Oliver Hofmann

Arteria: An automation system for a sequencing core facility

Johan Dahlberg, Johan Hermansson, Steinar Sturlaugsson, Mariya Lysenkova, Patrik Smeds, Claes Ladenvall, Roman Valls Guimera, Florian Reisinger, Oliver Hofmann, Pontus Larsson

Journal article  |  2019  |  GigaScience

How can digital health be used to improve outcomes in pancreatic ductal adenocarcinoma (PDAC)? Examining the potential of the PURPLE translational pancreatic cancer platform

Belinda Lee, Julia Shapiro, Benjamin Thomson, Sumitra Ananda, Lara Lipton, Sue-Anne McLachlan, Rachel Wong, Prasad Cooray, Matthew Burge, Kate Clarke, Sharon Pattison, Mehrdad Nikfarjam, Niall Tebbutt, Marion Harris, Daniel Croagh, David Goldstein, Adnan Nagrial, Rob Zielinski, Amitesh Roy, Cheng Ean Chee, et al.

Conference Proceedings  |  2019  |  ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY

CAF hierarchy driven by pancreatic cancer cell p53-status creates a pro-metastatic and chemoresistant environment via perlecan

Claire Vennin, Pauline Melenec, Romain Rouet, Max Nobis, Aurelie S Cazet, Kendelle J Murphy, David Herrmann, Daniel A Reed, Morghan C Lucas, Sean C Warren, Zehra Elgundi, Mark Pinese, Gabriella Kalna, Daniel Roden, Monisha Samuel, Anaiis Zaratzian, Shane T Grey, Andrew Da Silva, Wilfred Leung, Suresh Mathivanan, et al.

Journal article  |  2019  |  Nature Communications

New horizons in translational research of cancer of unknown primary

Dariush Etemadamoghadam, Atara Posner, Alexandra Murray, Sean Grimmond, Oliver Hofmann, Penelope Schofield, David Bowtell, Linda Mileshkin, Richard W Tothill

Conference Proceedings  |  2018  |  ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY

Copy number signatures and mutational processes in ovarian carcinoma

Geoff Macintyre, Teodora E Goranova, Dilrini De Silva, Darren Ennis, Anna M Piskorz, Matthew Eldridge, Daoud Sie, Liz-Anne Lewsley, Aishah Hanif, Cheryl Wilson, Suzanne Dowson, Rosalind M Glasspool, Michelle Lockley, Elly Brockbank, Ana Montes, Axel Walther, Sudha Sundar, Richard Edmondson, Geoff D Hall, Andrew Clamp, et al.

Journal article  |  2018  |  Nature Genetics

Identification of unique neoantigen qualities in long-term survivors of pancreatic cancer

Vinod P Balachandran, Marta Luksza, Julia N Zhao, Vladimir Makarov, John Alec Moral, Romain Remark, Brian Herbst, Gokce Askan, Umesh Bhanot, Yasin Senbabaoglu, Daniel K Wells, Charles Ian Ormsby Cary, Olivera Grbovic-Huezo, Marc Attiyeh, Benjamin Medina, Jennifer Zhang, Jennifer Loo, Joseph Saglimbeni, Mohsen Abu-Akeel, Roberta Zappasodi, et al.

Journal article  |  2017  |  Nature

Lost in translation: returning germline genetic results in genome-scale cancer research

Amber L Johns, Skye H Mckay, Jeremy L Humphris, Mark Pinese, Lorraine A Chantrill, R Scott Mead, Katherine Tucker, Lesley Andrews, Annabel Goodwin, Conrad Leonard, Hilda A High, Katia Nones, Ann-Marie Patch, Neil D Merrett, Nick Pavlakis, Karin S Kassahn, Jaswinder S Samra, David K Miller, David K Chang, Marina Pajic, et al.

Journal article  |  2017  |  Genome Medicine

Silencing of the Drosophila ortholog of SOX5 leads to abnormal neuronal development and behavioral impairment

Airong Li, Basavaraj Hooli, Kristina Mullin, Rebecca E Tate, Adele Bubnys, Rory Kirchner, Brad Chapman, Oliver Hofmann, Winston Hide, Rudolph E Tanzi

Journal article  |  2017  |  Human Molecular Genetics

Prioritisation of structural variant calls in cancer genomes

Miika J Ahdesmaki, Brad A Chapman, Pablo Cingolani, Oliver Hofmann, Aleksandr Sidoruk, Zhongwu Lai, Gennadii Zakharov, Mikhail Rodichenko, Mikhail Alperovich, David Jenkins, T Hedley Carr, Daniel Stetson, Brian Dougherty, J Carl Barrett, Justin H Johnson

Journal article  |  2017  |  PeerJ

Hypermutation In Pancreatic Cancer

Jeremy L Humphris, Ann-Marie Patch, Katia Nones, Peter J Bailey, Amber L Johns, Skye Mckay, David K Chang, David K Miller, Marina Pajic, Karin S Kassahn, Michael CJ Quinn, Timothy JC Bruxner, Angelika N Christ, Ivon Harliwong, Senel Idrisoglu, Suzanne Manning, Craig Nourse, Ehsan Nourbakhsh, Andrew Stone, Peter J Wilson, et al.

