Roland Eils

Q: What Schools Are Affiliated With Roland Eils

Roland Eils is affiliated with the following schools: Humboldt University of Berlin, University of Cologne, Ludwig Maximilian University of Munich, Technical University of Munich, Heidelberg University

Roland Eils's AcademicInfluence.com Rankings

Roland Eils

Philosophy

#5074

World Rank

#7793

Historical Rank

Logic

#2413

World Rank

#3401

Historical Rank

philosophy Degrees

Roland Eils

Biology

#6769

World Rank

#9559

Historical Rank

Bioinformatics

#73

World Rank

#74

Historical Rank

Computational Biology

#119

World Rank

#119

Historical Rank

biology Degrees

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Roland Eils's Published Works

Number of citations in a given year to any of this author's works

Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author

Published Works

Signatures of mutational processes in human cancer (2013) (7589)
Complex heatmaps reveal patterns and correlations in multidimensional genomic data (2016) (3997)
circlize implements and enhances circular visualization in R (2014) (1948)
International network of cancer genome projects (2010) (1839)
The Human Cell Atlas (2017) (1285)
Systemic spread is an early step in breast cancer. (2008) (1132)
The landscape of genomic alterations across childhood cancers (2018) (880)
Phenotypic profiling of the human genome by time-lapse microscopy reveals cell division genes (2010) (811)
Three-Dimensional Maps of All Chromosomes in Human Male Fibroblast Nuclei and Prometaphase Rosettes (2005) (789)
Olfactory transmucosal SARS-CoV-2 invasion as a port of central nervous system entry in individuals with COVID-19 (2020) (777)
Dissecting the genomic complexity underlying medulloblastoma (2012) (777)
Genome Sequencing of Pediatric Medulloblastoma Links Catastrophic DNA Rearrangements with TP53 Mutations (2012) (755)
COVID-19 severity correlates with airway epithelium–immune cell interactions identified by single-cell analysis (2020) (738)
SARS‐CoV‐2 receptor ACE2 and TMPRSS2 are primarily expressed in bronchial transient secretory cells (2020) (699)
The whole-genome landscape of medulloblastoma subtypes (2017) (658)
Recurrent somatic alterations of FGFR1 and NTRK2 in pilocytic astrocytoma (2013) (637)
From latent disseminated cells to overt metastasis: Genetic analysis of systemic breast cancer progression (2003) (624)
New Brain Tumor Entities Emerge from Molecular Classification of CNS-PNETs (2016) (608)
Genome sequencing of SHH medulloblastoma predicts genotype-related response to smoothened inhibition. (2014) (601)
Omic data from evolved E. coli are consistent with computed optimal growth from genome-scale models (2010) (586)
Epigenomic alterations define lethal CIMP-positive ependymomas of infancy (2014) (507)
Enhancer hijacking activates GFI1 family oncogenes in medulloblastoma (2014) (496)
Recruitment and activation of a lipid kinase by hepatitis C virus NS5A is essential for integrity of the membranous replication compartment. (2011) (467)
The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models (2010) (456)
Nuclear Envelope Breakdown Proceeds by Microtubule-Induced Tearing of the Lamina (2002) (452)
Recurrent mutation of the ID3 gene in Burkitt lymphoma identified by integrated genome, exome and transcriptome sequencing (2012) (404)
Patterns of somatic structural variation in human cancer genomes (2020) (377)
Atypical Teratoid/Rhabdoid Tumors Are Comprised of Three Epigenetic Subgroups with Distinct Enhancer Landscapes. (2016) (374)
Decoding the regulatory landscape of medulloblastoma using DNA methylation sequencing (2014) (362)
The International Human Epigenome Consortium: A Blueprint for Scientific Collaboration and Discovery (2016) (360)
Transient colocalization of X-inactivation centres accompanies the initiation of X inactivation (2006) (350)
Mathematical modeling reveals threshold mechanism in CD95-induced apoptosis (2004) (329)
Modulation of Serines 17 and 24 in the LC3-interacting Region of Bnip3 Determines Pro-survival Mitophagy versus Apoptosis* (2012) (325)
Integrative genomic analyses reveal an androgen-driven somatic alteration landscape in early-onset prostate cancer. (2013) (308)
Global Chromosome Positions Are Transmitted through Mitosis in Mammalian Cells (2003) (305)
Active medulloblastoma enhancers reveal subgroup-specific cellular origins (2016) (296)
Customized oligonucleotide microarray gene expression-based classification of neuroblastoma patients outperforms current clinical risk stratification. (2006) (289)
Acute myeloid leukemias with reciprocal rearrangements can be distinguished by specific gene expression profiles (2002) (283)
Identification of regulatory networks in HSCs and their immediate progeny via integrated proteome, transcriptome, and DNA methylome analysis. (2014) (279)
A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing (2015) (250)
Genomic analysis of single cytokeratin-positive cells from bone marrow reveals early mutational events in breast cancer. (2005) (245)
SARS-CoV-2 receptor ACE2 and TMPRSS2 are primarily expressed in bronchial transient secretory cells. (2020) (242)
Large-scale in silico modeling of metabolic interactions between cell types in the human brain (2010) (231)
A contractile nuclear actin network drives chromosome congression in oocytes (2005) (230)
Mutations in the SIX1/2 pathway and the DROSHA/DGCR8 miRNA microprocessor complex underlie high-risk blastemal type Wilms tumors. (2015) (226)
Cross-platform analysis of cancer microarray data improves gene expression based classification of phenotypes (2005) (226)
Compartmentalization of interphase chromosomes observed in simulation and experiment. (1999) (219)
Automatic identification of subcellular phenotypes on human cell arrays. (2004) (219)
Three-dimensional reconstruction of painted human interphase chromosomes: active and inactive X chromosome territories have similar volumes but differ in shape and surface structure (1996) (218)
Visualizing telomere dynamics in living mammalian cells using PNA probes (2003) (215)
Spectrum and prevalence of genetic predisposition in medulloblastoma: a retrospective genetic study and prospective validation in a clinical trial cohort (2018) (212)
The landscape of viral associations in human cancers (2018) (206)
Dynamics of HIV-1 Assembly and Release (2009) (199)
Comprehensive molecular characterization of mitochondrial genomes in human cancers (2017) (197)
Secretory meningiomas are defined by combined KLF4 K409Q and TRAF7 mutations (2013) (194)
Metabolic-energy-dependent movement of PML bodies within the mammalian cell nucleus (2002) (192)
Engineering light-inducible nuclear localization signals for precise spatiotemporal control of protein dynamics in living cells (2014) (188)
Artesunate Activates Mitochondrial Apoptosis in Breast Cancer Cells via Iron-catalyzed Lysosomal Reactive Oxygen Species Production* (2010) (184)
Etiology‐dependent molecular mechanisms in human hepatocarcinogenesis (2007) (177)
Integrative genomic and transcriptomic analysis of leiomyosarcoma (2018) (174)
Microarray-based copy number and expression profiling in dedifferentiated and pleomorphic liposarcoma. (2002) (170)
CYP3A5 mediates basal and acquired therapy resistance in different subtypes of pancreatic ductal adenocarcinoma (2016) (168)
Group testing for pathway analysis improves comparability of different microarray datasets (2006) (166)
Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes (2020) (166)
Gene expression signature predicting pathologic complete response with gemcitabine, epirubicin, and docetaxel in primary breast cancer. (2006) (166)
Recurrent MET fusion genes represent a drug target in pediatric glioblastoma (2016) (160)
Optogenetic control of nuclear protein export (2016) (159)
Pre-activated antiviral innate immunity in the upper airways controls early SARS-CoV-2 infection in children (2021) (159)
Tagmentation-based whole-genome bisulfite sequencing (2013) (155)
Genome-wide transcriptional analysis of the human cell cycle identifies genes differentially regulated in normal and cancer cells (2008) (155)
Model-based dissection of CD95 signaling dynamics reveals both a pro- and antiapoptotic role of c-FLIPL (2010) (155)
Dynamics within the CD95 death-inducing signaling complex decide life and death of cells (2010) (152)
Molecular Evolution of Early-Onset Prostate Cancer Identifies Molecular Risk Markers and Clinical Trajectories. (2018) (149)
Computational imaging in cell biology (2003) (147)
NK cells switch from granzyme B to death receptor–mediated cytotoxicity during serial killing (2019) (138)
Autoantibodies Against the Exocrine Pancreas in Autoimmune Pancreatitis: Gene and Protein Expression Profiling and Immunoassays Identify Pancreatic Enzymes as a Major Target of the Inflammatory Process (2010) (137)
BAZ2A (TIP5) is involved in epigenetic alterations in prostate cancer and its overexpression predicts disease recurrence (2014) (136)
SARS-CoV-2 infection triggers profibrotic macrophage responses and lung fibrosis (2021) (136)
Screening drug effects in patient‐derived cancer cells links organoid responses to genome alterations (2017) (135)
One, two or three? Probing the stoichiometry of membrane proteins by single-molecule localization microscopy (2015) (133)
