Junhyong Kim
American biologist
Junhyong Kim's AcademicInfluence.com Rankings

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Biology
Junhyong Kim's Degrees
- PhD Molecular and Cellular Biology University of California, Berkeley
- Bachelors Biology Seoul National University
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(Suggest an Edit or Addition)According to Wikipedia, Junhyong Kim is the Edmund J. and Louise W. Kahn Term Endowed Professor of Biology at the University of Pennsylvania and the author of over eighty published scientific papers. Career Kim specializes in computational biology, genomics, and evolutionary biology. Originally from South Korea, he received his undergraduate degree in Microbiology at Seoul National University. During his undergraduate years, he became strongly interested in computer science and programming. He developed a program to fold tRNA sequences published in the Korean Journal of Biochemistry. This paper is now known as the first computational biology paper published in Korea. He received his PhD in Ecology and Evolution at Stony Brook University in 1992 under the supervision of Lev Ginzburg and Dan Dykhuizen. His dissertation was entitled "Factors influencing the growth of populations and their spatial distribution." His post-doctoral research was with Margaret Kidwell at the University of Arizona working on molecular evolution of Drosophila species. In 1994, he became an assistant professor in the Department of Biology at Yale University and was promoted to a tenured position in 2000. In 2002 he moved to the University of Pennsylvania where he is currently the Edmund J. and Louise Kahn Term Endowed Professor in Biology, an Adjunct Professor of Computer Science, and the Co-Director of the Penn Genome Frontiers Institute. He has been on the Steering Committee and the Conference Chair for Workshop on Algorithms in Bioinformatics; program chair and program committee for Intelligent Systems for Molecular Biology; and he is the longest running Associate Editor for IEEE/ACM Transactions on Computational Biology and Bioinformatics. Junhyong Kim's honors include the Sloan Foundation Young Investigator Award, Yale Faculty Award, Visiting Fellow at the Newton Institute and IHES , Ellison Medical Foundation Senior Scholar in Aging, and a Guggenheim Fellowship.
Junhyong Kim's Published Works
Published Works
- Exosomal PD-L1 Contributes to Immunosuppression and is Associated with anti-PD-1 Response (2018) (1427)
- A Novel Family of Divergent Seven-Transmembrane Proteins Candidate Odorant Receptors in Drosophila (1999) (1087)
- Separate Versus Combined Analysis of Phylogenetic Evidence (1995) (544)
- Genome-Wide Analyses of Exonic Copy Number Variants in a Family-Based Study Point to Novel Autism Susceptibility Genes (2009) (400)
- Evolution of gene expression in the Drosophila melanogaster subgroup (2003) (369)
- Unwrapping Glial Biology Gcm Target Genes Regulating Glial Development, Diversification, and Function (2003) (365)
- PASTA: Ultra-Large Multiple Sequence Alignment for Nucleotide and Amino-Acid Sequences (2015) (316)
- Translation of Sensory Input into Behavioral Output via an Olfactory System (2008) (255)
- The promise of single-cell sequencing (2013) (253)
- The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution (2020) (234)
- Challenges and emerging directions in single-cell analysis (2017) (223)
- Single-cell mRNA sequencing identifies subclonal heterogeneity in anti-cancer drug responses of lung adenocarcinoma cells (2015) (217)
- GENERAL INCONSISTENCY CONDITIONS FOR MAXIMUM PARSIMONY: EFFECTS OF BRANCH LENGTHS AND INCREASING NUMBERS OF TAXA (1996) (216)
- A mutation accumulation assay reveals a broad capacity for rapid evolution of gene expression (2005) (190)