Journal article  |  2017  |  Gastroenterology

Deep targeted sequencing of 12 breast cancer susceptibility regions in 4611 women across four different ethnicities

Sara Lindstroem, Akweley Ablorh, Brad Chapman, Alexander Gusev, Gary Chen, Constance Turman, A Heather Eliassen, Alkes L Price, Brian E Henderson, Loic Le Marchand, Oliver Hofmann, Christopher A Haiman, Peter Kraft

Journal article  |  2016  |  Breast Cancer Research

Phosphoproteomic profiling of mouse primary HSPCs reveals new regulators of HSPC mobilization

Leo D Wang, Scott B Ficarro, John N Hutchinson, Roland Csepanyi-Komi, Phi T Nguyen, Eva Wisniewski, Jessica Sullivan, Oliver Hofmann, Erzsebet Ligeti, Jarrod A Marto, Amy J Wagers

Journal article  |  2016  |  Blood

Iterative sorting reveals CD133 and CD133-melanoma cells as phenotypically distinct populations

Carole Grasso, Matthew Anaka, Oliver Hofmann, Ramakrishna Sompallae, Kate Broadley, Winston Hide, Michael V Berridge, Jonathan Cebon, Andreas Behren, Melanie J McConnell

Journal article  |  2016  |  BMC Cancer

VarDict: a novel and versatile variant caller for next-generation sequencing in cancer research

Zhongwu Lai, Aleksandra Markovets, Miika Ahdesmaki, Brad Chapman, Oliver Hofmann, Robert McEwen, Justin Johnson, Brian Dougherty, J Carl Barrett, Jonathan R Dry

Journal article  |  2016  |  Nucleic Acids Research

RNA Sequencing Identifies Novel Translational Biomarkers of Kidney Fibrosis

Florin L Craciun, Vanesa Bijol, Amrendra K Ajay, Poornima Rao, Ramya K Kumar, John Hutchinson, Oliver Hofmann, Nikita Joshi, James P Luyendyk, Ulrike Kusebauch, Christopher L Moss, Anand Srivastava, Jonathan Himmelfarb, Sushrut S Waikar, Robert L Moritz, Vishal S Vaidya

Journal article  |  2016  |  Journal of the American Society of Nephrology

HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay

Sara Sunshine, Rory Kirchner, Sami S Amr, Leandra Mansur, Rimma Shakhbatyan, Michelle Kim, Alberto Bosque, Robert F Siliciano, Vicente Planelles, Oliver Hofmann, Shannan Ho Sui, Jonathan Z Li

Journal article  |  2016  |  Journal of Virology

Genomic analyses identify molecular subtypes of pancreatic cancer

Peter Bailey, David K Chang, Katia Nones, Amber L Johns, Ann-Marie Patch, Marie-Claude Gingras, David K Miller, Angelika N Christ, Tim JC Bruxner, Michael C Quinn, Craig Nourse, L Charles Murtaugh, Ivon Harliwong, Senel Idrisoglu, Suzanne Manning, Ehsan Nourbakhsh, Shivangi Wani, Lynn Fink, Oliver Holmes, Vencssa Chin, et al.

Journal article  |  2016  |  Nature

Mycoplasma Infection Alters Cancer Stem Cell Properties in Vitro

Craig Gedye, Tracy Cardwell, Nektaria Dimopoulos, Bee Shin Tan, Heather Jackson, Suzanne Svobodova, Matthew Anaka, Andreas Behren, Christopher Maher, Oliver Hofmann, Winston Hide, Otavia Caballero, Ian D Davis, Jonathan Cebon

Journal article  |  2016  |  Stem Cell Reviews and Reports

The Constrained Maximal Expression Level Owing to Haploidy Shapes Gene Content on the Mammalian X Chromosome.

Laurence D Hurst, Avazeh T Ghanbarian, Alistair RR Forrest, undefined FANTOM consortium, Lukasz Huminiecki

Journal article  |  2015  |  PLOS Biology

X chromosomes are unusual in many regards, not least of which is their nonrandom gene content. The causes of this bias are commonl..

