Standout Papers
- Human MicroRNA Targets (2004)
- The microRNA.org resource: targets and expression (2007)
- MicroRNA targets in Drosophila (2003)
- Identification of Virus-Encoded MicroRNAs (2004)
- Natural and Designed Proteins Inspired by Extremotolerant Organisms Can Form Condensates and Attenuate Apoptosis in Human Cells (2022)
Citation Impact
Citing Papers
Protein interaction networks revealed by proteome coevolution
2019 StandoutScienceNobel
MicroRNA Gene Expression Deregulation in Human Breast Cancer
2005 Standout
Characterization of the piRNA Complex from Rat Testes
2006 Science
GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects
2019
Zebrafish MiR-430 Promotes Deadenylation and Clearance of Maternal mRNAs
2006 Science
MicroRNA-Directed Cleavage of HOXB8 mRNA
2004 Science
The Protein-Folding Problem, 50 Years On
2012 Science
Biological structure and function emerge from scaling unsupervised learning to 250 million protein sequences
2021
A Distinct Small RNA Pathway Silences Selfish Genetic Elements in the Germline
2006 Science
Origins of coevolution between residues distant in protein 3D structures
2017 StandoutNobel
Suppression of RNA Interference by Adenovirus Virus-Associated RNA
2005
miR-15 and miR-16 induce apoptosis by targeting BCL2
2005 Standout
Proliferating Cells Express mRNAs with Shortened 3' Untranslated Regions and Fewer MicroRNA Target Sites
2008 Science
Inferring interaction partners from protein sequences
2016
Protein structure determination using metagenome sequence data
2017 StandoutScienceNobel
From residue coevolution to protein conformational ensembles and functional dynamics
2015
A Programmable Dual-RNA–Guided DNA Endonuclease in Adaptive Bacterial Immunity
2012 StandoutScienceNobel
MicroRNAs Regulate Brain Morphogenesis in Zebrafish
2005 Science
Assessing the utility of coevolution-based residue–residue contact predictions in a sequence- and structure-rich era
2013 StandoutNobel
Incorporating structure to predict microRNA targets
2005
Novel and Stress-Regulated MicroRNAs and Other Small RNAs from Arabidopsis[W]
2004 Standout
MetaPSICOV: combining coevolution methods for accurate prediction of contacts and long range hydrogen bonding in proteins
2014
Structural basis of histidine kinase autophosphorylation deduced by integrating genomics, molecular dynamics, and mutagenesis
2012
Accurate de novo structure prediction of large transmembrane protein domains using fragment-assembly and correlated mutation analysis
2012
Predicting the pathogenicity of missense variants using features derived from AlphaFold2
2023
MicroRNA genes are transcribed by RNA polymerase II
2004 Standout
Determinants of trafficking, conduction, and disease within a K+ channel revealed through multiparametric deep mutational scanning
2022
Prediction of interresidue contacts with DeepMetaPSICOV in CASP13
2019
Analysis of distance‐based protein structure prediction by deep learning in CASP13
2019
Assessment of contact predictions in CASP12: Co‐evolution and deep learning coming of age
2017
Updated benchmarking of variant effect predictors using deep mutational scanning
2023
Identification of clustered microRNAs using an ab initio prediction method
2005
Computation and Functional Studies Provide a Model for the Structure of the Zinc Transporter hZIP4
2015 StandoutNobel
Improved pathogenicity prediction for rare human missense variants
2021
Metascape provides a biologist-oriented resource for the analysis of systems-level datasets
2019 Standout
Hallmarks of Cancer: The Next Generation
2011 Standout
Modeling protein quaternary structure of homo- and hetero-oligomers beyond binary interactions by homology
2017
A putative RNA-interference-based immune system in prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with eukaryotic RNAi, and hypothetical mechanisms of action
2006
Genome-wide prediction of disease variant effects with a deep protein language model
2023
Accurate De Novo Prediction of Protein Contact Map by Ultra-Deep Learning Model
2017
MicroRNA fingerprints during human megakaryocytopoiesis
2006
Computational Identification of Plant MicroRNAs and Their Targets, Including a Stress-Induced miRNA
2004 Standout
mirWIP: microRNA target prediction based on microRNA-containing ribonucleoprotein–enriched transcripts
2008 StandoutNobel
Molecular architecture of a miRNA-regulated 3′ UTR
2008
Morphogenesis in skin is governed by discrete sets of differentially expressed microRNAs
2006
Transposable elements and the epigenetic regulation of the genome
2007
Argonaute Divides Its RNA Guide into Domains with Distinct Functions and RNA-Binding Properties
2012
MicroRNAs
2004 Standout
Alu elements within human mRNAs are probable microRNA targets
2006
Human Argonaute2 Mediates RNA Cleavage Targeted by miRNAs and siRNAs
2004 Standout
A C. elegans genome-scale microRNA network contains composite feedback motifs with high flux capacity
2008 StandoutNobel
Mapping Argonaute and conventional RNA-binding protein interactions with RNA at single-nucleotide resolution using HITS-CLIP and CIMS analysis
2014
Induction and suppression of RNA silencing: insights from viral infections
2005
Identification of miRNA targets with stable isotope labeling by amino acids in cell culture
2006
Concordant Regulation of Translation and mRNA Abundance for Hundreds of Targets of a Human microRNA
2009
An E2F/miR-20a Autoregulatory Feedback Loop
2006
Targeting microRNAs in cancer: rationale, strategies and challenges
2010
Computational identification of microRNA targets
2004
Specific association of Piwi with rasiRNAs derived from retrotransposon and heterochromatic regions in the Drosophila genome
2006
Anti-miRNA oligonucleotides (AMOs): ammunition to target miRNAs implicated in human disease?