- Single Cell Profiling Reveals Sex, Lineage and Regional Diversity in the Mouse Kidney (2019) (185)
- A lineage-resolved molecular atlas of C. elegans embryogenesis at single-cell resolution (2019) (162)
- Estimating genomic coexpression networks using first-order conditional independence (2004) (159)
- A lineage-resolved molecular atlas of C. elegans embryogenesis at single cell resolution (2019) (157)
- Transcriptome In Vivo Analysis (TIVA) of spatially defined single cells in intact live mouse and human brain tissue (2014) (157)
- Taxon sampling affects inferences of macroevolutionary processes from phylogenetic trees. (2008) (156)
- CYCLOPS reveals human transcriptional rhythms in health and disease (2017) (153)
- The Cobweb of Life Revealed by Genome-Scale Estimates of Horizontal Gene Transfer (2005) (147)
- IVT-seq reveals extreme bias in RNA sequencing (2014) (140)
- Cytoplasmic Intron Sequence-Retaining Transcripts Can Be Dendritically Targeted via ID Element Retrotransposons (2011) (140)
- Improving the Accuracy of Phylogenetic Estimation by Combining Different Methods (1993) (136)
- ACCURACY OF ESTIMATED PHYLOGENIES: EFFECTS OF TREE TOPOLOGY AND EVOLUTIONARY MODEL (1990) (127)
- Molecular evolution of Drosophila odorant receptor genes. (2007) (122)
- Approximate analysis of variance of spatially autocorrelated regional data (1990) (114)
- Machine Learning Helps Identify CHRONO as a Circadian Clock Component (2014) (114)
- Identification of novel multi-transmembrane proteins from genomic databases using quasi-periodic structural properties (2000) (96)
- Reconstructing the Temporal Ordering of Biological Samples Using Microarray Data (2003) (92)
- Rare Cell Detection by Single-Cell RNA Sequencing as Guided by Single-Molecule RNA FISH. (2018) (89)
- Whole proteome identification of plant candidate G-protein coupled receptors in Arabidopsis, rice, and poplar: computational prediction and in-vivo protein coupling (2008) (87)
- Deep sequencing reveals cell-type-specific patterns of single-cell transcriptome variation (2015) (83)
- Transcriptome transfer produces a predictable cellular phenotype (2009) (81)
- Phylogeny of Holothuroidea (Echinodermata) inferred from morphology (2001) (76)
- Single cell regulatory landscape of the mouse kidney highlights cellular differentiation programs and disease targets (2021) (73)
- THE ACCURACY OF PHYLOGENETIC ESTIMATION USING THE NEIGHBOR‐JOINING METHOD (1993) (68)
- What Is Your Conceptual Definition of "Cell Type" in the Context of a Mature Organism? (2017) (66)
- The Nuclear Receptor ESRRA Protects from Kidney Disease by Coupling Metabolism and Differentiation. (2020) (64)
- Intron retention facilitates splice variant diversity in calcium-activated big potassium channel populations (2010) (64)
- Variation is function: Are single cell differences functionally important? (2015) (63)
- Genetics and Language in European Populations (1990) (59)
- Molecular Phylogeny of Coral-Reef Sea Cucumbers (Holothuriidae: Aspidochirotida) Based on 16S Mitochondrial Ribosomal DNA Sequence (2004) (59)
- Cytoplasmic intron retention, function, splicing, and the sentinel RNA hypothesis (2014) (58)
- Primary Cell Culture of Live Neurosurgically Resected Aged Adult Human Brain Cells and Single Cell Transcriptomics. (2017) (58)
- The exonuclease Nibbler regulates age-associated traits and modulates piRNA length in Drosophila (2015) (55)
- Accounting for technical noise in differential expression analysis of single-cell RNA sequencing data (2017) (55)
- Serotonergic neuron regulation informed by in vivo single‐cell transcriptomics (2014) (54)
- Control of cytokinesis by β-adrenergic receptors indicates an approach for regulating cardiomyocyte endowment (2019) (52)
- Tutorial on Phylogenetic Tree Estimation (1999) (49)