An RNA-binding Protein, Lin28, Recognizes and Remodels G-quartets in the MicroRNAs (miRNAs) and mRNAs It Regulates

Elizabeth O'Day, Minh TN Le, Shunsuke Imai, Shen Mynn Tan, Rory Kirchner, Haribabu Arthanari, Oliver Hofmann, Gerhard Wagner, Judy Lieberman

Journal article  |  2015  |  Journal of Biological Chemistry

Small-Scale Mass Spectrometry-Based Phosphoproteomic Analysis of Primary Hematopoietic Stem and Progenitor Cells to Identify Critical Regulators of HSPC Mobilization and Leukemogenesis

Leo D Wang, Nguyen Phi, Scott B Ficarro, John Hutchinson, Oliver Hofmann, Jarrod A Marto, Amy J Wagers

Conference Proceedings  |  2014  |  BLOOD

Clonal dynamics of native haematopoiesis

Jianlong Sun, Azucena Ramos, Brad Chapman, Jonathan B Johnnidis, Linda Le, Yu-Jui Ho, Allon Klein, Oliver Hofmann, Fernando D Camargo

Journal article  |  2014  |  Nature

Sequencing of Captive Target Transcripts Identifies the Network of Regulated Genes and Functions of Primate-Specific miR-522

Shen Mynn Tan, Rory Kirchner, Jingmin Jin, Oliver Hofmann, Larry McReynolds, Winston Hide, Judy Lieberman

Journal article  |  2014  |  Cell Reports

Meta-analysis of genome-wide association studies in African Americans provides insights into the genetic architecture of type 2 diabetes.

Maggie CY Ng, Daniel Shriner, Brian H Chen, Jiang Li, Wei-Min Chen, Xiuqing Guo, Jiankang Liu, Suzette J Bielinski, Lisa R Yanek, Michael A Nalls, Mary E Comeau, Laura J Rasmussen-Torvik, Richard A Jensen, Daniel S Evans, Yan V Sun, Ping An, Sanjay R Patel, Yingchang Lu, Jirong Long, Loren L Armstrong, et al.

Journal article  |  2014  |  PLoS Genetics

Type 2 diabetes (T2D) is more prevalent in African Americans than in Europeans. However, little is known about the genetic risk in..

An in-depth comparison of the male pediatric and adult urinary proteomes

John W Froehlich, Ali R Vaezzadeh, Marc Kirchner, Andrew C Briscoe, Oliver Hofmann, Winston Hide, Hanno Steen, Richard S Lee

Journal article  |  2014  |  Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics

CAGExploreR: an R package for the analysis and visualization of promoter dynamics across multiple experiments

Emmanuel Dimont, Oliver Hofmann, Shannan J Ho Sui, Alistair RR Forrest, Hideya Kawaji, Winston Hide

Journal article  |  2014  |  Bioinformatics

A promoter-level mammalian expression atlas

Alistair RR Forrest, Hideya Kawaji, Michael Rehli, J Kenneth Baillie, Michiel JL de Hoon, Vanja Haberle, Timo Lassmann, Ivan V Kulakovskiy, Marina Lizio, Masayoshi Itoh, Robin Andersson, Christopher J Mungall, Terrence F Meehan, Sebastian Schmeier, Nicolas Bertin, Mette Jorgensen, Emmanuel Dimont, Erik Arner, Christian Schmidl, Ulf Schaefer, et al.

Journal article  |  2014  |  Nature

Comparison of Illumina and 454 Deep Sequencing in Participants Failing Raltegravir-Based Antiretroviral Therapy

Jonathan Z Li, Brad Chapman, Patrick Charlebois, Oliver Hofmann, Brian Weiner, Alyssa J Porter, Reshmi Samuel, Saran Vardhanabhuti, Lu Zheng, Joseph Eron, Babafemi Taiwo, Michael C Zody, Matthew R Henn, Daniel R Kuritzkes, Winston Hide

Journal article  |  2014  |  PLoS ONE

Integrating human sequence data sets provides a resource of benchmark SNP and indel genotype calls

Justin M Zook, Brad Chapman, Jason Wang, David Mittelman, Oliver Hofmann, Winston Hide, Marc Salit

Journal article  |  2014  |  Nature Biotechnology

Cell-specific translational profiling in acute kidney injury

Jing Liu, A Michaela Krautzberger, Shannan H Sui, Oliver M Hofmann, Ying Chen, Manfred Baetscher, Ivica Grgic, Sanjeev Kumar, Benjamin Humphreys, Winston A Hide, Andrew R McMahon

Journal article  |  2014  |  Journal of Clinical Investigation

A network of epigenetic regulators guides developmental haematopoiesis in vivo

Hsuan-Ting Huang, Katie L Kathrein, Abby Barton, Zachary Gitlin, Yue-Hua Huang, Thomas P Ward, Oliver Hofmann, Anthony Dibiase, Anhua Song, Svitlana Tyekucheva, Winston Hide, Yi Zhou, Leonard I Zon

