Publications by authors named "Henrik Bengtsson"

48Publications

Multiple Tissue Biomarkers Independently and Additively Predict Prostate Cancer Pathology Outcomes.

Authors:
Matthew R Cooperberg Janet E Cowan Karla J Lindquist Yasuko Kobayashi Jeffry P Simko Henrik Bengtsson Khushboo Singh Vy Ngo Andrew Avila Lisa F Newcomb Maria Tretriakova Daniel W Lin Steven Stone Peter R Carroll Pamela L Paris

Eur Urol 2021 Jan 2;79(1):141-149. Epub 2020 Nov 2.

Department of Urology, UCSF Helen Diller Family Comprehensive Cancer Center, San Francisco, CA, USA; Division of Hematology and Oncology, UCSF Helen Diller Family Comprehensive Cancer Center, San Francisco, CA, USA.

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January 2021

Short Term Blood Glucose Prediction based on Continuous Glucose Monitoring Data.

Authors:
Ali Mohebbi Alexander R Johansen Nicklas Hansen Peter E Christensen Jens M Tarp Morten L Jensen Henrik Bengtsson Morten Morup

Annu Int Conf IEEE Eng Med Biol Soc 2020 07;2020:5140-5145

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July 2020

Human pediatric B-cell acute lymphoblastic leukemias can be classified as B-1 or B-2-like based on a minimal transcriptional signature.

Authors:
Briana Fitch Ritu Roy Huimin Geng Encarnacion Montecino-Rodriguez Henrik Bengtsson Coline Gaillard Kamir Hiam David Casero Adam B Olshen Kenneth Dorshkind Scott C Kogan

Exp Hematol 2020 10 15;90:65-71.e1. Epub 2020 Sep 15.

Department of Laboratory Medicine, University of California, San Francisco, San Francisco, CA; Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco, San Francisco, CA. Electronic address:

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October 2020

Machine Learning-Based Adherence Detection of Type 2 Diabetes Patients on Once-Daily Basal Insulin Injections.

Authors:
Daniel N Thyde Ali Mohebbi Henrik Bengtsson Morten Lind Jensen Morten Mørup

J Diabetes Sci Technol 2021 Jan 16;15(1):98-108. Epub 2020 Apr 16.

Department of Applied Mathematics and Computer Science, DTU Compute, Kgs. Lyngby, Denmark.

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January 2021

Fast Assessment of Glycemic Control based on Continuous Glucose Monitoring Data.

Authors:
Ali Mohebbi Jens M Tarp Morten L Jensen Sadasivan Puthusserypady Elise Hachmann-Nielsen Henrik Bengtsson Morten Morup

Annu Int Conf IEEE Eng Med Biol Soc 2019 Jul;2019:7185-7188

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July 2019

Feasibility of a New Approach to Initiate Insulin in Type 2 Diabetes.

Authors:
Tinna B Aradóttir Henrik Bengtsson Morten L Jensen Niels K Poulsen Dimitri Boiroux Lea L Jensen Signe Schmidt Kirsten Nørgaard

J Diabetes Sci Technol 2020 Jan 15:1932296819900240. Epub 2020 Jan 15.

Steno Diabetes Center Copenhagen, Gentofte, Denmark.

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January 2020

Modelling of fasting glucose-insulin dynamics from sparse data

Authors:
Tinna B Aradottir Dimitri Boiroux Henrik Bengtsson Niels K Poulsen

Annu Int Conf IEEE Eng Med Biol Soc 2018 Jul;2018:2354-2357

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July 2018

Improved accuracy assessment for 3D genome reconstructions.

Authors:
Mark R Segal Henrik L Bengtsson

BMC Bioinformatics 2018 05 30;19(1):196. Epub 2018 May 30.

Division of Bioinformatics, Department of Epidemiology and Biostatistics, UCSF, 16th Street, San Francisco, 94158, USA.

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May 2018

Replication confers β cell immaturity.

Authors:
Sapna Puri Nilotpal Roy Holger A Russ Laura Leonhardt Esra K French Ritu Roy Henrik Bengtsson Donald K Scott Andrew F Stewart Matthias Hebrok

Nat Commun 2018 02 2;9(1):485. Epub 2018 Feb 2.