- miRNA Profiling of Magnetic Nanopore-Isolated Extracellular Vesicles for the Diagnosis of Pancreatic Cancer. (2018) (46)
- Multi-omics integration in the age of million single-cell data (2021) (45)
- Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons (2018) (42)
- RNA: state memory and mediator of cellular phenotype. (2010) (42)
- Lamin B2 Levels Regulate Polyploidization of Cardiomyocyte Nuclei and Myocardial Regeneration. (2020) (41)
- Penalized likelihood phylogenetic inference: bridging the parsimony-likelihood gap. (2008) (41)
- Understanding the kidney one cell at a time. (2019) (39)
- The purinergic receptor P2X5 regulates inflammasome activity and hyper-multinucleation of murine osteoclasts (2017) (38)
- High-resolution transcriptome analysis reveals neuropathic pain gene-expression signatures in spinal microglia after nerve injury (2016) (38)
- Pervasive within-Mitochondrion Single-Nucleotide Variant Heteroplasmy as Revealed by Single-Mitochondrion Sequencing. (2017) (38)
- Single‐cell transcriptomics and functional target validation of brown adipocytes show their complex roles in metabolic homeostasis (2016) (37)
- Expression profiling using a hexamer-based universal microarray (2004) (37)
- Subcellular RNA Sequencing Reveals Broad Presence of Cytoplasmic Intron-Sequence Retaining Transcripts in Mouse and Rat Neurons (2013) (36)
- Genomic evidence for shared common ancestry of East African hunting-gathering populations and insights into local adaptation (2019) (36)
- Multi-Dimensional Mapping of Brain-Derived Extracellular Vesicle MicroRNA Biomarker for Traumatic Brain Injury Diagnostics. (2020) (36)
- Assessing characteristics of RNA amplification methods for single cell RNA sequencing (2016) (35)
- Sniper: improved SNP discovery by multiply mapping deep sequenced reads (2011) (35)
- Transcriptome transfer provides a model for understanding the phenotype of cardiomyocytes (2011) (33)
- ACCURACY OF PHYLOGENETIC‐ESTIMATION METHODS UNDER UNEQUAL EVOLUTIONARY RATES (1988) (30)
- Geometry of gene expression dynamics (2002) (29)
- Can one hear the shape of a population history? (2014) (29)
- PIVOT: platform for interactive analysis and visualization of transcriptomics data (2017) (28)
- Evolution of community structure: competition (1988) (27)
- Self Containment, a Property of Modular RNA Structures, Distinguishes microRNAs (2008) (26)
- Protein family classification with discriminant function analysis (2005) (24)
- Dissecting the molecular mechanism of drosophila odorant receptors through activity modeling and comparative analysis (2010) (24)
- Patterns of sequence conservation in presynaptic neural genes (2006) (23)
- Pervasive antisense transcription is evolutionarily conserved in budding yeast. (2013) (23)
- Cellular Deconstruction: Finding Meaning in Individual Cell Variation. (2015) (20)
- Quantitative biology of single neurons (2012) (20)
- Parallel pathways for recruiting effector proteins determine centromere drive and suppression (2021) (20)
- VERSE: a versatile and efficient RNA-Seq read counting tool (2016) (20)
- Single cell transcriptomics of noncoding RNAs and their cell‐specificity (2017) (18)
- Gene discovery by e-genetics: Drosophila odor and taste receptors. (2002) (18)
- Divergence of RNA localization between rat and mouse neurons reveals the potential for rapid brain evolution (2014) (18)
- Computers Are from Mars, Organisms Are from Venus (2002) (16)
- Avian Primordial Germ Cells Contribute to and Interact With the Extracellular Matrix During Early Migration (2019) (16)
- Single-cell analysis identifies the interaction of altered renal tubules with basophils orchestrating kidney fibrosis (2022) (14)
- NoFold: RNA structure clustering without folding or alignment (2014) (14)