Journal article  |  2013  |  Nature Cell Biology

Comparative analysis of resistant and susceptible macrophage gene expression response to Leishmania major parasite

Imen Rabhi, Sameh Rabhi, Rym Ben-Othman, Mohamed Radhouane Aniba, Bernadette Trentin, David Piquemal, Beatrice Regnault, Lamia Guizani-Tabbane

Journal article  |  2013  |  BMC Genomics

MicroRNA Expression Profile in Human Macrophages in Response to Leishmania major Infection

Julien Lemaire, Ghada Mkannez, Fatma Z Guerfali, Cindy Gustin, Hanene Attia, Rabiaa M Sghaier, Koussay Dellagi, Dhafer Laouini, Patricia Renard

Journal article  |  2013  |  PLoS Neglected Tropical Diseases

MIACA – Minimum Information About a Cellular Assay: Standardized description of cell-based functional assay projects

S Wiemann, A Mehrle, F Hahne, H Hermjakob, R Apweiler, D Arlt, S Bechtel, W Bielke, A Birmingham, Q Smith, P Bork, F Buchholz, X Cai, E Camon, P Carninci, SK Chanda, Z Chen, M Cusick, C Echeverri, J Eils, et al.

Journal article  |  2013

Recent advances and developments in genomics and functional genomics have enabled large scale analysis of gene and protein functio..

Pathprinting: An integrative approach to understand the functional basis of disease

Gabriel M Altschuler, Oliver Hofmann, Irina Kalatskaya, Rebecca Payne, Shannan J Ho Sui, Uma Saxena, Andrei V Krivtsov, Scott A Armstrong, Tianxi Cai, Lincoln Stein, Winston A Hide

Journal article  |  2013  |  Genome Medicine

Integrating Murine Gene Expression Studies to Understand Obstructive Lung Disease Due to Chronic Inhaled Endotoxin

Peggy S Lai, Oliver Hofmann, Rebecca M Baron, Manuela Cernadas, Quanxin Ryan Meng, Herbert S Bresler, David M Brass, Ivana V Yang, David A Schwartz, David C Christiani, Winston Hide

Journal article  |  2013  |  PLoS ONE

Deep targeted sequencing of 12 breast cancer loci in 4,700 women across four different ethnicities.

Sara Lindstroem, Brad Chapman, Gary Chen, Constance Chen, Akweley Ablorh, Loic Le Marchand, Brian Henderson, Oliver Hofmann, Daniel Mirel, Christopher Haiman, Peter Kraft

Conference Proceedings  |  2013  |  Epidemiology

Stem Cell-Like Gene Expression in Ovarian Cancer Predicts Type II Subtype and Prognosis

Matthew Schwede, Dimitrios Spentzos, Stefan Bentink, Oliver Hofmann, Benjamin Haibe-Kains, David Harrington, John Quackenbush, Aedin C Culhane

Journal article  |  2013  |  PLoS ONE

A comprehensive promoter landscape identifies a novel promoter for CD133 in restricted tissues, cancers, and stem cells.

Ramakrishna Sompallae, Oliver Hofmann, Christopher A Maher, Craig Gedye, Andreas Behren, Morana Vitezic, Carsten O Daub, Sylvie Devalle, Otavia L Caballero, Piero Carninci, Yoshihide Hayashizaki, Elizabeth R Lawlor, Jonathan Cebon, Winston Hide

Journal article  |  2013  |  Frontiers in Genetics

PROM1 is the gene encoding prominin-1 or CD133, an important cell surface marker for the isolation of both normal and cancer stem ..

The Stem Cell Commons: an exemplar for data integration in the biomedical domain driven by the ISA framework.

Shannan Ho Sui, Emily Merrill, Nils Gehlenborg, Psalm Haseley, Ilya Sytchev, Richard Park, Philippe Rocca-Serra, Stephane Corlosquet, Alejandra Gonzalez-Beltran, Eamonn Maguire, Oliver Hofmann, Peter Park, Sudeshna Das, Susanna-Assunta Sansone, Winston Hide

Journal article  |  2013  |  AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science

Comparisons of stem cell experiments at both molecular and semantic levels remain challenging due to inconsistencies in results, d..

