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Henrik Bengtsson, PhD, MS

Title(s)Associate Professor, Epidemiology & Biostatistics
SchoolSchool of Medicine
Address1450 Third St
San Francisco CA 94158
Phone415-514-8033
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. A multibiomarker approach to predict prostate cancer pathology outcomes. Journal of Clinical Oncology. 2019 Mar 1; 37(7_suppl):58-58. Pamela Paris, Matthew R. Cooperberg, Janet Cowan, Karla Lindquist, Yasuko Kobayashi, Jeff Simko, Henrik Bengtsson, Khushboo L Singh, Lisa F. Newcomb, Daniel W. Lin, Peter Carroll. .
      View in: Publisher Site   Mentions:
    2. Improved accuracy assessment for 3D genome reconstructions. BMC Bioinformatics. 2018 05 30; 19(1):196. Segal MR, Bengtsson HL. PMID: 29848293.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    3. Genomic analysis of the origins and evolution of multicentric diffuse lower-grade gliomas. Neuro Oncol. 2018 04 09; 20(5):632-641. Hayes J, Yu Y, Jalbert LE, Mazor T, Jones LE, Wood MD, Walsh KM, Bengtsson H, Hong C, Oberndorfer S, Roetzer T, Smirnov IV, Clarke JL, Aghi MK, Chang SM, Nelson SJ, Woehrer A, Phillips JJ, Solomon DA, Costello JF. PMID: 29077933.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    4. Replication confers ß cell immaturity. Nat Commun. 2018 02 02; 9(1):485. Puri S, Roy N, Russ HA, Leonhardt L, French EK, Roy R, Bengtsson H, Scott DK, Stewart AF, Hebrok M. PMID: 29396395.
      View in: PubMed   Mentions: 5     Fields:    Translation:AnimalsCells
    5. GENE-33. THE 3D EVOLUTION AND IN VIVO GROWTH PATTERNS OF GLIOMA CELL POPULATIONS. Neuro-Oncology. 2017 Nov 6; 19(suppl_6):vi99-vi99. Stephanie Hilz, Samuel J Shelton, Llewellyn Jalbert, Hang K Wong, Tali Mazor, Chibo Hong, Josie Hayes, Tracy Luks, Henrik Bengtsson, Annette Molinaro, Michael McDermott, Mitchel S Berger, Daniel Lim, Aaron Diaz, Joanna J Phillips, Susan Chang, Sarah Nelson, Michael C Oldham, Joseph Costello. .
      View in: Publisher Site   Mentions:
    6. Validation of GEMCaP as a DNA Based Biomarker to Predict Prostate Cancer Recurrence after Radical Prostatectomy. J Urol. 2018 03; 199(3):719-725. Nguyen HG, Welty C, Lindquist K, Ngo V, Gilbert E, Bengtsson H, Magi-Galluzzi C, Jean-Gilles J, Yao J, Cooperberg M, Messing E, Klein EA, Carroll PR, Paris PL. PMID: 28941923.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    7. Clonal expansion and epigenetic reprogramming following deletion or amplification of mutant IDH1. Proc Natl Acad Sci U S A. 2017 10 03; 114(40):10743-10748. Mazor T, Chesnelong C, Pankov A, Jalbert LE, Hong C, Hayes J, Smirnov IV, Marshall R, Souza CF, Shen Y, Viswanath P, Noushmehr H, Ronen SM, Jones SJM, Marra MA, Cairncross JG, Perry A, Nelson SJ, Chang SM, Bollen AW, Molinaro AM, Bengtsson H, Olshen AB, Weiss S, Phillips JJ, Luchman HA, Costello JF. PMID: 28916733.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansCells
    8. PD71-05 VALIDATION OF GEMCAP AS A DNA BASED BIOMARKER TO PREDICT PROSTATE CANCER RECURRENCE AFTER RADICAL PROSTATECTOMY. The Journal of Urology. 2017 Apr 1; 197(4):e1357. Hao Nguyen, Christopher Welty, Karla Lindquist, Vy Ngo, Elizabeth Gilbert, Henrik Bengtsson, Cristina Magi-Galluzzi, Jerome Jean Gilles, Jorge Yao, Matthew Cooperberg, Edward Messing, Eric Klein, Peter Carroll, Pamela Paris. .
      View in: Publisher Site   Mentions:
    9. Validation of GEMCaP as a DNA based biomarker to predict disease recurrence in patients undergoing prostatectomy for prostate cancer. Journal of Clinical Oncology. 2017 Feb 20; 35(6_suppl):58-58. Hao Gia Nguyen, Christopher Welty, Karla Lindquist, Vy Ngo, Elizabeth Gilbert, Henrik Bengtsson, Cristina Magi-Galluzzi, Jerome Jean-Gilles, Jorge Yao, Matthew R. Cooperberg, Edward M. Messing, Eric A. Klein, Peter Carroll, Pamela Paris. .
