Skip to Main Content

Author Details

Altuna Akalin
Berlin Institute for Medical Systems Biology
2006
67
33
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36662884A multimorphic mutation in IRF4 causes human autosomal dominant combined immunodeficiency.Sci Immunol2023
37935654Transcriptional reprogramming by mutated IRF4 in lymphoma.Nat Commun2023
38036524The SPOC proteins DIDO3 and PHF3 co-regulate gene expression and neuronal differentiation.Nat Commun2023
37388821Cardiovascular disease biomarkers derived from circulating cell-free DNA methylation.NAR Genom Bioinform2023
36769095Disintegration of the NuRD Complex in Primary Human Muscle Stem Cells in Critical Illness Myopathy.Int J Mol Sci2023
36228784SARS-CoV-2 infection dynamics revealed by wastewater sequencing analysis and deconvolution.Sci Total Environ2022
35637521Identifying tumor cells at the single-cell level using machine learning.Genome Biol2022
35558073Rapid Inflammasome Activation Is Attenuated in Post-Myocardial Infarction Monocytes.Front Immunol2022
36777038Single-cell-resolved dynamics of chromatin architecture delineate cell and regulatory states in zebrafish embryos.Cell Genom2022
36428696Multi-Omics Alleviates the Limitations of Panel Sequencing for Cancer Drug Response Prediction.Cancers (Basel)2022
33459422Transcriptional repression of NFKBIA triggers constitutive IKK- and proteasome-independent p65/RelA activation in senescence.EMBO J2021
33852857Parallel genetics of regulatory sequences using scalable genome editing in vivo.Cell Rep2021
33585804Transcriptomic profiling of SARS-CoV-2 infected human cell lines identifies HSP90 as target for COVID-19 therapy.iScience2021
34949218Author Correction: The SEQC2 epigenomics quality control (EpiQC) study.Genome Biol2021
34872606The SEQC2 epigenomics quality control (EpiQC) study.Genome Biol2021
34789882Cell-type specialization is encoded by specific chromatin topologies.Nature2021
34706240Lymphocyte access to lymphoma is impaired by high endothelial venule regression.Cell Rep2021
34667177PHF3 regulates neuronal gene expression through the Pol II CTD reader domain SPOC.Nat Commun2021
34168198Predicting lethal courses in critically ill COVID-19 patients using a machine learning model trained on patients with non-COVID-19 viral pneumonia.Sci Rep2021
32522871Functional interplay of Epstein-Barr virus oncoproteins in a mouse model of B cell lymphomagenesis.Proc Natl Acad Sci U S A2020
33311457Single-nucleus transcriptomics reveals functional compartmentalization in syncytial skeletal muscle cells.Nat Commun2020
32609329PDGFA-associated protein 1 protects mature B lymphocytes from stress-induced cell death and promotes antibody gene diversification.J Exp Med2020
32661261Deep learning for genomics using Janggu.Nat Commun2020
32949770Single-cell analyses of aging, inflammation and senescence.Ageing Res Rev2020
30642353Long non-coding RNAs defining major subtypes of B cell precursor acute lymphoblastic leukemia.J Hematol Oncol2019
31653857Single-cell RNA-sequencing of herpes simplex virus 1-infected cells connects NRF2 activation to an antiviral program.Nat Commun2019
31792061Evaluation of colorectal cancer subtypes and cell lines using deep learning.Life Sci Alliance2019
31397537The conserved histone chaperone LIN-53 is required for normal lifespan and maintenance of muscle integrity in Caenorhabditis elegans.Aging Cell2019
30967537Global identification of functional microRNA-mRNA interactions in Drosophila.Nat Commun2019
30517751Deciphering human ribonucleoprotein regulatory networks.Nucleic Acids Res2019
30696620Autocrine LTA signaling drives NF-κB and JAK-STAT activity and myeloid gene expression in Hodgkin lymphoma.Blood2019
30590745Alternative 3' UTRs direct localization of functionally diverse protein isoforms in neuronal compartments.Nucleic Acids Res2019
29444423Nuclear Organization in the Spinal Cord Depends on Motor Neuron Lamination Orchestrated by Catenin and Afadin Function.Cell Rep2018
30078731FACT Sets a Barrier for Cell Fate Reprogramming in Caenorhabditis elegans and Human Cells.Dev Cell2018
30197081Mutations in Disordered Regions Can Cause Disease by Creating Dileucine Motifs.Cell2018
30277498PiGx: reproducible genomics analysis pipelines with GNU Guix.Gigascience2018
30467221The IκB kinase complex is a regulator of mRNA stability.EMBO J2018
28928394RNA localization is a key determinant of neurite-enriched proteome.Nat Commun2017
28334930RCAS: an RNA centric annotation system for transcriptome-wide regions of interest.Nucleic Acids Res2017
29089033Widespread activation of antisense transcription of the host genome during herpes simplex virus 1 infection.Genome Biol2017
29038337RNA polymerase II primes Polycomb-repressed developmental genes throughout terminal neuronal differentiation.Mol Syst Biol2017
28822795Strategies for analyzing bisulfite sequencing data.J Biotechnol2017
28582575The RNA workbench: best practices for RNA and high-throughput sequencing bioinformatics in Galaxy.Nucleic Acids Res2017
25607372Genomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation.Nature2015
25417204Genomation: a toolkit to summarize, annotate and visualize genomic intervals.Bioinformatics2015
25416797DoRiNA 2.0--upgrading the doRiNA database of RNA interactions in post-transcriptional regulation.Nucleic Acids Res2015
24531765Two independent transcription initiation codes overlap on vertebrate core promoters.Nature2014
25482556DNA hydroxymethylation profiling reveals that WT1 mutations result in loss of TET2 function in acute myeloid leukemia.Cell Rep2014
24600346NanoCAGE analysis of the mouse olfactory epithelium identifies the expression of vomeronasal receptors and of proximal LINE elements.Front Cell Neurosci2014
23735126An optimized algorithm for detecting and annotating regional differential methylation.BMC Bioinformatics2013
  • 1 - 50 of 67