Deep Targeted Sequencing of 12 Breast Cancer Loci in 4,700 Women Across Four Different Ethnicities

Sara Lindstrom, Brad Chapman, Gary Chen, Constance Chen, Oliver Hofmann, Daniel B Mirel, Christopher A Haiman, Peter Kraft

Conference Proceedings  |  2012  |  GENETIC EPIDEMIOLOGY

Transcriptomic Signature of Leishmania Infected Mice Macrophages: A Metabolic Point of View

Imen Rabhi, Sameh Rabhi, Rym Ben-Othman, Axel Rasche, Adriani Daskalaki, Bernadette Trentin, David Piquemal, Beatrice Regnault, Albert Descoteaux, Lamia Guizani-Tabbane

Journal article  |  2012  |  PLoS Neglected Tropical Diseases

Chronic Endotoxin Exposure Produces Airflow Obstruction and Lung Dendritic Cell Expansion

Peggy S Lai, Jennifer M Fresco, Miguel A Pinilla, Alvaro A Macias, Ronald D Brown, Joshua A Englert, Oliver Hofmann, James A Lederer, Winston Hide, David C Christiani, Manuela Cernadas, Rebecca M Baron

Journal article  |  2012  |  American Journal of Respiratory Cell and Molecular Biology

Prenatal Lead Levels, Plasma Amyloid beta Levels, and Gene Expression in Young Adulthood

Maitreyi Mazumdar, Weiming Xia, Oliver Hofmann, Matthew Gregas, Shannan Ho Sui, Winston Hide, Ting Yang, Herbert L Needleman, David C Bellinger

Journal article  |  2012  |  Environmental Health Perspectives

Population Differences in Transcript-Regulator Expression Quantitative Trait Loci

Pierre R Bushel, Ray McGovern, Liwen Liu, Oliver Hofmann, Ahsan Huda, Jun Lu, Winston Hide, Xihong Lin

Journal article  |  2012  |  PLoS ONE

Novel Loci for Adiponectin Levels and Their Influence on Type 2 Diabetes and Metabolic Traits: A Multi-Ethnic Meta-Analysis of 45,891 Individuals

Zari Dastani, Marie-France Hivert, Nicholas Timpson, John RB Perry, Xin Yuan, Robert A Scott, Peter Henneman, Iris M Heid, Jorge R Kizer, Leo-Pekka Lyytikainen, Christian Fuchsberger, Toshiko Tanaka, Andrew P Morris, Kerrin Small, Aaron Isaacs, Marian Beekman, Stefan Coassin, Kurt Lohman, Lu Qi, Stavroula Kanoni, et al.

Journal article  |  2012  |  PLoS Genetics

A functional genomic screen reveals novel host genes that mediate interferon-alpha's effects against hepatitis C virus

Hong Zhao, Wenyu Lin, Kattareeya Kumthip, Du Cheng, Dahlene N Fusco, Oliver Hofmann, Nikolaus Jilg, Andrew W Tai, Kaku Goto, Leiliang Zhang, Winston Hide, Jae Young Jang, Lee F Peng, Raymond T Chung

Journal article  |  2012  |  Journal of Hepatology

Toward interoperable bioscience data

Susanna-Assunta Sansone, Philippe Rocca-Serra, Dawn Field, Eamonn Maguire, Chris Taylor, Oliver Hofmann, Hong Fang, Steffen Neumann, Weida Tong, Linda Amaral-Zettler, Kimberly Begley, Tim Booth, Lydie Bougueleret, Gully Burns, Brad Chapman, Tim Clark, Lee-Ann Coleman, Jay Copeland, Sudeshna Das, Antoine de Daruvar, et al.

Journal article  |  2012  |  Nature Genetics

The Stem Cell Discovery Engine: an integrated repository and analysis system for cancer stem cell comparisons

Shannan J Ho Sui, Kimberly Begley, Dorothy Reilly, Brad Chapman, Ray McGovern, Philippe Rocca-Sera, Eamonn Maguire, Gabriel M Altschuler, Terah AA Hansen, Ramakrishna Sompallae, Andrei Krivtsov, Ramesh A Shivdasani, Scott A Armstrong, Aedin C Culhane, Mick Correll, Susanna-Assunta Sansone, Oliver Hofmann, Winston Hide

Journal article  |  2012  |  Nucleic Acids Research

Abdominal aortic aneurysm is associated with a variant in low-density lipoprotein receptor-related protein 1

MJ Bown, GT Jones, SC Harrison, BJ Wright, S Bumpstead, AF Baas, S Gretarsdottir, SA Badger, DT Bradley, K Burnand, AH Child, RE Clough, G Cockerill, H Hafez, DJA Scott, S Futers, A Johnson, S Sohrabi, A Smith, MM Thompson, et al.