Diabetes Center, Department of Medicine, University of California, San Francisco, CA, USA.

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February 2018

Genomic analysis of the origins and evolution of multicentric diffuse lower-grade gliomas.

Authors:
Josie Hayes Yao Yu Llewellyn E Jalbert Tali Mazor Lindsey E Jones Matthew D Wood Kyle M Walsh Henrik Bengtsson Chibo Hong Stefan Oberndorfer Thomas Roetzer Ivan V Smirnov Jennifer L Clarke Manish K Aghi Susan M Chang Sarah J Nelson Adelheid Woehrer Joanna J Phillips David A Solomon Joseph F Costello

Neuro Oncol 2018 04;20(5):632-641

Department of Neurological Surgery, University of California San Francisco, San Francisco, California, USA.

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April 2018

A deep learning approach to adherence detection for type 2 diabetics.

Authors:
Ali Mohebbi Tinna B Aradottir Alexander R Johansen Henrik Bengtsson Marco Fraccaro Morten Morup

Annu Int Conf IEEE Eng Med Biol Soc 2017 Jul;2017:2896-2899

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July 2017

Validation of GEMCaP as a DNA Based Biomarker to Predict Prostate Cancer Recurrence after Radical Prostatectomy.

Authors:
Hao G Nguyen Christopher Welty Karla Lindquist Vy Ngo Elizabeth Gilbert Henrik Bengtsson Cristina Magi-Galluzzi Jerome Jean-Gilles Jorge Yao Matthew Cooperberg Edward Messing Eric A Klein Peter R Carroll Pamela L Paris

J Urol 2018 03 20;199(3):719-725. Epub 2017 Sep 20.

Department of Urology, Helen Diller Family Comprehensive Cancer Center, University of California-San Francisco, San Francisco, California. Electronic address:

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March 2018

Clonal expansion and epigenetic reprogramming following deletion or amplification of mutant .

Authors:
Tali Mazor Charles Chesnelong Aleksandr Pankov Llewellyn E Jalbert Chibo Hong Josie Hayes Ivan V Smirnov Roxanne Marshall Camila F Souza Yaoqing Shen Pavithra Viswanath Houtan Noushmehr Sabrina M Ronen Steven J M Jones Marco A Marra J Gregory Cairncross Arie Perry Sarah J Nelson Susan M Chang Andrew W Bollen Annette M Molinaro Henrik Bengtsson Adam B Olshen Samuel Weiss Joanna J Phillips H Artee Luchman Joseph F Costello

Proc Natl Acad Sci U S A 2017 10 15;114(40):10743-10748. Epub 2017 Sep 15.

Department of Neurological Surgery, University of California, San Francisco, CA 94158;

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October 2017

Discovering hotspots in functional genomic data superposed on 3D chromatin configuration reconstructions.

Authors:
Daniel Capurso Henrik Bengtsson Mark R Segal

Nucleic Acids Res 2016 Mar 10;44(5):2028-35. Epub 2016 Feb 10.

Department of Epidemiology and Biostatistics, University of California, San Francisco, CA 94158, USA

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March 2016

Pollutant Concentrations and Toxic Effects on the Red Alga Ceramium tenuicorne of Sediments from Natural Harbors and Small Boat Harbors on the West Coast of Sweden.

Authors:
Britta Eklund Tomas Hansson Henrik Bengtsson Ann-Kristin Eriksson Wiklund

Arch Environ Contam Toxicol 2016 Apr 30;70(3):583-94. Epub 2016 Jan 30.

Department of Environmental Science and Analytical Chemistry (ACES), Stockholm University, 10691, Stockholm, Sweden.

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April 2016

Reconstruction of 3D genome architecture via a two-stage algorithm.

Authors:
Mark R Segal Henrik L Bengtsson

BMC Bioinformatics 2015 Nov 9;16:373. Epub 2015 Nov 9.

Division of Bioinformatics, Department of Epidemiology and Biostatistics, University of California, 550 16th Street, San Francisco, 94158, CA, USA.

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November 2015

Validating the Use of Google Trends to Enhance Pertussis Surveillance in California.