Recommended Authors

Nathan Sheffield (CM4AI)
University of Virginia
Career Start Year 2007
Number of shared co-authors 4
Harmen J G van de Werken
Department of Immunology Erasmus University Medical Center
Career Start Year 2006
Number of shared co-authors 3
Yue Lu
The University of Texas MD Anderson Cancer Center
Career Start Year 2006
Number of shared co-authors 1
Joshua W K Ho
The University of Hong Kong
Career Start Year 2006
Number of shared co-authors 0
Christoph Bock
CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
Career Start Year 2005
Number of shared co-authors 8
Yongjun Zhao
Canada British Columbia Cancer Research Centre, University of British Columbia
Career Start Year 2005
Number of shared co-authors 5
Jun S Song
University of Illinois at Urbana-Champaign
Career Start Year 2005
Number of shared co-authors 3
Mattia Pelizzola
Center for Genomic Science of , Istituto Italiano di Tecnologia (IIT)
Career Start Year 2004
Number of shared co-authors 5
Anshul Kundaje
Stanford University.
Career Start Year 2004
Number of shared co-authors 5
Shyam Prabhakar
Genome Institute of Singapore (GIS)
Career Start Year 2004
Number of shared co-authors 1
Kasper D Hansen
Johns Hopkins University School of Medicine
Career Start Year 2004
Number of shared co-authors 1
Pavel Sumazin
Baylor College of Medicine
Career Start Year 2003
Number of shared co-authors 0
Gerald Quon
University of California davis
Career Start Year 2003
Number of shared co-authors 1
Zhandong Liu
Jan and Dan Duncan Neurological Research Institute at Texas Children's Hospital
Career Start Year 2003
Number of shared co-authors 1
Zhaohui S Qin
Emory University
Career Start Year 2002
Number of shared co-authors 2
Olivier Elemento
Meyer Cancer Center
Career Start Year 2002
Number of shared co-authors 8
Mikhail G Dozmorov
Virginia Commonwealth University
Career Start Year 2001
Number of shared co-authors 0
Peter J Park
Harvard Medical School
Career Start Year 2001
Number of shared co-authors 3
Ting Wang
Washington University School of Medicine
Career Start Year 2001
Number of shared co-authors 2
Guo-Cheng Yuan
Dana-Farber Cancer Institute, Harvard School of Public Health
Career Start Year 2000
Number of shared co-authors 2
Martin Hirst
University of British Columbia
Career Start Year 1998
Number of shared co-authors 5
Mark D Robinson
University of Zurich
Career Start Year 1997
Number of shared co-authors 1
Wolfgang Huber
Technische Universitat Munchen
Career Start Year 1995
Number of shared co-authors 6
Steven J M Jones
University of British Columbia
Career Start Year 1995
Number of shared co-authors 6
Marco A Marra
University of British Columbia
Career Start Year 1993
Number of shared co-authors 9
Jill P Mesirov
University of California San Diego
Career Start Year 1992
Number of shared co-authors 7
Jean-Pierre A Kocher
Mayo Clinic
Career Start Year 1991
Number of shared co-authors 0
Wing Hung Wong
Stanford University
Career Start Year 1991
Number of shared co-authors 1
Holger Heyn
Barcelona Institute of Science and Technology, Spain Universitat Pompeu Fabra
Career Start Year 1988
Number of shared co-authors 3
Aviv Regev
Broad Institute of MIT and Harvard
Career Start Year 1987
Number of shared co-authors 7