Prognostic impact of gene expression-based classification for neuroblastoma. (2010) (130)
Nuclear architecture and the induction of chromosomal aberrations. (1996) (127)
The mutational pattern of primary lymphoma of the central nervous system determined by whole-exome sequencing (2014) (127)
Deconvolution of single-cell multi-omics layers reveals regulatory heterogeneity (2018) (127)
Engineered anti-CRISPR proteins for optogenetic control of CRISPR–Cas9 (2018) (127)
Optimal Experimental Design for Parameter Estimation of a Cell Signaling Model (2009) (126)
Time-resolved analysis and visualization of dynamic processes in living cells. (1999) (126)
Enhancer hijacking activates oncogenic transcription factor NR4A3 in acinic cell carcinomas of the salivary glands (2019) (126)
The 3D positioning of ANT2 and ANT3 genes within female X chromosome territories correlates with gene activity. (1999) (125)
SARS-CoV-2-mediated dysregulation of metabolism and autophagy uncovers host-targeting antivirals (2021) (123)
Virus-induced senescence is a driver and therapeutic target in COVID-19 (2021) (120)
DNA methylome analysis in Burkitt and follicular lymphomas identifies differentially methylated regions linked to somatic mutation and transcriptional control (2015) (120)
Deterministic and probabilistic approaches for tracking virus particles in time-lapse fluorescence microscopy image sequences (2009) (120)
Prediction of clinical outcome and biological characterization of neuroblastoma by expression profiling (2004) (118)
An optimized, fully automated system for fast and accurate identification of chromosomal rearrangements by multiplex-FISH (M-FISH) (1998) (117)
EnrichedHeatmap: an R/Bioconductor package for comprehensive visualization of genomic signal associations (2018) (116)
Concurrent detection of autolysosome formation and lysosomal degradation by flow cytometry in a high-content screen for inducers of autophagy (2011) (116)
Hypertension delays viral clearance and exacerbates airway hyperinflammation in patients with COVID-19 (2020) (111)
Precision oncology based on omics data: The NCT Heidelberg experience (2017) (111)
Four-dimensional imaging and quantitative reconstruction to analyse complex spatiotemporal processes in live cells (2001) (110)
Identifying essential genes in bacterial metabolic networks with machine learning methods (2010) (109)
Web-based design and analysis tools for CRISPR base editing (2018) (105)
Topology of genes and nontranscribed sequences in human interphase nuclei. (2004) (95)
Applying Support Vector Machines for Gene ontology based gene function prediction (2004) (93)
Breast cancer: a candidate gene approach across the estrogen metabolic pathway (2007) (92)
Environment‐induced epigenetic reprogramming in genomic regulatory elements in smoking mothers and their children (2016) (92)
Herpesviral replication compartments move and coalesce at nuclear speckles to enhance export of viral late mRNA (2011) (92)
MYC/MIZ1-dependent gene repression inversely coordinates the circadian clock with cell cycle and proliferation (2016) (90)
Estimating novel potential drug targets of Plasmodium falciparum by analysing the metabolic network of knock-out strains in silico. (2009) (87)
A comprehensive comparison of tools for differential ChIP-seq analysis (2016) (87)
Argonaute—a database for gene regulation by mammalian microRNAs (2005) (86)
Coverage Bias and Sensitivity of Variant Calling for Four Whole-genome Sequencing Technologies (2013) (84)
Comparison of normalization methods for Illumina BeadChip HumanHT-12 v3 (2010) (84)
High-Resolution Genomic Profiling Reveals Association of Chromosomal Aberrations on 1q and 16p with Histologic and Genetic Subgroups of Invasive Breast Cancer (2006) (82)
Predicting protein subcellular locations using hierarchical ensemble of Bayesian classifiers based on Markov chains (2006) (81)
HiGHmed – An Open Platform Approach to Enhance Care and Research across Institutional Boundaries (2018) (81)
Genomic and transcriptomic changes complement each other in the pathogenesis of sporadic Burkitt lymphoma (2019) (81)
Distinct gene expression patterns associated with FLT3- and NRAS-activating mutations in acute myeloid leukemia with normal karyotype (2005) (79)
Whole genome sequencing puts forward hypotheses on metastasis evolution and therapy in colorectal cancer (2018) (78)
Mechismo: predicting the mechanistic impact of mutations and modifications on molecular interactions (2014) (78)
Integrative DNA methylation and gene expression analysis in high-grade soft tissue sarcomas (2013) (76)
Analysis of CD95 Threshold Signaling (2007) (76)
Microarray analysis reveals differential gene expression patterns and regulation of single target genes contributing to the opposing phenotype of TrkA- and TrkB-expressing neuroblastomas (2005) (76)
A cryptic t(5;11)(q35;p15.5) in 2 children with acute myeloid leukemia with apparently normal karyotypes, identified by a multiplex fluorescence in situ hybridization telomere assay. (2002) (76)
Genome-wide expression screens indicate a global role for protein kinase CK2 in chromatin remodeling (2003) (76)
Subtelomeric chromosome rearrangements are detected using an innovative 12-color FISH assay (M-TEL) (2001) (76)
Genomic footprints of activated telomere maintenance mechanisms in cancer (2017) (75)
Quantitative motion analysis and visualization of cellular structures. (2003) (75)
Comparison of performance of one-color and two-color gene-expression analyses in predicting clinical endpoints of neuroblastoma patients (2010) (75)
BRCA1-associated breast and ovarian cancer risks in Poland: no association with commonly studied polymorphisms (2009) (75)
4-D single particle tracking of synthetic and proteinaceous microspheres reveals preferential movement of nuclear particles along chromatin – poor tracks (2004) (74)
A highly standardized, robust, and cost-effective method for genome-wide transcriptome analysis of peripheral blood applicable to large-scale clinical trials. (2006) (73)
Automatic analysis of dividing cells in live cell movies to detect mitotic delays and correlate phenotypes in time. (2009) (72)
Spatial distributions of early and late replicating chromatin in interphase chromosome territories. (1998) (72)
Maternal phthalate exposure promotes allergic airway inflammation over 2 generations through epigenetic modifications (2017) (71)
Complement activation induces excessive T cell cytotoxicity in severe COVID-19 (2021) (71)
BioModels: expanding horizons to include more modelling approaches and formats (2017) (70)
Separate and variably shaped chromosome arm domains are disclosed by chromosome arm painting in human cell nuclei (1998) (70)
Memory-like HCV-specific CD8+ T cells retain a molecular scar after cure of chronic HCV infection (2021) (69)
RNAither, an automated pipeline for the statistical analysis of high-throughput RNAi screens (2009) (68)
Nuclear NR4A3 Immunostaining Is a Specific and Sensitive Novel Marker for Acinic Cell Carcinoma of the Salivary Glands (2019) (67)
Negative feedback in the bone morphogenetic protein 4 (BMP4) synexpression group governs its dynamic signaling range and canalizes development (2011) (67)
Intra- and Interdimeric Caspase-8 Self-Cleavage Controls Strength and Timing of CD95-Induced Apoptosis (2014) (67)
SplicingCompass: differential splicing detection using RNA-Seq data (2013) (66)
Gene network dynamics controlling keratinocyte migration (2008) (65)
Revised Risk Estimation and Treatment Stratification of Low- and Intermediate-Risk Neuroblastoma Patients by Integrating Clinical and Molecular Prognostic Markers (2014) (64)
Pancreatic Ductal Adenocarcinoma Subtyping Using the Biomarkers Hepatocyte Nuclear Factor-1A and Cytokeratin-81 Correlates with Outcome and Treatment Response (2017) (64)
Integration of Activating and Inhibitory Receptor Signaling by Regulated Phosphorylation of Vav1 in Immune Cells (2011) (64)
Hypermutation of the Inactive X Chromosome Is a Frequent Event in Cancer (2013) (64)
GOPET: A tool for automated predictions of Gene Ontology terms (2006) (63)
Single nucleus and in situ RNA sequencing reveals cell topographies in the human pancreas. (2020) (62)
MEST mediates the impact of prenatal bisphenol A exposure on long-term body weight development (2018) (62)
Inferring genetic regulatory logic from expression data (2005) (62)
CCM2 Mediates Death Signaling by the TrkA Receptor Tyrosine Kinase (2009) (61)
Local gene density predicts the spatial position of genetic loci in the interphase nucleus. (2005) (61)
Distinct molecular phenotype of malignant CD34+ hematopoietic stem and progenitor cells in chronic myelogenous leukemia (2005) (60)
Aspects of three-dimensional chromosome reorganization during the onset of human male meiotic prophase. (1998) (60)
An integrated genome research network for studying the genetics of alcohol addiction (2010) (60)
Recurrent RHOA mutations in pediatric Burkitt lymphoma treated according to the NHL‐BFM protocols (2014) (58)
Global gene expression profiling and cluster analysis in Xenopus laevis (2005) (57)
Modeling glioblastoma invasion using human brain organoids and single-cell transcriptomics (2019) (57)
A framework for modelling gene regulation which accommodates non-equilibrium mechanisms (2014) (56)