Journal article  |  2011  |  The American Journal of Human Genetics

Capture of MicroRNA-Bound mRNAs Identifies the Tumor Suppressor miR-34a as a Regulator of Growth Factor Signaling

Ashish Lal, Marshall P Thomas, Gabriel Altschuler, Francisco Navarro, Elizabeth O'Day, Xiao Ling Li, Carla Concepcion, Yoon-Chi Han, Jerome Thiery, Danielle K Rajani, Aaron Deutsch, Oliver Hofmann, Andrea Ventura, Winston Hide, Judy Lieberman

Journal article  |  2011  |  PLoS Genetics

Genome-Wide Association Identifies Nine Common Variants Associated With Fasting Proinsulin Levels and Provides New Insights Into the Pathophysiology of Type 2 Diabetes

Rona J Strawbridge, Josee Dupuis, Inga Prokopenko, Adam Barker, Emma Ahlqvist, Denis Rybin, John R Petrie, Mary E Travers, Nabila Bouatia-Naji, Antigone S Dimas, Alexandra Nica, Eleanor Wheeler, Han Chen, Benjamin F Voight, Jalal Taneera, Stavroula Kanoni, John F Peden, Fabiola Turrini, Stefan Gustafsson, Carina Zabena, et al.

Journal article  |  2011  |  Diabetes

Aberrant lipid metabolism disrupts calcium homeostasis causing liver endoplasmic reticulum stress in obesity

Suneng Fu, Ling Yang, Ping Li, Oliver Hofmann, Lee Dicker, Winston Hide, Xihong Lin, Steven M Watkins, Alexander R Ivanov, Goekhan S Hotamisligil

Journal article  |  2011  |  Nature

Erratum: Twelve type 2 diabetes susceptibility loci identified through large-scale association analysis

BF Voight, LJ Scott, V Steinthorsdottir, AP Morris, C Dina, RP Welch, E Zeggini, C Huth, YS Aulchenko, G Thorleifsson, LJ McCulloch, T Ferreira, H Grallert, N Amin, G Wu, CJ Willer, S Raychaudhuri, SA McCarroll, C Langenberg, OM Hofmann, et al.

Journal article  |  2011  |  Nature Genetics

ISA software suite: supporting standards-compliant experimental annotation and enabling curation at the community level

Philippe Rocca-Serra, Marco Brandizi, Eamonn Maguire, Nataliya Sklyar, Chris Taylor, Kimberly Begley, Dawn Field, Stephen Harris, Winston Hide, Oliver Hofmann, Steffen Neumann, Peter Sterk, Weida Tong, Susanna-Assunta Sansone

Conference Proceedings  |  2010  |  Bioinformatics

Twelve type 2 diabetes susceptibility loci identified through large-scale association analysis

Benjamin F Voight, Laura J Scott, Valgerdur Steinthorsdottir, Andrew P Morris, Christian Dina, Ryan P Welch, Eleftheria Zeggini, Cornelia Huth, Yurii S Aulchenko, Gudmar Thorleifsson, Laura J McCulloch, Teresa Ferreira, Harald Grallert, Najaf Amin, Guanming Wu, Cristen J Willer, Soumya Raychaudhuri, Steve A McCarroll, Claudia Langenberg, Oliver M Hofmann, et al.

Journal article  |  2010  |  Nature Genetics

A Quick Guide to Large-Scale Genomic Data Mining

Curtis Huttenhower, Oliver Hofmann

Journal article  |  2010  |  PLoS Computational Biology

An Atlas of Combinatorial Transcriptional Regulation in Mouse and Man (vol 140, pg 744, 2010)

Timothy Ravasi, Harukazu Suzuki, Carlo Vittorio Cannistraci, Shintaro Katayama, Vladimir B Bajic, Kai Tan, Altuna Akalin, Sebastian Schmeier, Mutsumi Kanamori-Katayama, Nicolas Bertin, Piero Carninci, Carsten O Daub, Alistair RR Forrest, Julian Gough, Sean Grimmond, Jung-Hoon Han, Takehiro Hashimoto, Winston Hide, Oliver Hofmann, Atanas Kamburov, et al.

Journal article  |  2010  |  Cell

An Atlas of Combinatorial Transcriptional Regulation in Mouse and Man

Timothy Ravasi, Harukazu Suzuki, Carlo Vittorio Cannistraci, Shintaro Katayama, Vladimir B Bajic, Kai Tan, Altuna Akalin, Sebastian Schmeier, Mutsumi Kanamori-Katayama, Nicolas Bertin, Piero Carninci, Carsten O Daub, Alistair RR Forrest, Julian Gough, Sean Grimmond, Jung-Hoon Han, Takehiro Hashimoto, Winston Hide, Oliver Hofmann, Hideya Kawaji, et al.

