, Liu TF, Holmes SP, Jayakumar P, Gharizadeh B, Ronaghi M, Klein D, Fessel WJ, Shafer RW.

J Virol. 2008 Nov;82(21):10747-55. doi: 10.1128/JVI.01827-07. Epub 2008 Aug 20.


High throughput automated allele frequency estimation by pyrosequencing.

Doostzadeh J, Shokralla S, Absalan F, Jalili R, Mohandessi S, Langston JW, Davis RW, Ronaghi M, Gharizadeh B.

PLoS One. 2008 Jul 16;3(7):e2693. doi: 10.1371/journal.pone.0002693.


Viral population estimation using pyrosequencing.

Eriksson N, Pachter L, Mitsuya Y, Rhee SY, Wang C, Gharizadeh B, Ronaghi M, Shafer RW, Beerenwinkel N.

PLoS Comput Biol. 2008 May 9;4(4):e1000074. doi: 10.1371/journal.pcbi.1000074.


Human papillomavirus (HPV), DNA aberrations and cell cycle progression in anal squamous cell carcinoma patients.

Laytragoon-Lewin N, Nilsson PJ, Castro J, Gharizadeh B, Nyren P, Glimelius B, Elmberger G, Turesson I, Svensson C.

Anticancer Res. 2007 Nov-Dec;27(6C):4473-9.


Pyrosequencing for discovery and analysis of DNA sequence variations.

Ronaghi M, Shokralla S, Gharizadeh B.

Pharmacogenomics. 2007 Oct;8(10):1437-41. Review.


A pyrosequencing-tailored nucleotide barcode design unveils opportunities for large-scale sample multiplexing.

Parameswaran P, Jalili R, Tao L, Shokralla S, Gharizadeh B, Ronaghi M, Fire AZ.

Nucleic Acids Res. 2007;35(19):e130. Epub 2007 Oct 11.


Does HPV-status 6-12 months after treatment of high grade dysplasia in the uterine cervix predict long term recurrence?

Strander B, Ryd W, Wallin KL, Wärleby B, Zheng B, Milsom I, Gharizadeh B, Pourmand N, Andersson-Ellström A.

Eur J Cancer. 2007 Aug;43(12):1849-55. Epub 2007 Jul 5.


Characterization of mutation spectra with ultra-deep pyrosequencing: application to HIV-1 drug resistance.

Wang C, Mitsuya Y, Gharizadeh B, Ronaghi M, Shafer RW.

Genome Res. 2007 Aug;17(8):1195-201. Epub 2007 Jun 28.


Single-nucleotide polymorphisms in the B7H3 gene are not associated with human autoimmune myasthenia gravis.

Sakthivel P, Wang X, Gharizadeh B, Giscombe R, Pirskanen R, Nyren P, Lefvert AK.

J Genet. 2006 Dec;85(3):217-20. No abstract available.


Molecular characterization of Neisseria gonorrhoeae identifies transmission and resistance of one ciprofloxacin-resistant strain.

Unemo M, Sjöstrand A, Akhras M, Gharizadeh B, Lindbäck E, Pourmand N, Wretlind B, Fredlund H.

APMIS. 2007 Mar;115(3):231-41.


Pyrosequencing of the DNA gyrase gene in Neisseria species: effective indicator of ciprofloxacin resistance in Neisseria gonorrhoeae.

Lindbäck E, Unemo M, Akhras M, Gharizadeh B, Fredlund H, Pourmand N, Wretlind B.

APMIS. 2006 Dec;114(12):837-41.


Genetic polymorphism of chemokine receptors CCR2 and CCR5 in Swedish cervical cancer patients.

Zheng B, Wiklund F, Gharizadeh B, Sadat M, Gambelunghe G, Hallmans G, Dillner J, Wallin KL, Ghaderi M.

Anticancer Res. 2006 Sep-Oct;26(5B):3669-74.


MHC2TA single nucleotide polymorphism and genetic risk for autoimmune adrenal insufficiency.

Ghaderi M, Gambelunghe G, Tortoioli C, Brozzetti A, Jatta K, Gharizadeh B, De Bellis A, Pecori Giraldi F, Terzolo M, Betterle C, Falorni A.

J Clin Endocrinol Metab. 2006 Oct;91(10):4107-11. Epub 2006 Jul 18.


Large-scale pyrosequencing of synthetic DNA: a comparison with results from Sanger dideoxy sequencing.

Gharizadeh B, Herman ZS, Eason RG, Jejelowo O, Pourmand N.

Electrophoresis. 2006 Aug;27(15):3042-7.


Methodological improvements of pyrosequencing technology.

Gharizadeh B, Akhras M, Nourizad N, Ghaderi M, Yasuda K, Nyrén P, Pourmand N.

J Biotechnol. 2006 Jul 25;124(3):504-11. Epub 2006 Mar 10.


Sentinel-base DNA genotyping using multiple sequencing primers for high-risk human papillomaviruses.

Gharizadeh B, Zheng B, Akhras M, Ghaderi M, Jejelowo O, Strander B, Nyrén P, Wallin KL, Pourmand N.

Mol Cell Probes. 2006 Jun-Aug;20(3-4):230-8. Epub 2006 Mar 3.


Influence of eotaxin 67G>A polymorphism on plasma eotaxin concentrations in myocardial infarction survivors and healthy controls.

Sheikine Y, Olsen B, Gharizadeh B, Jatta K, Tornvall P, Ghaderi M.

Atherosclerosis. 2006 Dec;189(2):458-63. Epub 2006 Feb 28.