Authors:
Simon Pollett Nicholas Wood W John Boscardin Henrik Bengtsson Sandra Schwarcz Kathleen Harriman Kathleen Winter George Rutherford

PLoS Curr 2015 Oct 19;7. Epub 2015 Oct 19.

Department of Epidemiology & Biostatistics, University of California at San Francisco, California, USA.

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October 2015

Cytomegalovirus Immediate-Early Proteins Promote Stemness Properties in Glioblastoma.

Authors:
Liliana Soroceanu Lisa Matlaf Sabeena Khan Armin Akhavan Eric Singer Vladimir Bezrookove Stacy Decker Saleena Ghanny Piotr Hadaczek Henrik Bengtsson John Ohlfest Maria-Gloria Luciani-Torres Lualhati Harkins Arie Perry Hong Guo Patricia Soteropoulos Charles S Cobbs

Cancer Res 2015 Aug;75(15):3065-76

Department of Neurological Surgery, University of California, San Francisco, San Francisco, California. Ben and Catherine Ivy Center for Advanced Brain Tumor Treatment, Seattle, Washington.

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August 2015

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.

Authors:
Ilari Scheinin Daoud Sie Henrik Bengtsson Mark A van de Wiel Adam B Olshen Hinke F van Thuijl Hendrik F van Essen Paul P Eijk François Rustenburg Gerrit A Meijer Jaap C Reijneveld Pieter Wesseling Daniel Pinkel Donna G Albertson Bauke Ylstra

Genome Res 2014 Dec 18;24(12):2022-32. Epub 2014 Sep 18.

Department of Pathology, VU University Medical Center, 1007 MB Amsterdam, The Netherlands;

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December 2014

Interacting chemokine signals regulate dendritic cells in acute brain injury.

Authors:
Charlotte Israelsson Annika Kylberg Henrik Bengtsson Lars Hillered Ted Ebendal

PLoS One 2014 25;9(8):e104754. Epub 2014 Aug 25.

Department of Neuroscience, Developmental Neuroscience, Biomedical Center, Uppsala University, Uppsala, Sweden.

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May 2015

Altered expression of myelin-associated inhibitors and their receptors after traumatic brain injury in the mouse.

Authors:
Charlotte Israelsson Johanna Flygt Elaine Åstrand Olivia Kiwanuka Henrik Bengtsson Niklas Marklund

Restor Neurol Neurosci 2014 ;32(5):717-31

Department of Neuroscience, Neurosurgery, Uppsala University, Uppsala, Sweden.

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July 2015

illuminaio: An open source IDAT parsing tool for Illumina microarrays.

Authors:
Mike L Smith Keith A Baggerly Henrik Bengtsson Matthew E Ritchie Kasper D Hansen

F1000Res 2013 4;2:264. Epub 2013 Dec 4.

McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA ; Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21205, USA.

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April 2014

CalMaTe: a method and software to improve allele-specific copy number of SNP arrays for downstream segmentation.

Authors:
Maria Ortiz-Estevez Ander Aramburu Henrik Bengtsson Pierre Neuvial Angel Rubio

Bioinformatics 2012 Jul 9;28(13):1793-4. Epub 2012 May 9.

CEIT and TECNUN, University of Navarra, 20018 San Sebastian, Spain.

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July 2012

Querying genomic databases: refining the connectivity map.

Authors:
Mark R Segal Hao Xiong Henrik Bengtsson Richard Bourgon Robert Gentleman

Stat Appl Genet Mol Biol 2012 Jan 6;11(2). Epub 2012 Jan 6.

University of California-San Francisco, CA, USA.

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January 2012

Influence of hypodermic needle dimensions on subcutaneous injection delivery--a pig study of injection deposition evaluated by CT scanning, histology, and backflow.

Authors:
Kezia Ann Praestmark Juul Henrik Bengtsson Bente Eyving Jonas Kildegaard Steffen Lav Mette Poulsen Jørgen Serup Bente Stallknecht

Skin Res Technol 2012 Nov 11;18(4):447-55. Epub 2012 Jan 11.