      View in: Publisher Site   Mentions:
    10. GENT-05. DELETION OR AMPLIFICATION OF MUTANT IDH1 IS ASSOCIATED WITH EXTREME DNA HYPOMETHYLATION AND MALIGNANT PROGRESSION. Neuro-Oncology. 2016 Nov 1; 18(suppl_6):vi74-vi74. Tali Mazor, Llewellyn Jalbert, Aleksandr Pankov, Chibo Hong, Josie Hayes, Ivan Smirnov, Roxanne Marshall, Arie Perry, Sarah Nelson, Susan Chang, Andrew Bollen, Annette Molinaro, Henrik Bengtsson, Adam Olshen, Joanna Phillips, Joseph Costello. .
      View in: Publisher Site   Mentions:
    11. Discovering hotspots in functional genomic data superposed on 3D chromatin configuration reconstructions. Nucleic Acids Res. 2016 Mar 18; 44(5):2028-35. Capurso D, Bengtsson H, Segal MR. PMID: 26869583.
      View in: PubMed   Mentions: 6     Fields:    Translation:AnimalsCells
    12. Validating the Use of Google Enquiry Metadata to Enhance Pertussis Surveillance in Australia. Open Forum Infectious Diseases. 2015 Dec 9; 2(suppl_1):1818. Simon Pollett, Nicholas Wood, W. John Boscardin, Henrik Bengtsson, George Rutherford. .
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    13. Reconstruction of 3D genome architecture via a two-stage algorithm. BMC Bioinformatics. 2015 Nov 09; 16:373. Segal MR, Bengtsson HL. PMID: 26553003.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimalsCells
    14. GENO-25HYPERMUTATION AND MALIGNANT PROGRESSION IN AN EXPANDED COHORT OF TEMOZOLOMIDE-TREATED LOW-GRADE GLIOMA PATIENTS. Neuro-Oncology. 2015 Nov 1; 17(suppl_5):v97-v97. Tali Mazor, Brett E. Johnson, Matt Grimmer, Chibo Hong, Emily G. Hamilton, Lindsey E. Jones, Ana Xavier-Magalhães, Ivan V. Smirnov, Henrik Bengtsson, Adam B. Olshen, Kevin Petrecca, Andrew W. Bollen, Mitchel S. Berger, Barry S. Taylor, Sarah J. Nelson, Manish K. Aghi, Jennifer L. Clarke, Joanna J. Phillips, Susan M. Chang, Joseph F. Costello. .
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    15. Validating the Use of Google Trends to Enhance Pertussis Surveillance in California. PLoS Curr. 2015 Oct 19; 7. Pollett S, Wood N, Boscardin WJ, Bengtsson H, Schwarcz S, Harriman K, Winter K, Rutherford G. PMID: 26543674.
      View in: PubMed   Mentions:
    16. Cytomegalovirus Immediate-Early Proteins Promote Stemness Properties in Glioblastoma. Cancer Res. 2015 Aug 01; 75(15):3065-76. Soroceanu L, Matlaf L, Khan S, Akhavan A, Singer E, Bezrookove V, Decker S, Ghanny S, Hadaczek P, Bengtsson H, Ohlfest J, Luciani-Torres MG, Harkins L, Perry A, Guo H, Soteropoulos P, Cobbs CS. PMID: 26239477.
      View in: PubMed   Mentions: 18     Fields:    Translation:HumansAnimalsCells
    17. DNA copy number analysis of fresh and formalin-fixed specimens by shallow whole-genome sequencing with identification and exclusion of problematic regions in the genome assembly. Genome Res. 2014 Dec; 24(12):2022-32. Scheinin I, Sie D, Bengtsson H, van de Wiel MA, Olshen AB, van Thuijl HF, van Essen HF, Eijk PP, Rustenburg F, Meijer GA, Reijneveld JC, Wesseling P, Pinkel D, Albertson DG, Ylstra B. PMID: 25236618.
      View in: PubMed   Mentions: 47     Fields:    Translation:HumansCells
    18. illuminaio: An open source IDAT parsing tool for Illumina microarrays. F1000Res. 2013; 2:264. Smith ML, Baggerly KA, Bengtsson H, Ritchie ME, Hansen KD. PMID: 24701342.
      View in: PubMed   Mentions: 8     Fields:    
    19. Feasibility of RNA sequencing to detect TMPRSS2:ERG fusions following laser capture microdissection of prostate cancer. Journal of Clinical Oncology. 2013 Feb 20; 31(6_suppl):76-76. Won Kim, Adam Foye, Henrik Bengtsson, Hyunsung John Kim, Barry S. Taylor, Nader Pourmand, Phillip G. Febbo. .