- Coordination of olfactory receptor choice with guidance receptor expression and function in olfactory sensory neurons (2018) (14)
- Heterochronic evolution reveals modular timing changes in budding yeast transcriptomes (2010) (13)
- A Tree Obscured By Vines: Horizontal Gene Transfer and the Median Tree Method of Estimating Species Phylogeny (2000) (13)
- Dendritic glutamate receptor mRNAs show contingent local hotspot-dependent translational dynamics. (2013) (13)
- The mathematical structure of characters and modularity (2001) (11)
- Constraint structure analysis of gene expression (2000) (11)
- Moldable Perfluoropolyether–Polyethylene Glycol Networks with Tunable Wettability and Solvent Resistance for Rapid Prototyping of Droplet Microfluidics (2018) (9)
- Testing for Regional Differences in Means: Distinguishing Inherent from Spurious Spatial Autocorrelation by Restricted Randomization (2010) (9)
- THE MEASUREMENT OF HOMOPLASY: A STOCHASTIC VIEW (1996) (9)
- Mutational robustness and geometrical form in protein structures. (2008) (8)
- A comparison between single cell RNA sequencing and single molecule RNA FISH for rare cell analysis (2017) (8)
- Evolutionary genomics of host-use in bifurcating demes of RNA virus phi-6 (2012) (7)
- Accounting for technical noise in single-cell RNA sequencing analysis (2017) (7)
- Running Head : Heuristic Phylogenetic Estimation FROM ROLLING HILLS TO JAGGED MOUNTAINS : SCALING OF HEURISTIC SEARCHES FOR PHYLOGENETIC ESTIMATION (2000) (7)
- IgSF11 regulates osteoclast differentiation through association with the scaffold protein PSD-95. (2020) (7)
- IgSF11 regulates osteoclast differentiation through association with the scaffold protein PSD-95 (2020) (6)
- Efficient Enumeration of Phylogenetically Informative Substrings (2006) (6)
- Character and OTU stability in five taxonomic groups (1992) (5)
- FROM ROLLING HILLS TO JAGGED MOUNTAINS: SCALING OF HEURISTIC SEARCHES (2000) (5)
- Discovering Similar Workflows via Provenance Clustering: A Case Study (2018) (4)
- Static array of droplets and on-demand recovery for biological assays. (2020) (4)
- Crimson: a data management system to support evaluating phylogenetic tree reconstruction algorithms (2006) (4)
- Photoactivated Selective Release of Droplets from Microwell Arrays. (2020) (4)
- Insertion variants missing in the human reference genome are widespread among human populations (2020) (4)
- Centromere drive and suppression by parallel pathways for recruiting microtubule destabilizers (2020) (4)
- Efficiently Supporting Structure Queries on Phylogenetic Trees (2005) (3)
- UNEQUAL EVOLUTIONARY RATES (1988) (3)
- Challenges and emerging directions in single-cell analysis (2017) (3)
- Single cell resolution regulatory landscape of the mouse kidney highlights cellular differentiation programs and renal disease targets (2020) (3)
- Complete fold annotation of the human proteome using a novel structural feature space (2016) (3)
- Genome Identification and Classification by Short Oligo Arrays (2004) (3)
- NEIGHBOR-JOINING METHOD (1993) (2)
- Pre-Clinical In Vitro Evaluation of BCL-2 Antisense Compound Genasense TM (G3139; Genta, Inc.) as a Targeted Pro-Apoptotic Agent for Leukemias with t(4;11)(q21;q23) Translocations. (2005) (2)
- AFTER THE MOLECULAR EVOLUTION REVOLUTION1 (2001) (2)
- Single-cell mRNA sequencing identifies subclonal heterogeneity in anti-cancer drug responses of lung adenocarcinoma cells (2015) (2)
- Algorithms in Bioinformatics (2004) (2)
- Renal proximal tubule cell state and metabolism are coupled by nuclear receptors (2020) (2)
- Phyl-O'Data (POD) from Tree of Life: Integration Challenges from Yellow Slimy Things to Black Crunchy Stuff (2007) (2)
- A Combinatorial Toolbox for Protein Sequence Design and Landscape Analysis in the Grand Canonical Model (2001) (2)
- IVT-seq reveals extreme bias in RNA sequencing (2014) (2)