Department of Biomedical Sciences, University of Copenhagen, Copenhagen, Denmark.

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November 2012

Two distinct routes to oral cancer differing in genome instability and risk for cervical node metastasis.

Authors:
Aditi Bhattacharya Ritu Roy Antoine M Snijders Gregory Hamilton Jesse Paquette Taku Tokuyasu Henrik Bengtsson Richard C K Jordan Adam B Olshen Daniel Pinkel Brian L Schmidt Donna G Albertson

Clin Cancer Res 2011 Nov 8;17(22):7024-34. Epub 2011 Nov 8.

Helen Diller Family Comprehensive Cancer Center, University of California San Francisco, San Francisco, California 94158, USA.

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November 2011

Effects of everyday life events on glucose, insulin, and glucagon dynamics in continuous subcutaneous insulin infusion-treated type 1 diabetes: collection of clinical data for glucose modeling.

Authors:
Signe Schmidt Daniel A Finan Anne Katrine Duun-Henriksen John Bagterp Jørgensen Henrik Madsen Henrik Bengtsson Jens Juul Holst Sten Madsbad Kirsten Nørgaard

Diabetes Technol Ther 2012 Mar 24;14(3):210-7. Epub 2011 Oct 24.

Department of Endocrinology, Hvidovre University Hospital, Hvidovre, Denmark.

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March 2012

Subtype and pathway specific responses to anticancer compounds in breast cancer.

Authors:
Laura M Heiser Anguraj Sadanandam Wen-Lin Kuo Stephen C Benz Theodore C Goldstein Sam Ng William J Gibb Nicholas J Wang Safiyyah Ziyad Frances Tong Nora Bayani Zhi Hu Jessica I Billig Andrea Dueregger Sophia Lewis Lakshmi Jakkula James E Korkola Steffen Durinck François Pepin Yinghui Guan Elizabeth Purdom Pierre Neuvial Henrik Bengtsson Kenneth W Wood Peter G Smith Lyubomir T Vassilev Bryan T Hennessy Joel Greshock Kurtis E Bachman Mary Ann Hardwicke John W Park Laurence J Marton Denise M Wolf Eric A Collisson Richard M Neve Gordon B Mills Terence P Speed Heidi S Feiler Richard F Wooster David Haussler Joshua M Stuart Joe W Gray Paul T Spellman

Proc Natl Acad Sci U S A 2012 Feb 14;109(8):2724-9. Epub 2011 Oct 14.

Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.

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February 2012

Parent-specific copy number in paired tumor-normal studies using circular binary segmentation.

Authors:
Adam B Olshen Henrik Bengtsson Pierre Neuvial Paul T Spellman Richard A Olshen Venkatraman E Seshan

Bioinformatics 2011 Aug 11;27(15):2038-46. Epub 2011 Jun 11.

Department of Epidemiology and Biostatistics, University of California, San Francisco, CA, USA.

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August 2011

Copy number variation in patients with disorders of sex development due to 46,XY gonadal dysgenesis.

Authors:
Stefan White Thomas Ohnesorg Amanda Notini Kelly Roeszler Jacqueline Hewitt Hinda Daggag Craig Smith Erin Turbitt Sonja Gustin Jocelyn van den Bergen Denise Miles Patrick Western Valerie Arboleda Valerie Schumacher Lavinia Gordon Katrina Bell Henrik Bengtsson Terry Speed John Hutson Garry Warne Vincent Harley Peter Koopman Eric Vilain Andrew Sinclair

PLoS One 2011 Mar 7;6(3):e17793. Epub 2011 Mar 7.

Murdoch Childrens Research Institute, Royal Children's Hospital, Melbourne, Victoria, Australia.

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March 2011

Identification of SOX3 as an XX male sex reversal gene in mice and humans.

Authors:
Edwina Sutton James Hughes Stefan White Ryohei Sekido Jacqueline Tan Valerie Arboleda Nicholas Rogers Kevin Knower Lynn Rowley Helen Eyre Karine Rizzoti Dale McAninch Joao Goncalves Jennie Slee Erin Turbitt Damien Bruno Henrik Bengtsson Vincent Harley Eric Vilain Andrew Sinclair Robin Lovell-Badge Paul Thomas

J Clin Invest 2011 Jan 22;121(1):328-41. Epub 2010 Dec 22.