Prenatal maternal stress and wheeze in children: novel insights into epigenetic regulation (2016) (55)
The Human Cell Atlas White Paper (2018) (55)
Estimating the activity of transcription factors by the effect on their target genes (2014) (54)
Polymorphisms in the BRCA1 and ABCB1 genes modulate menopausal hormone therapy associated breast cancer risk in postmenopausal women (2010) (54)
Nonrigid Registration of 3-D Multichannel Microscopy Images of Cell Nuclei (2008) (53)
Defective homologous recombination DNA repair as therapeutic target in advanced chordoma (2019) (53)
Understanding apoptosis by systems biology approaches. (2009) (53)
Comprehensive Analysis of Chromatin States in Atypical Teratoid/Rhabdoid Tumor Identifies Diverging Roles for SWI/SNF and Polycomb in Gene Regulation. (2019) (53)
Genome sequencing: a systematic review of health economic evidence (2013) (52)
SARS-CoV-2 receptor ACE2 and TMPRSS2 are predominantly expressed in a transient secretory cell type in subsegmental bronchial branches (2020) (52)
Mutational patterns and regulatory networks in epigenetic subgroups of meningioma (2019) (52)
Inflammation-mediated skin tumorigenesis induced by epidermal c-Fos (2013) (52)
The role of Vimentin in Regulating Cell Invasive Migration in Dense Cultures of Breast Carcinoma Cells. (2017) (52)
Cell-specific CRISPR–Cas9 activation by microRNA-dependent expression of anti-CRISPR proteins (2019) (51)
Live cell dynamics of promyelocytic leukemia nuclear bodies upon entry into and exit from mitosis. (2008) (51)
Analyzing the regulation of metabolic pathways in human breast cancer (2009) (51)
Single‐cell‐based image analysis of high‐throughput cell array screens for quantification of viral infection (2009) (50)
Quantitative imaging of pre-mRNA splicing factors in living cells. (2000) (50)
Caspase-8 cleaves its substrates from the plasma membrane upon CD95-induced apoptosis (2013) (49)
Tumor classification by gene expression profiling: comparison and validation of five clustering methods (2001) (49)
Automated Analysis of the Mitotic Phases of Human Cells in 3D Fluorescence Microscopy Image Sequences (2006) (49)
Application of confocal laser microscopy and three‐dimensional Voronoi diagrams for volume and surface estimates of interphase chromosomes (1995) (49)
Cell segmentation-free inference of cell types from in situ transcriptomics data (2019) (48)
Phenocopy – A Strategy to Qualify Chemical Compounds during Hit-to-Lead and/or Lead Optimization (2010) (47)
Multi-Parametric Analysis and Modeling of Relationships between Mitochondrial Morphology and Apoptosis (2012) (46)
Human Resting CD4+ T Cells Are Constitutively Inhibited by TGFβ under Steady-State Conditions12 (2007) (46)
Machine learning based analyses on metabolic networks supports high-throughput knockout screens (2008) (44)
Caspase-8 activity has an essential role in CD95/Fas-mediated MAPK activation (2011) (43)
Aggressive PDACs show hypomethylation of repetitive elements and the execution of an intrinsic IFN program linked to a ductal cell-of-origin. (2020) (42)
Increased vitamin D levels at birth and in early infancy increase offspring allergy risk-evidence for involvement of epigenetic mechanisms. (2016) (41)
Sex differences in oncogenic mutational processes (2019) (41)
Comparative transcriptome profiling of amyloid precursor protein family members in the adult cortex (2011) (40)
Nonrigid Registration of 2-D and 3-D Dynamic Cell Nuclei Images for Improved Classification of Subcellular Particle Motion (2011) (40)
3D finite element analysis of uniaxial cell stretching: from image to insight (2007) (40)
Spatial niche formation but not malignant progression is a driving force for intratumoural heterogeneity (2016) (40)
Identification of a subtle t(16;19)(p13.3;p13.3) in an infant with multiple congenital abnormalities using a 12-colour multiplex FISH telomere assay, M-TEL (2000) (40)
Impact of clinical exomes in neurodevelopmental and neurometabolic disorders. (2017) (39)
New concepts to improve resolution and sensitivity of molecular cytogenetic diagnostics by multicolor fluorescence in situ hybridization. (2001) (39)
Analysis of Chromosomal Alterations in Non-Small Cell Lung Cancer by Multiplex-FISH, Comparative Genomic Hybridization, and Multicolor Bar Coding (2000) (39)
Alterations of microRNA and microRNA-regulated messenger RNA expression in germinal center B-cell lymphomas determined by integrative sequencing analysis (2016) (39)
Evidence against a looped structure of the inactive human X-chromosome territory. (1998) (39)
Single-cell analysis of patient-derived PDAC organoids reveals cell state heterogeneity and a conserved developmental hierarchy (2020) (38)
Pathways of urothelial cancer progression suggested by Bayesian network analysis of allelotyping data (2004) (37)
Reliability of gene expression ratios for cDNA microarrays in multiconditional experiments with a reference design. (2004) (36)
MicroRNA profiling of primary high‐grade soft tissue sarcomas (2012) (36)
PathWave: discovering patterns of differentially regulated enzymes in metabolic pathways (2010) (36)
Suppression of early hematogenous dissemination of human breast cancer cells to bone marrow by retinoic Acid-induced 2. (2015) (36)
ACEseq – allele specific copy number estimation from whole genome sequencing (2017) (36)
The transcriptomic and epigenetic map of vascular quiescence in the continuous lung endothelium (2018) (36)
miR-17-5p Regulates Endocytic Trafficking through Targeting TBC1D2/Armus (2012) (35)
Quantitative diagnosis of breast tumors by morphometric classification of microenvironmental myoepithelial cells using a machine learning approach (2017) (34)
Cross-study analysis of gene expression data for intermediate neuroblastoma identifies two biological subtypes (2007) (34)
Dissecting the contribution of actin and vimentin intermediate filaments to mechanical phenotype of suspended cells using high-throughput deformability measurements and computational modeling. (2014) (34)
Formulating multicellular models of metabolism in tissues: application to energy metabolism in the human brain (2010) (34)
Core binding factor beta-smooth muscle myosin heavy chain chimeric protein involved in acute myeloid leukemia forms unusual nuclear rod-like structures in transformed NIH 3T3 cells. (1996) (33)
An RNAi screen identifies KIF15 as a novel regulator of the endocytic trafficking of integrin (2014) (33)
Polymorphisms in genes of the steroid receptor superfamily modify postmenopausal breast cancer risk associated with menopausal hormone therapy (2010) (33)
Computational Systems Biology (2006) (33)
Identification of DNA methylation changes at cis-regulatory elements during early steps of HSC differentiation using tagmentation-based whole genome bisulfite sequencing (2014) (32)
OTP: An automatized system for managing and processing NGS data. (2017) (32)
Coupling Cas9 to artificial inhibitory domains enhances CRISPR-Cas9 target specificity (2020) (31)
Somatic mutations and promotor methylation of the ryanodine receptor 2 is a common event in the pathogenesis of head and neck cancer (2019) (31)
Follicular T helper cells shape the HCV-specific CD4 T cell repertoire after viral elimination. (2019) (31)
Glioblastoma epigenome profiling identifies SOX10 as a master regulator of molecular tumour subtype (2020) (31)
Analysis of mutational signatures with yet another package for signature analysis (2020) (31)
Efficient keratinocyte differentiation strictly depends on JNK-induced soluble factors in fibroblasts. (2014) (30)
Automated Analysis of Single-Molecule Photobleaching Data by Statistical Modeling of Spot Populations. (2015) (30)
Topology of double minutes (dmins) and homogeneously staining regions (HSRs) in nuclei of human neuroblastoma cell lines (2000) (30)
HilbertCurve: an R/Bioconductor package for high-resolution visualization of genomic data (2016) (30)
Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig (2020) (30)
A new strategy for the detection of subtelomeric rearrangements (2001) (29)
Tracking multiple particles in fluorescence microscopy images via probabilistic data association (2011) (29)
DDX3X mutations in two girls with a phenotype overlapping Toriello–Carey syndrome (2017) (29)
Genetic subclone architecture of tumor clone-initiating cells in colorectal cancer (2017) (29)
Mining Quasi-Bicliques from HIV-1-Human Protein Interaction Network: A Multiobjective Biclustering Approach (2013) (29)
Creating functional engineered variants of the single-module non-ribosomal peptide synthetase IndC by T domain exchange. (2014) (29)
Subclassification and Individual Survival Time Prediction from Gene Expression Data of Neuroblastoma Patients by Using CASPAR (2008) (28)
Integrative Analysis of Multi-omics Data Identified EGFR and PTGS2 as Key Nodes in a Gene Regulatory Network Related to Immune Phenotypes in Head and Neck Cancer (2020) (28)
Inferring structural variant cancer cell fraction (2020) (27)
Normalizing for individual cell population context in the analysis of high-content cellular screens (2011) (27)
Integrated genomic profiling identifies two distinct molecular subtypes with divergent outcome in neuroblastoma with loss of chromosome 11q (2010) (27)