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    20. CalMaTe: a method and software to improve allele-specific copy number of SNP arrays for downstream segmentation. Bioinformatics. 2012 Jul 01; 28(13):1793-4. Ortiz-Estevez M, Aramburu A, Bengtsson H, Neuvial P, Rubio A. PMID: 22576175.
      View in: PubMed   Mentions: 10     Fields:    Translation:Humans
    21. Querying genomic databases: refining the connectivity map. Stat Appl Genet Mol Biol. 2012 Jan 06; 11(2). Segal MR, Xiong H, Bengtsson H, Bourgon R, Gentleman R. PMID: 22499690.
      View in: PubMed   Mentions: 5     Fields:    Translation:Humans
    22. Two distinct routes to oral cancer differing in genome instability and risk for cervical node metastasis. Clin Cancer Res. 2011 Nov 15; 17(22):7024-34. Bhattacharya A, Roy R, Snijders AM, Hamilton G, Paquette J, Tokuyasu T, Bengtsson H, Jordan RC, Olshen AB, Pinkel D, Schmidt BL, Albertson DG. PMID: 22068658.
      View in: PubMed   Mentions: 14     Fields:    Translation:Humans
    23. Subtype and pathway specific responses to anticancer compounds in breast cancer. Proc Natl Acad Sci U S A. 2012 Feb 21; 109(8):2724-9. Heiser LM, Sadanandam A, Kuo WL, Benz SC, Goldstein TC, Ng S, Gibb WJ, Wang NJ, Ziyad S, Tong F, Bayani N, Hu Z, Billig JI, Dueregger A, Lewis S, Jakkula L, Korkola JE, Durinck S, Pepin F, Guan Y, Purdom E, Neuvial P, Bengtsson H, Wood KW, Smith PG, Vassilev LT, Hennessy BT, Greshock J, Bachman KE, Hardwicke MA, Park JW, Marton LJ, Wolf DM, Collisson EA, Neve RM, Mills GB, Speed TP, Feiler HS, Wooster RF, Haussler D, Stuart JM, Gray JW, Spellman PT. PMID: 22003129.
      View in: PubMed   Mentions: 188     Fields:    Translation:HumansCells
    24. Integrated genomic analyses of ovarian carcinoma. Nature. 2011 Jun 29; 474(7353):609-15. PMID: 21720365.
      View in: PubMed   Mentions: 2145     Fields:    Translation:HumansCells
    25. Parent-specific copy number in paired tumor-normal studies using circular binary segmentation. Bioinformatics. 2011 Aug 01; 27(15):2038-46. Olshen AB, Bengtsson H, Neuvial P, Spellman PT, Olshen RA, Seshan VE. PMID: 21666266.
      View in: PubMed   Mentions: 45     Fields:    Translation:Humans
    26. Copy number variation in patients with disorders of sex development due to 46,XY gonadal dysgenesis. PLoS One. 2011 Mar 07; 6(3):e17793. White S, Ohnesorg T, Notini A, Roeszler K, Hewitt J, Daggag H, Smith C, Turbitt E, Gustin S, van den Bergen J, Miles D, Western P, Arboleda V, Schumacher V, Gordon L, Bell K, Bengtsson H, Speed T, Hutson J, Warne G, Harley V, Koopman P, Vilain E, Sinclair A. PMID: 21408189.
      View in: PubMed   Mentions: 33     Fields:    Translation:HumansAnimalsCells
    27. Statistical Analysis of Single Nucleotide Polymorphism Microarrays in Cancer Studies. Handbook of Statistical Bioinformatics. 2011 Jan 1; 225-255. Pierre Neuvial, Henrik Bengtsson, Terence P. Speed. .
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    28. Identification of SOX3 as an XX male sex reversal gene in mice and humans. J Clin Invest. 2011 Jan; 121(1):328-41. Sutton E, Hughes J, White S, Sekido R, Tan J, Arboleda V, Rogers N, Knower K, Rowley L, Eyre H, Rizzoti K, McAninch D, Goncalves J, Slee J, Turbitt E, Bruno D, Bengtsson H, Harley V, Vilain E, Sinclair A, Lovell-Badge R, Thomas P. PMID: 21183788.
      View in: PubMed   Mentions: 51     Fields:    Translation:HumansAnimalsCells
    29. ACNE: a summarization method to estimate allele-specific copy numbers for Affymetrix SNP arrays. Bioinformatics. 2010 Aug 01; 26(15):1827-33. Ortiz-Estevez M, Bengtsson H, Rubio A. PMID: 20529889.
      View in: PubMed   Mentions: 7     Fields:    
    30. TumorBoost: normalization of allele-specific tumor copy numbers from a single pair of tumor-normal genotyping microarrays. BMC Bioinformatics. 2010 May 12; 11:245. Bengtsson H, Neuvial P, Speed TP. PMID: 20462408.