Detection of gyrA mutations associated with ciprofloxacin resistance in Neisseria gonorrhoeae by rapid and reliable pre-programmed short DNA sequencing.

Gharizadeh B, Akhras M, Unemo M, Wretlind B, Nyrén P, Pourmand N.

Int J Antimicrob Agents. 2005 Dec;26(6):486-90. Epub 2005 Nov 7.


Tag-array based HPV genotyping by competitive hybridization and extension.

Käller M, Hultin E, Zheng B, Gharizadeh B, Wallin KL, Lundeberg J, Ahmadian A.

J Virol Methods. 2005 Nov;129(2):102-12.


Type-specific multiple sequencing primers: a novel strategy for reliable and rapid genotyping of human papillomaviruses by pyrosequencing technology.

Gharizadeh B, Oggionni M, Zheng B, Akom E, Pourmand N, Ahmadian A, Wallin KL, Nyrén P.

J Mol Diagn. 2005 May;7(2):198-205.


DNA gyrase gene in Neisseria gonorrhoeae as indicator for resistance to ciprofloxacin and species verification.

Lindbäck E, Gharizadeh B, Ataker F, Airell A, Jalal S, Nyrén P, Wretlind B.

Int J STD AIDS. 2005 Feb;16(2):142-7.


7-Deaza-2'-deoxyadenosine-5'-triphosphate as an alternative nucleotide for the pyrosequencing technology.

Eriksson J, Gharizadeh B, Nourizad N, Nyrén P.

Nucleosides Nucleotides Nucleic Acids. 2004;23(10):1583-94.


A mathematical model of the Pyrosequencing reaction system.

Svantesson A, Westermark PO, Kotaleski JH, Gharizadeh B, Lansner A, Nyrén P.

Biophys Chem. 2004 Jul 1;110(1-2):129-45.


Improvements in Pyrosequencing technology by employing Sequenase polymerase.

Gharizadeh B, Eriksson J, Nourizad N, Nordström T, Nyrén P.

Anal Biochem. 2004 Jul 15;330(2):272-80.


Lack of association of human chemokine receptor gene polymorphisms CCR2-64I and CCR5-Delta32 with autoimmune Addison's disease.

Gambelunghe G, Ghaderi M, Gharizadeh B, Brozzetti A, Tortoioli C, Del Sindaco P, Sanjeevi CB, Hjelmström P, Sirsjö A, Nyren P, Santeusanio F, Falorni A.

Eur J Immunogenet. 2004 Apr;31(2):73-6.


Identification of medically important fungi by the Pyrosequencing technology.

Gharizadeh B, Norberg E, Löffler J, Jalal S, Tollemar J, Einsele H, Klingspor L, Nyrén P.

Mycoses. 2004 Feb;47(1-2):29-33.


Pyrosequencing trade mark technology at elevated temperature.

Eriksson J, Gharizadeh B, Nordström T, Nyrén P.

Electrophoresis. 2004 Jan;25(1):20-7.


Viral and microbial genotyping by a combination of multiplex competitive hybridization and specific extension followed by hybridization to generic tag arrays.

Gharizadeh B, Käller M, Nyrén P, Andersson A, Uhlén M, Lundeberg J, Ahmadian A.

Nucleic Acids Res. 2003 Nov 15;31(22):e146.


Genotypes of CCR2 and CCR5 chemokine receptors in human myasthenia gravis.

Zhao X, Gharizadeh B, Hjelmström P, Pirskanen R, Nyrén P, Lefvert AK, Ghaderi M.

Int J Mol Med. 2003 Nov;12(5):749-53.


Multiple group-specific sequencing primers for reliable and rapid DNA sequencing.

Gharizadeh B, Ohlin A, Mölling P, Bäckman A, Amini B, Olcén P, Nyrén P.

Mol Cell Probes. 2003 Aug;17(4):203-10.


Method for clone checking.

Nourizad N, Gharizadeh B, Nyrén P.

Electrophoresis. 2003 Jun;24(11):1712-5.


Lack of association of CCR2-64I and CCR5-Delta 32 with type 1 diabetes and latent autoimmune diabetes in adults.

Gambelunghe G, Ghaderi M, Brozzetti A, Del Sindaco P, Gharizadeh B, Nyren P, Hjelmström P, Nikitina-Zake L, Sanjeevi CB, Falorni A; Umbria Type 1 Diabetes Registry.

Hum Immunol. 2003 Jun;64(6):629-32.


Multiple-primer DNA sequencing method.

Gharizadeh B, Ghaderi M, Donnelly D, Amini B, Wallin KL, Nyrén P.

Electrophoresis. 2003 Apr;24(7-8):1145-51.


Methylotrophic yeast Pichia pastoris as a host for production of ATP-diphosphohydrolase (apyrase) from potato tubers (Solanum tuberosum).

Nourizad N, Ehn M, Gharizadeh B, Hober S, Nyrén P.

Protein Expr Purif. 2003 Feb;27(2):229-37.


Genotyping by apyrase-mediated allele-specific extension.

Ahmadian A, Gharizadeh B, O'Meara D, Odeberg J, Lundeberg J.

Nucleic Acids Res. 2001 Dec 15;29(24):E121.


Long-read pyrosequencing using pure 2'-deoxyadenosine-5'-O'-(1-thiotriphosphate) Sp-isomer.

Gharizadeh B, Nordström T, Ahmadian A, Ronaghi M, Nyrén P.

Anal Biochem. 2002 Feb 1;301(1):82-90.


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