Response to olaparib in a PALB2 germline mutated prostate cancer and genetic events associated with resistance (2019) (27)
Tracking Virus Particles in Fluorescence Microscopy Images Using Multi-Scale Detection and Multi-Frame Association (2015) (26)
Large-Scale Uniform Analysis of Cancer Whole Genomes in Multiple Computing Environments (2017) (26)
Automated recognition of mitotic patterns in fluorescence microscopy images of human cells (2006) (26)
Three‐dimensional distribution of centromeric or paracentromeric heterochromatin of chromosomes 1, 7, 15 and 17 in human lymphocyte nuclei studied with light microscopic axial tomography (1995) (26)
Diagnosis of CoPAN by whole exome sequencing: Waking up a sleeping tiger's eye (2017) (26)
TRACKING OF VIRUS PARTICLES IN TIME-LAPSE FLUORESCENCE MICROSCOPY IMAGE SEQUENCES (2007) (25)
Translating Expression Profiling into a Clinically Feasible Test to Predict Neuroblastoma Outcome (2007) (25)
Discovering functional gene expression patterns in the metabolic network of Escherichia coli with wavelets transforms (2006) (25)
Analyzing motion and deformation of the cell nucleus for studying co-localizations of nuclear structures (2006) (25)
Familial Cancer Variant Prioritization Pipeline version 2 (FCVPPv2) applied to a papillary thyroid cancer family (2018) (25)
Tracking and quantitative analysis of dynamic movements of cells and particles. (2010) (24)
Meningiomas induced by low-dose radiation carry structural variants of NF2 and a distinct mutational signature (2017) (23)
NOTCH target gene HES5 mediates oncogenic and tumor suppressive functions in hepatocarcinogenesis (2020) (23)
Classification accuracy in multiple color fluorescence imaging microscopy. (2000) (23)
Identification of the Rage-dependent gene regulatory network in a mouse model of skin inflammation (2010) (23)
Signatures of mutational processes in human cancer this access benefits you. Your matters (2013) (23)
Cell-specific CRISPR/Cas9 activation by microRNA-dependent expression of anti-CRISPR proteins (2018) (23)
Loss of function of PGAP1 as a cause of severe encephalopathy identified by Whole Exome Sequencing: Lessons of the bioinformatics pipeline. (2015) (22)
Classification of neuroblastoma patients by published gene-expression markers reveals a low sensitivity for unfavorable courses of MYCN non-amplified disease. (2007) (22)
Between-species differences in gene copy number are enriched among functions critical for adaptive evolution in Arabidopsis halleri (2016) (22)
Automated classification of mitotic phenotypes of human cells using fluorescent proteins. (2008) (22)
Mutational mechanisms shaping the coding and noncoding genome of germinal center derived B-cell lymphomas (2021) (22)
General Stochastic Hybrid Method for the Simulation of Chemical Reaction Processes in Cells (2004) (22)
Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples (2020) (22)
Shape normalization of 3D cell nuclei using elastic spherical mapping (2008) (22)
TGFβ-induced cytoskeletal remodeling mediates elevation of cell stiffness and invasiveness in NSCLC (2019) (21)
Cutis laxa, exocrine pancreatic insufficiency and altered cellular metabolomics as additional symptoms in a new patient with ATP6AP1-CDG. (2018) (21)
Data-Derived Modeling Characterizes Plasticity of MAPK Signaling in Melanoma (2014) (21)
Author Correction: The landscape of genomic alterations across childhood cancers (2018) (21)
Single nucleus andin situRNA sequencing reveals cell topographies in the human pancreas (2019) (20)
So rare we need to hunt for them: reframing the ethical debate on incidental findings (2015) (20)
Identifying Personal DNA Methylation Profiles by Genotype Inference (2017) (20)
Resolution improvement by 3-D reconstructions from tilted views in axial tomography and confocal theta microscopy (1997) (20)
AP-1-controlled hepatocyte growth factor activation promotes keratinocyte migration via CEACAM1 and urokinase plasminogen activator/urokinase plasminogen receptor. (2009) (19)
Bayesian statistical modelling of human protein interaction network incorporating protein disorder information (2010) (19)
Discovery of transcriptional programs in cerebral ischemia by in silico promoter analysis (2009) (19)
SIPA1L3 identified by linkage analysis and whole-exome sequencing as a novel gene for autosomal recessive congenital cataract (2015) (19)
Mining association rules from HIV-human protein interactions (2010) (19)
RIP: the regulatory interaction predictor - a machine learning-based approach for predicting target genes of transcription factors (2011) (19)
Analysis of Gene Expression and Drug Activity Data by Knowledge-based Association Mining (2004) (18)
Workflows for microscopy image analysis and cellular phenotyping. (2017) (18)
Simulation of the distribution of chromosome targets in cell nuclei under topological constraints (1995) (18)
Nucleosome repositioning during differentiation of a human myeloid leukemia cell line (2017) (18)
Feature Selection for Evaluating Fluorescence Microscopy Images in Genome-Wide Cell Screens (2006) (18)
Combinatorial treatment of CD95L and gemcitabine in pancreatic cancer cells induces apoptotic and RIP1-mediated necroptotic cell death network. (2015) (18)
Metabolomic profiles predict individual multidisease outcomes (2022) (18)
Systems Biological Analysis of Epidermal Growth Factor Receptor Internalization Dynamics for Altered Receptor Levels* (2009) (18)
Gene expression profiling of Philadelphia chromosome (Ph)-negative CD34+ hematopoietic stem and progenitor cells of patients with Ph-positive CML in major molecular remission during therapy with imatinib (2005) (18)
Nuclear NR4A2 (Nurr1) Immunostaining is a Novel Marker for Acinic Cell Carcinoma of the Salivary Glands Lacking the Classic NR4A3 (NOR-1) Upregulation. (2020) (18)
Computational identification of signalling pathways in Plasmodium falciparum. (2011) (18)
On the role of spatial phase and phase correlation in vision, illusion, and cognition (2015) (18)
STK25 Protein Mediates TrkA and CCM2 Protein-dependent Death in Pediatric Tumor Cells of Neural Origin* (2012) (18)
Cross-talk between the airway epithelium and activated immune cells defines severity in COVID-19 (2020) (17)
Fluorescence Recovery after Photobleaching with the Leica TCS SP2 (2004) (17)
The genomic and transcriptional landscape of primary central nervous system lymphoma (2021) (17)
Leveraging implicit knowledge in neural networks for functional dissection and engineering of proteins (2019) (17)
Detecting host factors involved in virus infection by observing the clustering of infected cells in siRNA screening images (2010) (17)
Time-Lapse Imaging of Neuroblastoma Cells to Determine Cell Fate upon Gene Knockdown (2012) (17)
Optogenetic control of Neisseria meningitidis Cas9 genome editing using an engineered, light-switchable anti-CRISPR protein (2019) (17)
Pheno-seq – linking visual features and gene expression in 3D cell culture systems (2019) (16)
An ultrasensitive sorting mechanism for EGF Receptor Endocytosis (2008) (16)
Informatics United (2003) (16)
Large‐scale tracking and classification for automatic analysis of cell migration and proliferation, and experimental optimization of high‐throughput screens of neuroblastoma cells (2015) (16)
Hypermutation takes the driver’s seat (2015) (16)
Whole-genome analysis of gene expression associates the ubiquitin-proteasome system with the cardiomyopathy phenotype in disease-sensitized congenic mouse strains. (2012) (16)
Backbone circularization of Bacillus subtilis family 11 xylanase increases its thermostability and its resistance against aggregation. (2015) (15)
Live‐Cell Assays to Identify Regulators of ER‐to‐Golgi Trafficking (2012) (15)
Multiparametric image analysis reveals role of Caveolin1 in endosomal progression rather than internalization of EGFR (2012) (15)
Using gene expression data and network topology to detect substantial pathways, clusters and switches during oxygen deprivation of Escherichia coli (2007) (15)
Gene expression analysis on biochemical networks with the potts spin model (2004) (15)
Copy Number Alterations in Enzyme-Coding and Cancer-Causing Genes Reprogram Tumor Metabolism. (2016) (15)
Gene expression in Solitary Fibrous Tumors (SFTs) correlates with anatomical localization and NAB2-STAT6 gene fusion variants. (2021) (15)
gtrellis: an R/Bioconductor package for making genome-level Trellis graphics (2016) (15)
Non-rigid multi-frame registration of cell nuclei in live cell fluorescence microscopy image data (2015) (15)
Controlling Cells with Light and LOV (2018) (14)
Using Bayesian multinomial classifier to predict whether a given protein sequence is intrinsically disordered. (2008) (14)
Mutant KIT as imatinib-sensitive target in metastatic sinonasal carcinoma (2016) (14)
Rigid and non-rigid registration of polarized light imaging data for 3D reconstruction of the temporal lobe of the human brain at micrometer resolution (2018) (14)
A database system for comparative genomic hybridization analysis (2001) (14)
Supplemental Information Recruitment and Activation of a Lipid Kinase by Hepatitis C Virus NS 5 A Is Essential for Integrity of the Membranous Replication Compartment (2010) (14)
Automated 3D light-sheet screening with high spatiotemporal resolution reveals mitotic phenotypes (2020) (14)