2005
microRNA miR-14 acts to modulate a positive autoregulatory loop controlling steroid hormone signaling in Drosophila
2007
RNAi-mediated pathways in the nucleus
2005
Animal MicroRNAs Confer Robustness to Gene Expression and Have a Significant Impact on 3′UTR Evolution
2005
Inferring interaction partners from protein sequences using mutual information
2018
Coding-Independent Regulation of the Tumor Suppressor PTEN by Competing Endogenous mRNAs
2011
Structure of the Type VI Secretion System Contractile Sheath
2015 StandoutNobel
Patterns of flanking sequence conservation and a characteristic upstream motif for microRNA gene identification
2004
Unconventional miR-122 binding stabilizes the HCV genome by forming a trimolecular RNA structure
2013 StandoutNobel
Integration of microRNA miR-122 in hepatic circadian gene expression
2009
Roles for MicroRNAs in Conferring Robustness to Biological Processes
2012
MicroRNA sponges: Progress and possibilities
2010
Kinetic analysis of the RNAi enzyme complex
2004
Potent effect of target structure on microRNA function
2007 StandoutNobel
MicroRNA-155 Is a Negative Regulator of Activation-Induced Cytidine Deaminase
2008
EBV and human microRNAs co‐target oncogenic and apoptotic viral and human genes during latency
2012
A microRNA Mediates EGF Receptor Signaling and Promotes Photoreceptor Differentiation in the Drosophila Eye
2005
A complex system of small RNAs in the unicellular green alga Chlamydomonas reinhardtii
2007
SV40-encoded microRNAs regulate viral gene expression and reduce susceptibility to cytotoxic T cells
2005 Nature
MicroRNAs: small RNAs with a big role in gene regulation
2004 Standout
The thymic epithelial microRNA network elevates the threshold for infection-associated thymic involution via miR-29a mediated suppression of the IFN-α receptor
2011
Improved Contact Predictions Using the Recognition of Protein Like Contact Patterns
2014
Predicting microRNA targeting efficacy in Drosophila
2018
The mini-driver model of polygenic cancer evolution
2015 StandoutNobel
Pervasive regulation of Drosophila Notch target genes by GY-box-, Brd-box-, and K-box-class microRNAs
2005
microRNA-122 stimulates translation of hepatitis C virus RNA
2008
A ceRNA Hypothesis: The Rosetta Stone of a Hidden RNA Language?