School of Molecular and Biomedical Science and Australian Research Council Special Research Centre for the Molecular Genetics of Development, University of Adelaide, Adelaide, South Australia, Australia.

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January 2011

ACNE: a summarization method to estimate allele-specific copy numbers for Affymetrix SNP arrays.

Authors:
Maria Ortiz-Estevez Henrik Bengtsson Angel Rubio

Bioinformatics 2010 Aug 6;26(15):1827-33. Epub 2010 Jun 6.

Group of Bioinformatics, CEIT and TECNUN, University of Navarra, San Sebastian, Spain.

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August 2010

TumorBoost: normalization of allele-specific tumor copy numbers from a single pair of tumor-normal genotyping microarrays.

Authors:
Henrik Bengtsson Pierre Neuvial Terence P Speed

BMC Bioinformatics 2010 May 12;11:245. Epub 2010 May 12.

Department of Statistics, University of California, Berkeley, USA.

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May 2010

Poor prognosis in familial acute myeloid leukaemia with combined biallelic CEBPA mutations and downstream events affecting the ATM, FLT3 and CDX2 genes.

Authors:
Catherine L Carmichael Ella J Wilkins Henrik Bengtsson Marshall S Horwitz Terence P Speed Paul C Vincent Graham Young Christopher N Hahn Robert Escher Hamish S Scott

Br J Haematol 2010 Aug 29;150(3):382-5. Epub 2010 Apr 29.

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August 2010

Identification of a CpG island methylator phenotype that defines a distinct subgroup of glioma.

Authors:
Houtan Noushmehr Daniel J Weisenberger Kristin Diefes Heidi S Phillips Kanan Pujara Benjamin P Berman Fei Pan Christopher E Pelloski Erik P Sulman Krishna P Bhat Roel G W Verhaak Katherine A Hoadley D Neil Hayes Charles M Perou Heather K Schmidt Li Ding Richard K Wilson David Van Den Berg Hui Shen Henrik Bengtsson Pierre Neuvial Leslie M Cope Jonathan Buckley James G Herman Stephen B Baylin Peter W Laird Kenneth Aldape

Cancer Cell 2010 May 15;17(5):510-22. Epub 2010 Apr 15.

USC Epigenome Center, University of Southern California, Los Angeles, CA 90033, USA.

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May 2010

Appearance of Cxcl10-expressing cell clusters is common for traumatic brain injury and neurodegenerative disorders.

Authors:
Charlotte Israelsson Henrik Bengtsson Anna Lobell Lars N G Nilsson Annika Kylberg Magnus Isaksson Hanna Wootz Lars Lannfelt Klas Kullander Lars Hillered Ted Ebendal

Eur J Neurosci 2010 Mar;31(5):852-63

Department of Neuroscience, Developmental Neuroscience, Biomedical Center, Uppsala University, PO Box 593, SE-751 24 Uppsala, Sweden.

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March 2010

A single-array preprocessing method for estimating full-resolution raw copy numbers from all Affymetrix genotyping arrays including GenomeWideSNP 5 & 6.

Authors:
Henrik Bengtsson Pratyaksha Wirapati Terence P Speed

Bioinformatics 2009 Sep 17;25(17):2149-56. Epub 2009 Jun 17.

Department of Statistics, University of California, Berkeley, California, USA.

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September 2009

A single-sample method for normalizing and combining full-resolution copy numbers from multiple platforms, labs and analysis methods.

Authors:
Henrik Bengtsson Amrita Ray Paul Spellman Terence P Speed

Bioinformatics 2009 Apr 4;25(7):861-7. Epub 2009 Feb 4.

Department of Statistics, Life Sciences Division, University of California, Lawrence Berkeley National Laboratory, Berkeley, USA.

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April 2009

Type I collagen alpha1 Sp1 polymorphism and the risk of cruciate ligament ruptures or shoulder dislocations.