Early-onset childhood atopic dermatitis is related to NLRP2 repression. (2017) (14)
Bronchoalveolar lavage fluid of lung cancer patients: mapping the uncharted waters using proteomics technology. (2011) (13)
Computational design of anti-CRISPR proteins with improved inhibition potency (2020) (13)
Postmenopausal estrogen monotherapy–associated breast cancer risk is modified by CYP17A1_-34_T>C polymorphism (2010) (13)
Decision-Tree Based Model Analysis for Efficient Identification of Parameter Relations Leading to Different Signaling States (2013) (13)
NON-RIGID TEMPORAL REGISTRATION OF 2D AND 3D MULTI-CHANNEL MICROSCOPY IMAGE SEQUENCES OF HUMAN CELLS (2007) (13)
Corrigendum: Signatures of mutational processes in human cancer (2013) (13)
Mixed Integer Linear Programming based machine learning approach identifies regulators of telomerase in yeast (2016) (13)
An Active Contour Model for Segmentation Based on Cubic B-splines and Gradient Vector Flow (2001) (13)
conditional expression of Myd 88 ( p . L 252 P ) leads to the development of diffuse large B cell lymphoma in mice (2017) (13)
3D segmentation and quantification of mouse embryonic stem cells in fluorescence microscopy images (2011) (13)
Minding, OLAPing, and Mining Biological Data: Towards a Data Warehousing Concept in Biology (2001) (13)
Non-rigid Registration of 3D Multi-channel Microscopy Images of Cell Nuclei (2006) (13)
Proteomic Bronchiolitis Obliterans Syndrome Risk Monitoring in Lung Transplant Recipients (2011) (13)
Probing compressibility of the nuclear interior in wild-type and lamin deficient cells using microscopic imaging and computational modeling. (2011) (12)
Impact of cancer mutational signatures on transcription factor motifs in the human genome (2018) (12)
Dissecting Privacy Risks in Biomedical Data (2018) (12)
Characterizing Protein Interactions Employing a Genome-Wide siRNA Cellular Phenotyping Screen (2014) (12)
Single nucleus RNA sequencing maps acinar cell states in a human pancreas cell atlas (2019) (12)
Role of the ESCRT Complexes in Telomere Biology (2016) (11)
Genomic features of renal cell carcinoma with venous tumor thrombus (2018) (11)
Identifying Virus-Cell Fusion in Two-Channel Fluorescence Microscopy Image Sequences Based on a Layered Probabilistic Approach (2012) (11)
Tropical - parameter estimation and simulation of reaction-diffusion models based on spatio-temporal microscopy images (2006) (11)
Quantitative comparison of DNA detection by GFP-lac repressor tagging, fluorescence in situ hybridization and immunostaining (2007) (11)
Identification of immunotherapeutic targets by genomic profiling of rectal NET metastases (2016) (11)
Author response: The Human Cell Atlas (2017) (10)
Enhancers regulate progression of development in mammalian cells (2011) (10)
A comprehensive multicenter comparison of whole genome sequencing pipelines using a uniform tumor-normal sample pair (2014) (10)
Implementing FAIR data management within the German Network for Bioinformatics Infrastructure (de.NBI) exemplified by selected use cases (2021) (10)
Death receptor-based enrichment of Cas9-expressing cells (2016) (10)
Three--dimensional imaging approaches and Monte Carlo simulations: development of tools to study the morphology and distribution of chromosome territories and subchromosomal targets in human cell nuclei (1995) (10)
Optogenetic Control of Nuclear Protein Import in Living Cells Using Light‐Inducible Nuclear Localization Signals (LINuS) (2016) (10)
Introducing computational systems biology (2006) (9)
Single-Fluorescent Protein Reporters Allow Parallel Quantification of Natural Killer Cell-Mediated Granzyme and Caspase Activities in Single Target Cells (2018) (9)
Analysis of fast dynamic processes in living cells: high-resolution and high-speed dual-color imaging combined with automated image analysis. (2000) (9)
Transcription factors, coregulators, and epigenetic marks are linearly correlated and highly redundant (2017) (9)
Systems Biology and Artificial Life: Towards Predictive Modeling of Biological Systems (2008) (9)
Computational Models for Circadian Rhythms: Deterministic versus Stochastic Approaches (2006) (9)
Correlated receptor transport processes buffer single-cell heterogeneity (2017) (8)
TALEN/CRISPR-mediated engineering of a promoterless anti-viral RNAi hairpin into an endogenous miRNA locus (2016) (8)
New Tools for Visualization and Quantification in Dynamic Processes: Application to the Nuclear Envelope Dynamics During Mitosis (2001) (8)
Shape-adapted motion model based on thin-plate splines and point clustering for point set registration (2002) (8)
Butler enables rapid cloud-based analysis of thousands of human genomes (2020) (8)
A targetable ‘rogue’ neutrophil-subset, [CD11b+DEspR+] immunotype, is associated with severity and mortality in acute respiratory distress syndrome (ARDS) and COVID-19-ARDS (2022) (8)
Functional States in Tumor-Initiating Cell Differentiation in Human Colorectal Cancer (2021) (8)
A Point Set Registration Algorithm Using a Motion Model Based on Thin-Plate Splines and Point Clustering (2001) (8)
ShinyButchR: Interactive NMF-based decomposition workflow of genome-scale datasets (2020) (8)
ICGC PedBrain - dissecting the genomic complexity underlying medulloblastoma using whole-genome sequencing (2012) (8)
Tagmentation-Based Library Preparation for Low DNA Input Whole Genome Bisulfite Sequencing. (2018) (8)
Computational Systems Biology: From Molecular Mechanisms to Disease: Second Edition (2013) (8)
Knowledge bases and software support for variant interpretation in precision oncology (2021) (7)
A method for the rational selection of drug repurposing candidates from multimodal knowledge harmonization (2021) (7)
Pedigree based DNA sequencing pipeline for germline genomes of cancer families (2016) (7)
Deciphering programs of transcriptional regulation by combined deconvolution of multiple omics layers (2017) (7)
Quantification of fluorescent spots in time series of 3D confocal microscopy images of endoplasmic reticulum exit sites based on the HMAX transform (2010) (7)
Probabilistic tracking of virus particles in fluorescence microscopy images (2008) (7)
Framework for quality assessment of whole genome cancer sequences (2017) (7)
A Comprehensive Assessment of Somatic Mutation Calling in Cancer Genomes (2014) (7)
Tracking virus particles in fluorescence microscopy images using two-step multi-frame association (2012) (7)
Identifying multimodal signatures underlying the somatic comorbidity of psychosis: the COMMITMENT roadmap (2020) (6)
Membership Inference Against DNA Methylation Databases (2020) (6)
Automated 3D light-sheet screening with high spatiotemporal resolution reveals mitotic phenotypes. (2020) (6)
The DNA methylation landscape of multiple myeloma shows extensive inter- and intrapatient heterogeneity that fuels transcriptomic variability (2020) (6)
Elastic registration of high-resolution 3D PLI data of the human brain (2017) (6)
Mutant KIT as imatinib-sensitive target in metastatic sinonasal carcinoma. (2017) (6)
Structural analysis of interphase X-chromatin based on statistical shape theory. (2008) (6)
Neural network-based integration of polygenic and clinical information: development and validation of a prediction model for 10-year risk of major adverse cardiac events in the UK Biobank cohort. (2022) (6)
Microarrays meet the Voltaire challenge: Drug discovery on a chip? (2006) (5)
LARGE-SCALE TRACKING FOR CELL MIGRATION AND PROLIFERATION ANALYSIS AND EXPERIMENTAL OPTIMIZATION OF HIGH-THROUGHPUT SCREENS (2011) (5)
Model-based segmentation and quantification of fluorescent bacteria in 3D microscopy live cell images (2007) (5)
Registration of ultra-high resolution 3D PLI data of human brain sections to their corresponding high-resolution counterpart (2017) (5)
Editorial: Synthetic biology – ready for application (2015) (5)
DETERMINATION OF MITOTIC DELAYS IN 3D FLUORESCENCE MICROSCOPY IMAGES OF HUMAN CELLS USING AN ERROR-CORRECTING FINITE STATE MACHINE (2007) (5)
Quantitative Single-Molecule Localization Microscopy (qSMLM) of Membrane Proteins Based on Kinetic Analysis of Fluorophore Blinking Cycles. (2017) (5)
Hyperinflammation as underlying mechanism predisposing patients with cardiovascular diseases for severe COVID-19 (2021) (5)
Putative second hit rare genetic variants in families with seemingly GBA-associated Parkinson’s disease (2021) (5)
PANCREAS AND BILIARY TRACT Autoantibodies Against the Exocrine Pancreas in Autoimmune Pancreatitis: Gene and Protein Expression Profi ling and Immunoassays Identify Pancreatic Enzymes as a Major Target of the Infl ammatory Process (2010) (5)
Inferring a system model of subcellular topoisomerase IIβ localization dynamics (2004) (4)
An in silico Approach to Detect Efficient Malaria Drug Targets to Combat the Malaria Resistance Problem (2009) (4)
Experiment Setups and Parameter Estimation in Fluorescence Recovery After Photobleaching Experiments: A Review of Current Practice (2013) (4)
Understanding life and death at CD95. (2011) (4)
Disease-gene discovery by integration of 3D gene expression and transcription factor binding affinities (2013) (4)
Patient-specific modeling of stroma-mediated chemoresistance of pancreatic cancer using a three-dimensional organoid-fibroblast co-culture system (2022) (4)