2011 Standout
Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs
2005 StandoutNature
CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III
2011 StandoutNatureNobel
Canalization of development by microRNAs
2006
miR-142-3p enhances FcεRI-mediated degranulation in mast cells
2013
MicroRNA biogenesis: coordinated cropping and dicing
2005 Standout
MicroRNAs: Target Recognition and Regulatory Functions
2009 Standout
An ENU-induced mutation of miR-96 associated with progressive hearing loss in mice
2009
Asymmetry in the Assembly of the RNAi Enzyme Complex
2003 Standout
Dicer-deficient mouse embryonic stem cells are defective in differentiation and centromeric silencing
2005
MicroRNAs and Viral Infection
2005
Discrete Small RNA-Generating Loci as Master Regulators of Transposon Activity in Drosophila
2007 Standout
Mature and functional viral miRNAs transcribed from novel RNA polymerase III promoters
2009
Identification of Drosophila MicroRNA Targets
2003
The impact of microRNAs on protein output
2008 StandoutNature
MicroRNAs 24 and 27 Suppress Allergic Inflammation and Target a Network of Regulators of T Helper 2 Cell-Associated Cytokine Production
2016
miRBase: tools for microRNA genomics
2007 Standout
Micromanagers of gene expression: the potentially widespread influence of metazoan microRNAs
2004
Improved contact prediction in proteins: Using pseudolikelihoods to infer Potts models
2013
Predicting and interpreting large-scale mutagenesis data using analyses of protein stability and conservation
2022
Determinants of targeting by endogenous and exogenous microRNAs and siRNAs
2007
Considerations and Challenges in Studying Liquid-Liquid Phase Separation and Biomolecular Condensates
2019 Standout
MicroRNA-155 Suppresses Activation-Induced Cytidine Deaminase-Mediated Myc-Igh Translocation
2008
microRNA target predictions in animals
2006
MicroRNAs as regulators of mammalian hematopoiesis
2005
A Long Noncoding RNA Controls Muscle Differentiation by Functioning as a Competing Endogenous RNA
2011 Standout
MicroRNAs can generate thresholds in target gene expression
2011
Capturing coevolutionary signals inrepeat proteins
2015
General rules for functional microRNA targeting
2016
A Mammalian Herpesvirus Uses Noncanonical Expression and Processing Mechanisms to Generate Viral MicroRNAs
2010
Metazoan MicroRNAs
2018 Standout
The Drosophila microRNA iab-4 causes a dominant homeotic transformation of halteres to wings
2005
Sequence-Specific Inhibition of Small RNA Function
2004 StandoutNobel
Substrate requirements for let-7 function in the developing zebrafish embryo
2016
Human microRNAs are processed from capped, polyadenylated transcripts that can also function as mRNAs
2004
Tumour invasion and metastasis initiated by microRNA-10b in breast cancer
2007 StandoutNature
HHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment
2011 Standout
Argonaute HITS-CLIP decodes microRNA–mRNA interaction maps
2009 Nature
Epigenetic Modulation of miR-122 Facilitates Human Embryonic Stem Cell Self-Renewal and Hepatocellular Carcinoma Proliferation
2011
Trans -splicing and polyadenylation of let-7 microRNA primary transcripts
2004
Noncoding RNA in development
2008
Two classes of endogenous small RNAs inTetrahymena thermophila
2005
Endogenous miRNA and Target Concentrations Determine Susceptibility to Potential ceRNA Competition
2014
A novel class of small RNAs bind to MILI protein in mouse testes
2006 Nature
Negative regulation of Hif1a expression and TH17 differentiation by the hypoxia-regulated microRNA miR-210
2014
The Microprocessor complex mediates the genesis of microRNAs
2004 StandoutNature
Function of miR-146a in Controlling Treg Cell-Mediated Regulation of Th1 Responses
2010 Nobel
MiR-150 Controls B Cell Differentiation by Targeting the Transcription Factor c-Myb
2007
Epstein-Barr virus-encoded microRNA miR-BART2 down-regulates the viral DNA polymerase BALF5
2007
Serum response factor regulates a muscle-specific microRNA that targets Hand2 during cardiogenesis
2005 Nature
The MicroRNA miR-1 Regulates a MEF-2-Dependent Retrograde Signal at Neuromuscular Junctions
2008 StandoutNobel
HIV-1 encoded candidate micro-RNAs and their cellular targets
2004
RNA‐based viral immunity initiated by the Dicer family of host immune receptors
2008
Impact of MicroRNA Levels, Target-Site Complementarity, and Cooperativity on Competing Endogenous RNA-Regulated Gene Expression
2016
Dual regulation of hepatitis C viral RNA by cellular RNAi requires partitioning of Ago2 to lipid droplets and P-bodies
2011
RNA-guided genetic silencing systems in bacteria and archaea
2012 StandoutNatureNobel
Oncomirs — microRNAs with a role in cancer
2006 Standout
Isolation of microRNA targets by miRNP immunopurification
2007
Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells
2008
Targeted deletion of miR-132/-212 impairs memory and alters the hippocampal transcriptome
2016
Specificity of microRNA target selection in translational repression
2004
MicroRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos
2017
Endogenous siRNAs Derived from a Pair of Natural cis-Antisense Transcripts Regulate Salt Tolerance in Arabidopsis