Journal article  |  2010  |  Cell

Live Coverage of Scientific Conferences Using Web Technologies

Allyson L Lister, Ruchira S Datta, Oliver Hofmann, Roland Krause, Michael Kuhn, Bettina Roth, Reinhard Schneider

Journal article  |  2010  |  PLoS Computational Biology

Live Coverage of Intelligent Systems for Molecular Biology/European Conference on Computational Biology (ISMB/ECCB) 2009

Allyson L Lister, Ruchira S Datta, Oliver Hofmann, Roland Krause, Michael Kuhn, Bettina Roth, Reinhard Schneider

Conference Proceedings  |  2010  |  PLoS Computational Biology

Gene-expression ontologies and tag-based expression profiling

O Hofmann, W Hide

Book Chapter  |  2009

miR-24 Inhibits Cell Proliferation by Targeting E2F2, MYC, and Other Cell-Cycle Genes via Binding to "Seedless" 3 ' UTR MicroRNA Recognition Elements

Ashish Lal, Francisco Navarro, Christopher A Maher, Laura E Maliszewski, Nan Yan, Elizabeth O'Day, Dipanjan Chowdhury, Derek M Dykxhoorn, Perry Tsai, Oliver Hofmann, Kevin G Becker, Myriam Gorospe, Winston Hide, Judy Lieberman

Journal article  |  2009  |  Molecular Cell

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line

Harukazu Suzuki, Alistair RR Forrest, Erik van Nimwegen, Carsten O Daub, Piotr J Balwierz, Katharine M Irvine, Timo Lassmann, Timothy Ravasi, Yuki Hasegawa, Michiel JL de Hoon, Shintaro Katayama, Kate Schroder, Piero Carninci, Yasuhiro Tomaru, Mutsumi Kanamori-Katayama, Atsutaka Kubosaki, Altuna Akalin, Yoshinari Ando, Erik Arner, Maki Asada, et al.

Journal article  |  2009  |  Nature Genetics

ASTD: The Alternative Splicing and Transcript Diversity database

Gautier Koscielny, Vincent Le Texier, Chellappa Gopalakrishnan, Vasudev Kumanduri, Jean-Jack Riethoven, Francesco Nardone, Eleanor Stanley, Christine Fallsehr, Oliver Hofmann, Meelis Kull, Eoghan Harrington, Stephanie Boue, Eduardo Eyras, Mireya Plass, Fabrice Lopez, William Ritchie, Virginie Moucadel, Takeshi Ara, Heike Pospisil, Alexander Herrmann, et al.

Journal article  |  2009  |  Genomics

Genome-wide analysis of cancer/testis gene expression

Oliver Hofmann, Otavia L Caballero, Brian J Stevenson, Yao-Tseng Chen, Tzeela Cohen, Ramon Chua, Christopher A Maher, Sumir Panji, Ulf Schaefer, Adele Kruger, Minna Lehvaslaiho, Piero Carninci, Yoshihide Hayashizaki, C Victor Jongeneel, Andrew JG Simpson, Lloyd J Old, Winston Hide

Journal article  |  2008  |  Proceedings of the National Academy of Sciences

Prioritizing genes of potential relevance to diseases affected by sex hormones: an example of Myasthenia Gravis

Mandeep Kaur, Sebastian Schmeier, Cameron R MacPherson, Oliver Hofmann, Winston A Hide, Stephen Taylor, Nick Willcox, Vladimir B Bajic

Journal article  |  2008  |  BMC Genomics

Human Proteinpedia enables sharing of human protein data

Suresh Mathivanan, Mukhtar Ahmed, Natalie G Ahn, Alexandre Hainard, Ramars Amanchy, Philip C Andrews, Joel S Bader, Brian M Balgley, Marcus Bantscheff, Keiryn L Bennett, Erik Bjoerling, Blagoy Blagoev, Ron Bose, Samir K Brahmachari, Alma S Burlingame, Xose R Bustelo, Gerard Cagney, Greg T Cantin, Helene L Cardasis, Julio E Celis, et al.

Journal article  |  2008  |  Nature Biotechnology

Computational selection and prioritization of candidate genes for Fetal Alcohol Syndrome

Zane Lombard, Nicki Tiffin, Oliver Hofmann, Vladimir B Bajic, Winston Hide, Michele Ramsay

Journal article  |  2007  |  BMC Genomics

Simplified ontologies allowing comparison of developmental mammalian gene expression

Adele Kruger, Oliver Hofmann, Piero Carninci, Yoshihide Hayashizaki, Winston Hide

Journal article  |  2007  |  Genome Biology

Mice and men: Their promoter properties

Vladimir B Bajic, Sin Lam Tan, Alan Christoffels, Christian Schonbach, Leonard Lipovich, Liang Yang, Oliver Hofmann, Adele Kruger, Winston Hide, Chikatoshi Kai, Jun Kawai, David A Hume, Piero Carninci, Yoshihide Hayashizaki