Prospective multicentric validation of a novel prediction model for paroxysmal atrial fibrillation (2020) (4)
The COVID-19 Data Exchange Platform of the German University Medicine (2022) (4)
Species Production Iron-catalyzed Lysosomal Reactive Oxygen Apoptosis in Breast Cancer Cells via Artesunate Activates Mitochondrial Cell (2011) (4)
MIACA – Minimum Information About a Cellular Assay: Standardized description of cell-based functional assay projects (2013) (4)
Identifying fusion events in fluorescence microscopy images (2009) (4)
Databases for systems biology (2006) (4)
MapMyFlu: visualizing spatio-temporal relationships between related influenza sequences (2015) (4)
The openEHR Genomics Project (2020) (4)
Prediction of small molecule binding property of protein domains with Bayesian classifiers based on Markov chains (2009) (4)
NEURO/MEDICAL ONCOLOGY (2013) (4)
Transcriptome profiling reveals Silibinin dose-dependent response network in non-small lung cancer cells (2020) (3)
A question of scale Bringing an existing bioscience workflow engine to the grid (2004) (3)
Temporal control of the integrated stress response by a stochastic molecular switch (2022) (3)
Probabilistic Tracking of Virus Particles in Fluorescence Microscopy Image Sequences (2008) (3)
Contactless determination of nuclear compressibility using 3D image‐ and model‐based analysis of drug‐induced cellular deformation (2010) (3)
Topological analysis of 3D cell nuclei using finite element template-based spherical mapping (2006) (3)
Mining Gene Expression Data using Rough Set Theory (1999) (3)
The landscape of genomic alterations across childhood cancers (2018) (3)
Network topology-based detection of differential gene regulation and regulatory switches in cell metabolism and signaling (2014) (3)
Evaluation of Approaches for Tracking Virus Particles in Fluorescence Microscopy Images (2009) (3)
Whole-genome fingerprint of the DNA methylome during chemically induced differentiation of the human AML cell line HL-60/S4 (2019) (3)
Gene set inference from single-cell sequencing data using a hybrid of matrix factorization and variational autoencoders (2019) (3)
Shape Reconstruction from Volumetric Data (1999) (3)
On the embryonic cell division beyond the contractile ring mechanism: experimental and computational investigation of effects of vitelline confinement, temperature and egg size (2015) (3)
Genetic Interactions and Tissue Specificity Modulate the Association of Mutations with Drug Response (2019) (3)
Nonlinear elastic model for image registration and soft tissue simulation based on piecewise St. Venant-Kirchhoff material approximation (2008) (3)
Lipomatous solitary fibrous tumors harbor rare NAB2-STAT6 fusion variants and show upregulation of the gene Peroxisome Proliferator Activated Receptor Gamma (PPARG) encoding for a regulator of adipocyte differentiation. (2021) (3)
Position paper: Cornerstones for an ethically and legally informed practice of whole genome sequencing (2015) (3)
Differential gene expression in the alcohol target organs liver and pancreas of wistar rats using DNA chip technology (2003) (2)
Analysis of Chromosome Territory Architecture in the Human Cell Nucleus (2000) (2)
New Insights into the Genetic Regulation of Plasmodium Falciparum Obtained by Bayesian Modeling (2007) (2)
Variability Analysis of the Large-Scale Structure of Interphase Chromatin Fiber Based on Statistical Shape Theory (2007) (2)
The COVID-19 PHARMACOME: Rational Selection of Drug Repurposing Candidates from Multimodal Knowledge Harmonization (2020) (2)
Identification of Blut, a Novel Long-Noncoding RNA Differentially Expressed in Burkitt Lymphoma (2015) (2)
Gene Expression Profiling of Philadelphia Chromosome(Ph) Negative CD34+ Hematopoietic Stem and Progenitor Cells of Patients with Ph Positive CML in Complete Molecular Remission during Therapy with Imatinib. (2004) (2)
Genomic Profiling Reveals Association of Chromosomal Aberrations on 1 q and 16 pwith Histologic and Genetic Subgroups of Invasive Breast Cancer (2006) (2)
1 MODULATION OF SERINES 17 AND 24 IN THE LC 3-INTERACTING REGION OF BNIP 3 DETERMINES PRO-SURVIVAL MITOPHAGY VS . APOPTOSIS (2012) (2)
ELF5 is a potential respiratory epithelial cell-specific risk gene for severe COVID-19 (2022) (2)
Author Correction: Cell segmentation-free inference of cell types from in situ transcriptomics data (2021) (2)
Geometrical probability approach for analysis of 3D chromatin structure in interphase cell nuclei (2007) (2)
Symbolic and Subsymbolic Machine Learning Approaches for Molecular Classification of Cancer and Ranking of Genes (2004) (2)
SARS-CoV-2 receptor ACE2 and TMPRSS2 are predominantly expressed in a transient secretory cell type in subsegmental bronchial branches AUTHORS (2020) (2)
Enhancer hijacking activates oncogenic transcription factor NR4A3 in acinic cell carcinomas of the salivary glands (2019) (2)
Assessing the similarity of spatial configurations using distance differences and bending energy: application to chromosomal interphase arrangements in HeLa cell clones (2004) (2)
Transformation of microbiology data into a standardised data representation using OpenEHR (2021) (2)
Non-rigid Temporal Alignment of 2D and 3D Multi-channel Microscopy Image Sequences of Human Cells (2007) (2)
The benzene metabolite 1,4-benzoquinone reduces regulatory T-cell function: A potential mechanism for tobacco smoke-associated atopic dermatitis. (2017) (2)
Chapter 1 – Introducing Computational Systems Biology (2014) (2)
Longitudinal trends of serum IgE and IL5RA expression throughout childhood are associated with asthma but not with persistent wheeze (2019) (2)
Motion detection and pattern tracking in microscopical images using phase correlation approach (2007) (2)
Identification and Prioritization of Causal Variants of Human Genetic Disorders from Exome or Whole Genome Sequencing Data (2018) (2)
Quantification of substrate and cellular strains in stretchable 3D cell cultures: an experimental and computational framework (2017) (2)
CD95 receptor activation by ligand-induced trimerization is independent of its partial pre-ligand assembly (2018) (2)
Non-rigid alignment of multi-channel fluorescence microscopy images of live cells for improved classification of subcellular particle motion (2009) (2)
Dynamics of SARS-CoV-2 host cell interactions inferred from transcriptome analyses (2021) (2)
Spatial Modeling and Simulation of Diffusion in Nuclei of Living Cells (2004) (1)
Synergy between medical informatics and facilitating genomic medicine for future bioinformatics: health care (2004) (1)
CGH-Profiler: Data mining based on genomic aberration profiles (2005) (1)
Segregation and potential functional impact of a rare stop-gain PABPC4L variant in familial atypical Parkinsonism (2019) (1)
Analyzing the Variability of the 3D Structure of Chromatin Fiber Using Statistical Shape Theory (2007) (1)
Tracking and Registration for Multidimensional Biomedical Image Analysis (2010) (1)
Analysis of gene expression data on metabolic networks (2007) (1)
Deep molecular characterization linked to drug response profiling of pancreatic ductal adenocarcinoma using patient-derived organoids (2021) (1)
Single Cell Analysis of Cultivated Fibroblasts from Chronic Pancreatitis and Pancreatic Cancer Patients (2022) (1)
Differentially methylated regions within lung cancer risk loci are enriched in deregulated enhancers (2021) (1)
Genetic variants in apoptosis‐related genes associated with colorectal hyperplasia (2014) (1)
Non-rigid Registration of 3D Microscopy Images for the Normalization of Different Cell Nuclei (2006) (1)
Comprehensive Genomic Characterization of Refractory Multiple Myeloma Reveals a Complex Mutational and Structural Landscape Associated with Drug Resistance (2017) (1)
Automated Analysis of siRNA Screens of Virus Infected Cells Based on Immunofluorescence Microscopy (2008) (1)
Detection of non-uniform multi-body motion in image time-series using saccades-enhanced phase correlation (2009) (1)
Whole-genome fingerprint of the DNA methylome during chemically induced differentiation of the human AML cell line HL-60/S4 (2020) (1)
Unraveling mitotic protein networks by 3D multiplexed epitope drug screening (2017) (1)
BBF RFC 41: Units for Promoter Measurement in Mammalian Cells (2009) (1)
Image Sequence Analysis to Investigate Dynamic Processes, Progress Report II, DFG Research Unit FOR240, 3/1998-2/2001 (2000) (1)
Author Correction: Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig (2020) (1)
Modelling of Information Flows in Cells (2002) (1)
We are what we experienced before birth: Lessons from epigenetics (2020) (1)
Intratumoral Heterogeneity and Immune Modulation in Lung Adenocarcinoma in Female Smokers and Never Smokers (2021) (1)
SSAM-lite: A Light-Weight Web App for Rapid Analysis of Spatially Resolved Transcriptomics Data (2021) (1)
HTSlib-js: Developer toolkit for a client-side JavaScript interface for HTSlib (2018) (1)
Units for Promoter Measurement in Mammalian Cells (2009) (1)
Abstract 4872: ICGC PedBrain Tumor - Next-generation sequencing identifies novel subgroup-specific mutations and copy number aberrations in medulloblastoma (2012) (1)
Statistical Shape Theory and Registration Methods for Analyzing the 3D Architecture of Chromatin in Interphase Cell Nuclei (2011) (1)