Collaborators

Boris Lenhard
MRC London Institute of Medical Sciences
Co-authored papers 13
Piero Carninci
RIKEN Center for Integrative Medical Sciences
Co-authored papers 8
Uwe Ohler
Humboldt University
Co-authored papers 7
Yoshihide Hayashizaki
Center for Integrative Medical Sciences
Co-authored papers 7
Ari Melnick
Co-authored papers 7
Carsten O Daub
International Institute of Molecular and Cell Biology in Warsaw
Co-authored papers 6
Christopher E Mason
Feil Family Brain and Mind Research Institute.
Co-authored papers 6
Harukazu Suzuki
RIKEN Center for Integrative Medical Sciences
Co-authored papers 5
Jun Kawai
RIKEN Center for Integrative Medical Sciences
Co-authored papers 5
Geoffrey J Faulkner
Mater Research Institute - University of Queensland
Co-authored papers 4
Xianjun Dong
Co-authored papers 4
Charles Plessy
Okinawa Institute of Science and Technology
Co-authored papers 4
Nicolas Bertin
University Bordeaux, CNRS
Co-authored papers 4
Noriko Ninomiya
Japan Tobacco Inc.
Co-authored papers 3
Sarah A Teichmann
Wellcome Sanger Institute
Co-authored papers 3
Chikatoshi Kai
Co-authored papers 3
Pär G Engström
Co-authored papers 3
Francine E Garrett-Bakelman
University of Virginia
Co-authored papers 3
David A Hume
Mater Research Institute-UQ, Translational Research Institute
Co-authored papers 3
Ana Pombo
Polytechnic Institute of Leiria
Co-authored papers 3
Sean M Grimmond
The University of Melbourne
Co-authored papers 3
Vladimir B Bajic
King Abdullah University of Science and Technology (KAUST)
Co-authored papers 3
Hideya Kawaji
RIKEN Center for Integrative Medical Sciences
Co-authored papers 3
Martin S Taylor
Institute of Genetics and Cancer, University of Edinburgh
Co-authored papers 2
Winston Hide
Harvard Medical School
Co-authored papers 2
Claes Wahlestedt
Co-authored papers 2
Jessica Nordlund
Uppsala University
Co-authored papers 2
Weida Tong
National Center for Toxicological Research
Co-authored papers 2
Stefano Gustincich
Istituto Italiano di Tecnologia
Co-authored papers 2
Colin A Semple
Institute of Genetics and Cancer, University of Edinburgh
Co-authored papers 2
Release 1.2