Journal article  |  2006  |  PLoS Genetics

The LIFEdb database in 2006

Alexander Mehrle, Heiko Rosenfelder, Ingo Schupp, Coral del Val, Dorit Arlt, Florian Hahne, Stephanie Bechtel, Jeremy Simpson, Oliver Hofmann, Winston Hide, Karl-Heinz Glatting, Wolfgang Huber, Rainer Pepperkok, Annemarie Poustka, Stefan Wiemann

Journal article  |  2006  |  Nucleic Acids Research

Concept-based annotation of enzyme classes

O Hofmann, D Schomburg

Journal article  |  2005  |  Bioinformatics

BRENDA: a resource for enzyme data and metabolic information

I Schomburg, AJ Chang, O Hofmann, C Ebeling, F Ehrentreich, D Schomburg

Journal article  |  2002  |  Trends in Biochemical Sciences

Crystal structure of a human embryonic haemoglobin: the carbonmonoxy form of gower II (alpha2 epsilon2) haemoglobin at 2.9 A resolution.

AJ Sutherland-Smith, HM Baker, OM Hofmann, T Brittain, EN Baker

Journal article  |  1998  |  Journal of Molecular Biology

The production of recombinant embryonic haemoglobins via a yeast expression system has enabled structural and functional studies t..

Partitioning of oxygen and carbon monoxide in the three human embryonic hemoglobins.

OM Hofmann, T Brittain

Journal article  |  1998  |  Hemoglobin

The ratio of oxygen to carbon monoxide binding to the three fully saturated human embryonic hemoglobins has been determined. The e..

A two-state analysis of co-operative oxygen binding in the three human embryonic haemoglobins.

T Brittain, OM Hofmann, NJ Watmough, C Greenwood, RE Weber

Journal article  |  1997  |  Biochemical Journal

The binding of oxygen to the three human embryonic haemoglobins, at pH 7.4, has been shown to occur as a co-operative process. Ana..

The control of oxygen affinity in the three human embryonic haemoglobins by respiration linked metabolites.

OM Hofmann, T Brittain, RM Wells

Journal article  |  1997  |  IUBMB Life

The effect of CO2, ATP and lactate ions on the oxygen affinity of the three human embryonic haemoglobins have been studied. CO2 lo..

Ligand binding kinetics and dissociation of the human embryonic haemoglobins.

O Hofmann, T Brittain

Journal article  |  1996  |  Biochemical Journal

The three human embryonic haemoglobins have been studied using a range of stopped-flow and flash photolysis experiments. The assoc..

Some effects of post-translational N-terminal acetylation of the human embryonic zeta globin protein.

A Scheepens, R Mould, O Hofmann, T Brittain

Journal article  |  1995  |  Biochemical Journal

Using site-directed mutagenesis we have produced the first mutant form of a human embryonic haemoglobin. We have mutated the N-ter..

The chloride effect in the human embryonic haemoglobins.

O Hofmann, G Carrucan, N Robson, T Brittain

Journal article  |  1995  |  Biochemical Journal

The interactions of the three human embryonic haemoglobins with chloride ions have been investigated. Each of the three embryonic ..

Allosteric modulation of oxygen binding to the three human embryonic haemoglobins.

O Hofmann, R Mould, T Brittain

Journal article  |  1995  |  Biochemical Journal

Plasmid based yeast expression systems have been developed for the high-level expression of the three human embryonic haemoglobins..

Production of human embryonic haemoglobin (Gower II) in a yeast expression system.

RM Mould, OM Hofmann, T Brittain

Journal article  |  1994  |  Biochemical Journal

The cDNA coding for a human embryonic globin protein has been obtained from an erythroleukaemic cell line. A plasmid expression sy..

The incorporation of sulphaem into recombinant adult human haemoglobin produced in a yeast expression system.

OM Hofmann, RM Mould, T Brittain

Journal article  |  1994  |  Protein Engineering

The production of adult human haemoglobin in a yeast expression system has been shown to lead to the formation of functional oxyge..

[Hemoglobins of pandas].

G Braunitzer, O Hofmann

Journal article  |  1987  |  Comptes Rendus des Seances de la Societe de Biologie et de Ses Filiales

We tried to elucidate the genetical relationship of giant and lesser panda and especially that of Ursidae and Procyonidae by seque..

Hemoglobin of pandas: phylogenetic relationships of carnivores as ascertained with protein sequence data.

DA Tagle, MM Miyamoto, M Goodman, O Hofmann, G Braunitzer, R Göltenboth, H Jalanka

Journal article  |  1986  |  Naturwissenschaften