Automated Analysis of Mitotic Phenotypes in Fluorescence Microscopy Images of Human Cells (2006) (1)
Compensation of global movement for improved tracking of cells in time-lapse confocal microscopy image sequences (2007) (1)
Single-fluorescent protein reporters allow parallel quantification of NK cell-mediated granzyme and caspase activities in single target cells (2018) (1)
Assessment of Plasmodium Falciparum RNAPseudouridylate Synthase (Putative) as Novel DrugTarget (2016) (1)
Author Correction: Pan-cancer analysis of whole genomes (2023) (1)
Identification and prioritisation of causal variants in human genetic disorders from exome or whole genome sequencing data (2017) (1)
Determination of constitutive properties of single cells and intracellular structures using image- and model-based framework (2010) (1)
Spline-Based Multimodal Image Registration of 3D PLI Data of the Human Brain (2017) (1)
Understanding the classification of tumors with a support-vector-machine: A case-based explanation scheme (2003) (1)
HiCT: High Throughput Protocols For CPE Cloning And Transformation (2013) (1)
Quantitative analysis of chromatin interaction changes upon a 4.3 Mb deletion at mouse 4E2 (2015) (1)
Genomic and transcriptomic changes complement each other in the pathogenesis of sporadic Burkitt lymphoma (2019) (1)
ELF5 is a respiratory epithelial cell-specific risk gene for severe COVID-19 (2022) (1)
Quantitative analysis of chromatin interaction changes upon a 4.3 Mb deletion at mouse 4E2 (2015) (1)
MODELLING OF INFORMATION FLOW IN CELLS (2002) (1)
Age-Related Differences in Structure and Function of Nasal Epithelial Cultures From Healthy Children and Elderly People (2022) (1)
OMICS AND PROGNSTIC MARKERS (2013) (1)
Quantification of frap experiments in live cell image sequences by combining segmentation and registration (2011) (1)
Profibrotic priming of airway cell types and drug responses in early-stage idiopathic pulmonary fibrosis (2022) (1)
Computational design of anti-CRISPR proteins with improved inhibition potency and expanded specificity (2019) (1)
Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics (2021) (1)
Evaluating local features in high-resolution 3D-PLI data (2018) (1)
Inferring a system model of subcellular topoisomerase II beta localization dynamics. (2004) (1)
Design of Specific Mammalian Promoters by in silico Prediction (2009) (0)
miTuner - a kit for microRNA based gene expression tuning in mammalian cells (2010) (0)
Open Access METHODOLOGY ARTICLE (2010) (0)
MEST mediates the impact of prenatal bisphenol A exposure on long-term body weight development (2018) (0)
Abstract LB-B23: Medulloblastoma regulatory circuitries reveal subgroup-specific cellular origins (2015) (0)
Global hypomethylation in childhood asthma identified by genome-wide DNA-methylation sequencing preferentially affects enhancer regions. (2023) (0)
Genomic features of renal cell carcinoma with venous tumor thrombus (2018) (0)
Digital Image Analysis (2006) (0)
pheno-seq – linking 3D phenotypes of clonal tumor spheroids to gene expression (2018) (0)
Abstract 3393: Identification of genes mediating early dissemination of tumor cells in breast cancer (2010) (0)
Prometaphase Rosettes: Mean Angular Separation between 3D IGCs of Homologs and the CR (2005) (0)
The evolutionary history of 2,658 cancers (2020) (0)
Familial Cancer Variant Prioritization Pipeline version 2 (FCVPPv2) applied to a papillary thyroid cancer family (2018) (0)
Evaluation of siRNA Screens of Cells Infected by Hepatitis Cand Dengue Viruses based on Immunofluorescence Microscopy (2008) (0)
Inferring structural variant cancer cell fraction (2020) (0)
Abstract 1491: Transcriptional heterogeneity identifies functional states of tumor-initiating cell differentiation in human colorectal cancer (2020) (0)
Whole-genome bisulfite sequencing of HSCs and their immediate progeny identifies novel regulatory elements involved in self-renewal and early hematopoietic commitment (2014) (0)
Neutral tumor evolution? (2018) (0)
Decision making in NK cells (2009) (0)
Diffsurv: Differentiable sorting for censored time-to-event data (2023) (0)
Systems biological analysis of EGF receptor internalization dynamics for altered receptor levels (2009) (0)
3D-Voronoi Diagramme zur quantitativen Bildanalyse in der Interphase-Cytogenetik (1994) (0)
Leveraging implicit knowledge in neural networks for functional dissection and engineering of proteins (2019) (0)
COVID-19 severity correlates with airway epithelium–immune cell interactions identified by single-cell analysis (2020) (0)
90K/LGALS3BP Expression is Upregulated in COVID-19 but Does Not Restrict SARS-CoV-2 Infection (2022) (0)
resVAE ensemble: Unsupervised identification of gene sets in multi-modal single-cell sequencing data using deep ensembles (2023) (0)
TGFβ-induced cytoskeletal remodeling mediates elevation of cell stiffness and invasiveness in NSCLC (2019) (0)
The central nervous systems proteogenomic and spatial imprint upon systemic viral infections with SARS-CoV-2 (2023) (0)
Medical history predicts phenome-wide disease onset (2023) (0)
Transcriptionally defined morphological subtypes of pancreatic ductal adenocarcinoma (2022) (0)
Memory-like HCV-specific CD8+ T cells retain a molecular scar after cure of chronic HCV infection (2021) (0)
The DNA methylation landscape of multiple myeloma shows extensive inter- and intrapatient heterogeneity that fuels transcriptomic variability (2021) (0)
Publisher Correction: Leveraging implicit knowledge in neural networks for functional dissection and engineering of proteins (2019) (0)
This information is current as Steady-State Conditions under β Constitutively Inhibited by TGF T Cells Are + Human Resting CD 4 Schultze (2007) (0)
Software-Tool Support for Collaborative, Virtual, Multi-Site Molecular Tumor Boards (2023) (0)
Web-based design and analysis tools for CRISPR base editing (2018) (0)
RECAST: Study protocol for an observational study for the understanding of the increased REsilience of Children compared to Adults in SARS-CoV-2 infecTion (2023) (0)
Putative second hit rare genetic variants in families with seemingly GBA-associated Parkinson’s disease (2021) (0)
Single cell mRNA sequencing of nasal swabs indicate an impaired ciliated cell function in COVID-19 convalescents with persisting dyspnea (2022) (0)
Deconvolution of single-cell multi-omics layers reveals regulatory heterogeneity (2019) (0)
Publisher Correction: Leveraging implicit knowledge in neural networks for functional dissection and engineering of proteins (2019) (0)
Epigenetic reprogramming in regulatory elements (2017) (0)
Author Correction: Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples (2020) (0)
Pattern recognition of gene expression data on signalling networks of cancer (2010) (0)
Genetic and epigenetic landscape of the molecular immuno-signature in HNSCC (2020) (0)
Resolving drug effects in patient-derived cancer cells links organoid responses to genome alterations (2017) (0)
Automated Single Cell Based Analysis of siRNA Screens of HumanCells Infected by Hepatitis C and Dengue Viruses Based onImmunofluorescence Microscopy Images (2008) (0)
pheno-seq – linking morphological features to gene expression in 3D cell culture systems (2018) (0)
Automated analysis of siRNA screens of cells infected by hepatitis C and dengue viruses based on immunofluorescence microscopy images (2008) (0)
Defective homologous recombination DNA repair as therapeutic target in advanced chordoma (2019) (0)
Reconstructing evolutionary modular networks from time series data (2011) (0)
Between-species differences in gene copy number are enriched among functions critical for adaptive evolution in Arabidopsis halleri (2016) (0)
Author Correction: Patterns of somatic structural variation in human cancer genomes (2020) (0)
BBF RFC 110: BioBrick derived standard for in vitro and in vivo application of functional RNA (2015) (0)
5th International Conference on Systems Biology (ICSB 2004), Heidelberg, October 9-13, 2004. (2006) (0)
Publications Cremer- Lab in Biocomputing of Nuclear Genome Structure (2012) (0)
Comparison of Radial CT Positions in Quiescent and Proliferating Fibroblasts (2005) (0)
Cenozoic Plant Diversity in the Neotropics (2006) (0)
miMeasure – a standard for miRNA binding site characterization in mammalian cells (2010) (0)
Synthesis of Customized NonRibosomal Peptides-1-BBF RFC 100 : Standard for Synthesis of Customized Peptides by NonRibosomal Peptide Synthetases (2013) (0)
Abstract 4594: Recurrent FGFR1 hotspot mutations represent a novel therapeutic target in childhood astrocytoma. (2013) (0)
Gene expression-based classification improves risk estimation of neuroblastoma patients (2010) (0)
Metabolic modeling of glioblastoma subtypes (2013) (0)
Image- and model-based analysis of constitutive properties of cellular structures (2010) (0)
Delayed viral clearance and exacerbated airway hyperinflammation in hypertensive COVID-19 patients (2020) (0)
CD95 Receptor Organization on the Plasma Membrane and its Influence on Apoptosis (2011) (0)
In-Depth Quantitative Multiplex Proteomics Reveal Subtype-Specific Differences Among Functionally Validated AML Stem Cell Populations (2014) (0)
Cell Tracking for Automatic Migration and Proliferation Analysis in High-Throughput Screens (2012) (0)