- Descartes' fly: the geometry of genomic annotation (2001) (2)
- Guest Editorial: WABI Special Section Part 1 (2004) (2)
- Ontology of RNA Sequencing (ORNASEQ) and its application (2018) (1)
- Book Review:Tecplot: Interactive Data Visualization for Scientists & Engineers. Version 6.0. (1995) (1)
- Is single nucleus ATAC-seq accessibility a qualitative or quantitative measurement? (2022) (1)
- Learning Proteome Domain Folding Using LSTMs in an Empirical Kernel Space. (2022) (1)
- Resistant Fit Regression Normalization for Single-cell RNA-seq Data (2020) (1)
- Development and Characterization of Optical Dissolved Oxygen Sensor based on the Fluorescence Detection (2014) (1)
- Divergence of RNA localization between rat and mouse neurons reveals the potential for rapid brain evolution (2014) (0)
- analyses of exonic number variants in a family-based study point to novel autism susceptibility genes. (2009) (0)
- Final technical report: analysis of molecular data using statistical and evolutionary approaches (2000) (0)
- Single-cell analysis identifies the interaction of altered renal tubules with basophils orchestrating kidney fibrosis (2022) (0)
- Abstract 16650: Transcriptional Profiling of Single Human Heart Cells Reveals Subtypes of Ventricular Cardiomyocytes (2016) (0)
- Evolutionary genomics of host-use in bifurcating demes of RNA virus phi-6 (2012) (0)
- Behavioral Kahn INVESTIGATING THE ROLE OF THE DENTATE GYRUS IN TEMPORAL LOBE EPILEPSY COGNITIVE COMORBIDITIES (2016) (0)
- A Novel FBXO45-Gef-H1 Axis Controls Oncogenic Signaling in B-Cell Lymphoma (2021) (0)
- Computational Challenges for Integrative Genomics (2004) (0)
- Additional file 8: of Assessing characteristics of RNA amplification methods for single cell RNA sequencing (2016) (0)
- Book Review:RAMAS/Age: Modeling Fluctuations in Age Structured Populations. Scott Ferson, H. Resit Akcakaya (1993) (0)
- A subspace clustering method for satisfying stoimetric constraints in scRNA -seq (2021) (0)
- Corrections: Accuracy of Phylogenetic Estimation (1988) (0)
- KimLabIDV: Application for Interactive RNA- Seq Data Analysis and Visualization (2016) (0)
- Single Cell Spatial Chromatin Analysis of Fixed Immunocytochemically Identified Neuronal Cells (2019) (0)
- The purinergic receptor P2X5 regulates inflammasome activity and hyper-multinucleation of murine osteoclasts (2017) (0)
- Astrocyte ethanol exposure reveals persistent and defined calcium response subtypes and associated gene signatures (2022) (0)
- Deep sequencing reveals cell-type-specific patterns of single-cell transcriptome variation (2015) (0)
- Transcriptional Target Prediction Using Qualitative Reasoning (2006) (0)
- PIVOT: platform for interactive analysis and visualization of transcriptomics data (2018) (0)
- Algorithms in bioinformatics : 4th International Workshop, WABI 2004, Bergen, Norway, September 17-21, 2004 : proceedings (2004) (0)
- Stanford Graphics for Windows. (1993) (0)
- Guest Editorial: WABI Special Section Part II (2005) (0)
- Book Review:Mathematics for the Biosciences. Mathematics and Its Applications. A. C. Menell, M. J. Bazin (1990) (0)
- Assessing characteristics of RNA amplification methods for single cell RNA sequencing (2016) (0)
- Subcellular omics: a new frontier pushing the limits of resolution, complexity and throughput (2023) (0)
- Insertion variants missing in the human reference genome are widespread among human populations (2020) (0)
- Rare Cell Detection by Sin gle-Cell RNA Sequencing as Guided by Single-Molecule RNA FISH Graphical (2018) (0)
- Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons (2019) (0)
- Book Review:CONAPACK: Program for Canonical Analysis of Classification Tables. Laszlo Orloci (1993) (0)
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