Authors:
Shwan Khoschnau Håkan Melhus Annica Jacobson Hans Rahme Henrik Bengtsson Eva Ribom Elin Grundberg Hans Mallmin Karl Michaëlsson

Am J Sports Med 2008 Dec 31;36(12):2432-6. Epub 2008 Jul 31.

Department of Surgical Sciences, Section of Orthopedics, University Hospital, Uppsala, Sweden.

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December 2008

Distinct cellular patterns of upregulated chemokine expression supporting a prominent inflammatory role in traumatic brain injury.

Authors:
Charlotte Israelsson Henrik Bengtsson Annika Kylberg Klas Kullander Anders Lewén Lars Hillered Ted Ebendal

J Neurotrauma 2008 Aug;25(8):959-74

Department of Neuroscience, Developmental Neuroscience, Biomedical Center, Uppsala University, Uppsala, Sweden.

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August 2008

Generation and characterization of a Gdf1 conditional null allele.

Authors:
Henrik Bengtsson Irina Epifantseva Magnus Abrink Annika Kylberg Klas Kullander Ted Ebendal Dmitry Usoskin

Genesis 2008 Jul;46(7):368-72

Department of Neuroscience, Uppsala University, Biomedical Center, Uppsala, Sweden.

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July 2008

Exploration, normalization, and genotype calls of high-density oligonucleotide SNP array data.

Authors:
Benilton Carvalho Henrik Bengtsson Terence P Speed Rafael A Irizarry

Biostatistics 2007 Apr 22;8(2):485-99. Epub 2006 Dec 22.

Department of Biostatistics, Johns Hopkins University, Baltimore, MD 21205, USA.

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April 2007

Increasing incidence of ruptured abdominal aortic aneurysm: a population-based study.

Authors:
Stefan Acosta Mats Ogren Henrik Bengtsson David Bergqvist Bengt Lindblad Zbigniew Zdanowski

J Vasc Surg 2006 Aug;44(2):237-43

Department of Vascular Diseases, Malmö University Hospital, Malmö, Sweden.

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August 2006

Methodological study of affine transformations of gene expression data with proposed robust non-parametric multi-dimensional normalization method.

Authors:
Henrik Bengtsson Ola Hössjer

BMC Bioinformatics 2006 Mar 1;7:100. Epub 2006 Mar 1.

Mathematical Statistics, Centre for Mathematical Sciences, Lund University, Box 118, SE-221 00 Lund, Sweden.

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March 2006

Microarray image analysis: background estimation using quantile and morphological filters.

Authors:
Anders Bengtsson Henrik Bengtsson

BMC Bioinformatics 2006 Feb 28;7:96. Epub 2006 Feb 28.

Mathematical Statistics, Centre for Mathematical Sciences, Lund University, Box 118, SE-221 00 Lund, Sweden.

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February 2006

Calibration and assessment of channel-specific biases in microarray data with extended dynamical range.

Authors:
Henrik Bengtsson Göran Jönsson Johan Vallon-Christersson

BMC Bioinformatics 2004 Nov 12;5:177. Epub 2004 Nov 12.

Mathematical Statistics, Centre for Mathematical Sciences, Lund University, Box 118, SE-221 00 Lund, Sweden.

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November 2004

Transgenic expression of Cre recombinase from the tyrosine hydroxylase locus.

Authors:
Jonas Lindeberg Dmitry Usoskin Henrik Bengtsson Anna Gustafsson Annika Kylberg Stine Söderström Ted Ebendal

Genesis 2004 Oct;40(2):67-73

Department of Neuroscience, Developmental Neuroscience Unit, Uppsala University, Biomedical Center, SE-751 23 Uppsala, Sweden.

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October 2004

Normal nigrostriatal innervation but dopamine dysfunction in mice carrying hypomorphic tyrosine hydroxylase alleles.

Authors:
Susanna Althini Henrik Bengtsson Dmitry Usoskin Stine Söderström Annika Kylberg Eva Lindqvist Susana Chuva de Sousa Lopes Lars Olson Jonas Lindeberg Ted Ebendal

J Neurosci Res 2003 May;72(4):444-53

Department of Neuroscience, Unit of Developmental Neuroscience, Uppsala University, Uppsala, Sweden.

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May 2003