Morphological parameters, medial lines and skeletons computed in the 3D--Voronoi diagram with applications to 3D CLSM images (1999) (0)
MDM4 and eEF1A2, new oncogene candidates in human HCC, revealed by high-resolution array-bases CGH (2008) (0)
Image- and Numerics-Based Analysis of Constitutive Properties of Cellular Structures (2007) (0)
Determination of Material Properties of Cellular Structures Using Time Series of Microscopic Images and Numerical Model of Cell Mechanics (2009) (0)
The Medulloblastoma Methylome Reveals New Epigenetic Regulatory Mechanisms (2013) (0)
BBF RFC 45: Cloning Standard for Mammalian BioBrick Parts and Devices (2009) (0)
RA-PCR, a method for the generation of randomized promoter libraries (2009) (0)
Hypermutation takes the driver’s seat (2015) (0)
EnrichedHeatmap: an R/Bioconductor package for comprehensive visualization of genomic signal associations (2018) (0)
Tracking Virus Particles in Microscopy Images Using Multi-Frame Association (2012) (0)
Scale-bundle spline-based non-rigid registration for handling fissures (2018) (0)
Risk Estimation and Treatment Strati fi cation of Low-and Intermediate-Risk Neuroblastoma Patients by Integrating Clinical and Molecular Prognostic Markers (2015) (0)
Applications in Cancer Research: Mathematical Models of Apoptosis (2014) (0)
Automatic Analysis of Live Cell Image Sequences to determine Temporal Mitotic Phenotypes (2010) (0)
PathWave 2 . 1 : a user-friendly R package for detecting differential regulation and switches in metabolic and signaling pathways (2012) (0)
Author response: The transcriptomic and epigenetic map of vascular quiescence in the continuous lung endothelium (2018) (0)
Example of an adjacency matrix for 7 nodes (2011) (0)
Reconstructing the Stochastic Evolution Diagram of Dynamic Complex Systems (2011) (0)
Contactless Investigation of Nuclear Mechanics of Normal and Lamin Mutant Cells Using a 3D Image- and Model-Based Framework (2009) (0)
AUTOMATIC SINGLE-CELL-BASED ANALYSIS OF siRNA SCREENS BASED ON IMMUNOFLUORESCENCE MICROSCOPY (2009) (0)
Single-cell RNA-Seq of human primary lung and bronchial epithelium cells (2020) (0)
Analysis of HIV-1 entry by real-time microscopy and automated tracking of dual-colored virus like particles (2007) (0)
Databases, Standards, and Modeling Platforms for Systems Biology (2014) (0)
Whole genome sequencing puts forward hypotheses on metastasis evolution and therapy in colorectal cancer (2018) (0)
Engineered Anti-CRISPR Proteins for Precision Control of CRISPR-Cas9 (2019) (0)
Neuron , Volume 63 Supplemental Data CCM 2 Mediates Death Signaling by the TrkA Receptor Tyrosine Kinase (2009) (0)
Abstract 2010: Whole genome profiling to identify novel metastasis regulators in colorectal cancer. (2013) (0)
Arrays Automatic Identification of Subcellular Phenotypes on Human Cell data (2004) (0)
Induced aneuploidy disrupts MCF10A acini formation and CCND1 expression (2019) (0)
Studies of the three-dimensional architecture of human chromosome territories (1997) (0)
Genetic and epigenetic features of head and neck tumors with variable molecular immune signatures (2021) (0)
Impact of cancer mutational signatures on transcription factor motifs in the human genome (2019) (0)
P74: Arrangements of chromosome territories in human cell clones (2005) (0)
Author Correction: Inferring structural variant cancer cell fraction (2022) (0)
Brain based BMIgap as a new tool to correlate obesity and neural alterations – a multicohort study (2022) (0)
Integration of activating and inhibitory receptor signaling by regulated Vav 1 phosphorylation (2009) (0)
Author Correction: Inferring structural variant cancer cell fraction (2022) (0)
Machine Learning Approaches for Deciphering Complex Pathomechanisms in Cancer (2002) (0)
Conserved host-pathogen interactions identify novel treatment options in betacoronavirus infections (2021) (0)
Poster: Membership Inference Against DNA Methylation Databases: Attacks and Defenses (2019) (0)
Author Correction: The evolutionary history of 2,658 cancers (2023) (0)
Author Correction: The evolutionary history of 2,658 cancers (2023) (0)
Author Correction: Genomic footprints of activated telomere maintenance mechanisms in cancer (2020) (0)
431: Identification of deregulated genes in colorectal cancer metastasis through whole genome and transcriptome sequencing (2014) (0)
Erratum to “Topology of genes and nontranscribed sequences in human interphase nuclei” [Exp. Cell Res. 301 (2004) 266–279] (2005) (0)
Abstract 3093: Unravelling the biology of aggressive and therapy-resistant embryonal tumors with multilayered rosettes (ETMR) (2014) (0)
First Results from the International Cancer Genome Consortium PedBrain Tumor Project on Whole-Genome Deep Sequencing in Medulloblastoma (2011) (0)
Computational Discovery of Drug Resistance Mechanism(s) of the Malaria Parasite (Plasmodium falciparum (P.f)) (2009) (0)
BBF RFC 105: The Intein standard - a universal way to modify proteins after translation (2015) (0)
MUTATIONAL SIGNATURES IN GERMINAL CENTER DERIVED B‐CELL LYMPHOMAS FROM ADULT PATIENTS ANALYZED IN THE ICGC MMML‐SEQ CONSORTIUM (2017) (0)
Integrating Genomic and Transcriptomic Data into Graph Based Approaches for Defining Essential Reactions in the Metabolic Network of Escherichia Coli (2007) (0)
A machine learning method for the prediction of regulatory interactions (2019) (0)
COMPARISON OF CONVENTIONAL CYTOGENETIC ANALYSIS AND WHOLE GENOME SEQUENCING IN GERMINAL-CENTER DERIVED B-CELL LYMPHOMAS IN THE FRAMEWORK OF THE ICGC MMML-SEQ PROJECT (2014) (0)
Abstract 4591: Whole genome sequencing of SHH medulloblastomas predicts molecular groups of responders and non-responders to SMO-inhibition . (2013) (0)
Abstract B77: CYP3A5 mediates basal and acquired therapy resistance in different subtypes of pancreatic ductal adenocarcinoma (2016) (0)
Data mining meets bioinformatics : automated interpretation of complex functional relationships in combination with DNA chip technology (2001) (0)
Disturbed trophoblast transition links preeclampsia progression from placenta to the maternal syndrome (2022) (0)
An Engineering Approach Towards Multi-site Virtual Molecular Tumor Board Software (2021) (0)
Recurrent MET fusion genes represent a druggable target in paediatric glioblastoma 1 2 (2016) (0)
Molecular Phenotype of Malignant CD34+ Hematopoietic Stem and Progenitor Cells in Chronic Myelogenous Leukemia. (2005) (0)
Knowledge bases and software support for variant interpretation in precision oncology (2021) (0)
Corrigendum: Autoantibodies Against the Exocrine Pancreas in Autoimmune Pancreatitis: Gene and Protein Expression Profiling and Immunoassays Identify Pancreatic Enzymes as a Major Target of the Inflammatory Process (2011) (0)
Cancer Cell Systemic Spread Is an Early Step in Breast Cancer of the patients (0)
The landscape of viral associations in human cancers (2020) (0)
Quantification of Fluorescent Spots in Time Series of 3-DConfocal Microscopy Images Based on the HMAX Transform (2010) (0)
The landscape of viral associations in human cancers (2020) (0)
Integrative genomic and transcriptomic analysis of leiomyosarcoma (2018) (0)
Pedigree based DNA sequencing pipeline for germline genomes of cancer families (2016) (0)
Standard for Synthesis of Customized Peptides by Non-Ribosomal Peptide Synthetases (2013) (0)
gtrellis: an R/Bioconductor package for making genome-level Trellis graphics (2016) (0)
A framework for modelling gene regulation which accommodates non-equilibrium mechanisms (2014) (0)
Integrative Ranking of Enhancer Networks Facilitates the Discovery of Epigenetic Markers in Cancer (2020) (0)
Cellular deconvolution and expression analysis of Stromal and Epithelial cells directly isolated from human Pancreatic Ductal Adenocarcinoma (PDAC) (2017) (0)
Erratum: Autoantibodies against the exocrine pancreas in autoimmune pancreatitis: Gene and protein expression profiling and immunoassays identify pancreatic enzymes as a major target of the inflammatory process (American Journal of Gastroenterology (2010) 105 (2060-2071) DOI:10.1038/ajg.2011.141) (2011) (0)
So rare we need to hunt for them: reframing the ethical debate on incidental findings (2015) (0)
HIGH GRADE GLIOMAS AND DIPG (2014) (0)
Stochastical Analysis of Finite Point Sampling of 3D Chromatin Fiber in Interphase Cell Nuclei (2007) (0)
Pattern recognition of gene expression data on biochemical networks with simple wavelet transforms (2006) (0)
Integrative DNA methylation and gene expression analysis in high-grade soft tissue sarcomas (2013) (0)
Mechanical Characterization of Intracellular Structures using Fluorescently Labeled Substrates and 3D Image Analysis (2011) (0)
On Validation of Non-physical Techniques for Elastic Image Registration (2007) (0)
Automated screening by 3D light-sheet microscopy with high spatial and temporal resolution reveals mitotic phenotypes (2020) (0)
Molecular Evolution of Ear ly-Onset Prostate Cancer Identifies Molecular Risk Markers and Clinical Trajectories Graphical (2018) (0)
Abstract A61: Exploring the PDAC-subtype-associated microenvironment in PDX models and patients (2015) (0)
LSC Abstract – Epigenetic modifications in cord blood associated with asthma development later in children's life (2016) (0)

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