      View in: PubMed   Mentions: 30     Fields:    
    31. Poor prognosis in familial acute myeloid leukaemia with combined biallelic CEBPA mutations and downstream events affecting the ATM, FLT3 and CDX2 genes. Br J Haematol. 2010 Aug; 150(3):382-5. Carmichael CL, Wilkins EJ, Bengtsson H, Horwitz MS, Speed TP, Vincent PC, Young G, Hahn CN, Escher R, Scott HS. PMID: 20456351.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    32. Identification of a CpG island methylator phenotype that defines a distinct subgroup of glioma. Cancer Cell. 2010 May 18; 17(5):510-22. Noushmehr H, Weisenberger DJ, Diefes K, Phillips HS, Pujara K, Berman BP, Pan F, Pelloski CE, Sulman EP, Bhat KP, Verhaak RG, Hoadley KA, Hayes DN, Perou CM, Schmidt HK, Ding L, Wilson RK, Van Den Berg D, Shen H, Bengtsson H, Neuvial P, Cope LM, Buckley J, Herman JG, Baylin SB, Laird PW, Aldape K. PMID: 20399149.
      View in: PubMed   Mentions: 789     Fields:    Translation:HumansCells
    33. Novel RUNX1 mutations in familial platelet disorder with enhanced risk for acute myeloid leukemia: clues for improved identification of the FPD/AML syndrome. Leukemia. 2010 Jan; 24(1):242-6. Jongmans MC, Kuiper RP, Carmichael CL, Wilkins EJ, Dors N, Carmagnac A, Schouten-van Meeteren AY, Li X, Stankovic M, Kamping E, Bengtsson H, Schoenmakers EF, van Kessel AG, Hoogerbrugge PM, Hahn CN, Brons PP, Scott HS, Hoogerbrugge N. PMID: 19946261.
      View in: PubMed   Mentions: 23     Fields:    Translation:Humans
    34. A single-array preprocessing method for estimating full-resolution raw copy numbers from all Affymetrix genotyping arrays including GenomeWideSNP 5 & 6. Bioinformatics. 2009 Sep 01; 25(17):2149-56. Bengtsson H, Wirapati P, Speed TP. PMID: 19535535.
      View in: PubMed   Mentions: 75     Fields:    Translation:HumansCells
    35. A single-sample method for normalizing and combining full-resolution copy numbers from multiple platforms, labs and analysis methods. Bioinformatics. 2009 Apr 01; 25(7):861-7. Bengtsson H, Ray A, Spellman P, Speed TP. PMID: 19193730.
      View in: PubMed   Mentions: 21     Fields:    Translation:Humans
    36. Estimation and assessment of raw copy numbers at the single locus level. Bioinformatics. 2008 Mar 15; 24(6):759-67. Bengtsson H, Irizarry R, Carvalho B, Speed TP. PMID: 18204055.
      View in: PubMed   Mentions: 65     Fields:    Translation:Cells
    37. Exploration, normalization, and genotype calls of high-density oligonucleotide SNP array data. Biostatistics. 2007 Apr; 8(2):485-99. Carvalho B, Bengtsson H, Speed TP, Irizarry RA. PMID: 17189563.
      View in: PubMed   Mentions: 109     Fields:    Translation:Humans
    38. Methodological study of affine transformations of gene expression data with proposed robust non-parametric multi-dimensional normalization method. BMC Bioinformatics. 2006 Mar 01; 7:100. Bengtsson H, Hössjer O. PMID: 16509971.
      View in: PubMed   Mentions: 13     Fields:    Translation:Humans
    39. Microarray image analysis: background estimation using quantile and morphological filters. BMC Bioinformatics. 2006 Feb 28; 7:96. Bengtsson A, Bengtsson H. PMID: 16504173.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimals
    40. Calibration and assessment of channel-specific biases in microarray data with extended dynamical range. BMC Bioinformatics. 2004 Nov 12; 5:177. Bengtsson H, Jönsson G, Vallon-Christersson J. PMID: 15541170.
      View in: PubMed   Mentions: 19     Fields:    Translation:Cells
    41. Low-level analysis of microarray data, PhD thesis, Centre for Mathematical Sciences, Division of Mathematical Statistics, Lund University. 2004. Bengtsson H..
    42. The R.oo package - Object-Oriented Programming with References Using Standard R Code. 3rd International Workshop on Distributed Statistical Computing (DSC 2003), Kurt Hornik and Friedrich Leisch and Achim Zeileis (Eds.). 2003. View Publication.
    43. Identifying differentially expressed genes in cDNA microarray experiments authors. Sci Aging Knowledge Environ. 2001 Dec 19; 2001(12):vp8. Bengtsson H, Calder B, Mian IS, Callow M, Rubin E, Speed TP. PMID: 14602959.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
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