2005
Improved protein structure prediction using potentials from deep learning
2020 StandoutNatureNobel
A Pattern-Based Method for the Identification of MicroRNA Binding Sites and Their Corresponding Heteroduplexes
2006 Standout
A Genome-Wide Map of Conserved MicroRNA Targets in C. elegans
2006
Desperately seeking microRNA targets
2010
The role of site accessibility in microRNA target recognition
2007 Standout
MicroRNA-9a ensures the precise specification of sensory organ precursors in Drosophila
2006
The computational prediction of protein assemblies
2017
MicroRNA Targeting Specificity in Mammals: Determinants beyond Seed Pairing
2007 Standout
microRNA Target Predictions across Seven Drosophila Species and Comparison to Mammalian Targets
2005
RNA silencing in plants
2004 StandoutNature
A germline-specific class of small RNAs binds mammalian Piwi proteins
2006 Nature
MicroRNAs: a developing story
2005
Competing roles of microRNA-122 recognition elements in hepatitis C virus RNA
2010
Unambiguous Identification of miRNA:Target Site Interactions by Different Types of Ligation Reactions
2014
Silencing of microRNAs in vivo with ‘antagomirs’
2005 StandoutNature
A guide through present computational approaches for the identification of mammalian microRNA targets
2006
The small RNA repertoire of Dictyostelium discoideum and its regulation by components of the RNAi pathway
2007 StandoutNobel
Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes
2007
A combined computational-experimental approach predicts human microRNA targets
2004
Principles of MicroRNA–Target Recognition
2005 Standout
Fast and effective prediction of microRNA/target duplexes
2004 Standout
Small RNAs as Guardians of the Genome
2009
Mutations in the seed region of human miR-96 are responsible for nonsyndromic progressive hearing loss
2009
Poly(A)-tail profiling reveals an embryonic switch in translational control
2014 Nature
Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs
2007
Revealing the world of RNA interference
2004 StandoutNatureNobel
miRBase: microRNA sequences, targets and gene nomenclature
2005 Standout
Predicting functional effect of missense variants using graph attention neural networks
2022
Small regulatory RNAs in mammals
2005
Dimeric interactions and complex formation using direct coevolutionary couplings
2015
On the origin and functions of RNA-mediated silencing: from protists to man
2006
Combinatorial microRNA target predictions
2005 Standout
MicroRNAs in muscle differentiation: lessons from Drosophila and beyond
2006
Structural basis for amino acid export by DMT superfamily transporter YddG
2016 Nature
Virus-encoded microRNAs: novel regulators of gene expression
2006
Weak seed-pairing stability and high target-site abundance decrease the proficiency of lsy-6 and other microRNAs
2011
MicroRNAs in the Drosophila bithorax complex
2008
miR-122 regulation of lipid metabolism revealed by in vivo antisense targeting
2006 Standout
Position-Dependent Function for a Tandem MicroRNA miR-122-Binding Site Located in the Hepatitis C Virus RNA Genome
2008
Essential metabolic, anti-inflammatory, and anti-tumorigenic functions of miR-122 in liver
2012
Identification and characterization of small RNAs involved in RNA silencing
2005
The liver-specific microRNA miR-122 controls systemic iron homeostasis in mice
2011
The Viral and Cellular MicroRNA Targetome in Lymphoblastoid Cell Lines
2012
A brain-specific microRNA regulates dendritic spine development
2006 Nature
Antisense inhibition of human miRNAs and indications for an involvement of miRNA in cell growth and apoptosis
2005
Common logic of transcription factor and microRNA action
2004
Most Caenorhabditis elegans microRNAs Are Individually Not Essential for Development or Viability
2007 StandoutNobel
Mechanisms of gene silencing by double-stranded RNA
2004 StandoutNature
Dicer-1 and R3D1-L catalyze microRNA maturation in Drosophila
2005
MicroRNA sponges: competitive inhibitors of small RNAs in mammalian cells
2007 Standout
Mapping the Human miRNA Interactome by CLASH Reveals Frequent Noncanonical Binding
2013
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
2005 Standout
Assessing the ceRNA Hypothesis with Quantitative Measurements of miRNA and Target Abundance
2014
Large-Scale Sequencing Reveals 21U-RNAs and Additional MicroRNAs and Endogenous siRNAs in C. elegans
2006
Sixty-five years of the long march in protein secondary structure prediction: the final stretch?
2016
Reliable and robust detection of coevolving protein residues†
2012
Biogenesis of small RNAs in animals
2009 Standout
Denoising feedback loops by thresholding—a new role for microRNAs: Figure 1.
2006
Chromatin structure analyses identify miRNA promoters
2008
MicroRNA control of PHABULOSA in leaf development: importance of pairing to the microRNA 5′ region
2004
The functions of animal microRNAs
2004 StandoutNatureNobel
Antiviral silencing in animals
2005
Perspective: machines for RNAi
2005
Approaches to microRNA discovery
2006
Sequence-specific inhibition of microRNA- and siRNA-induced RNA silencing
2004
Argonaute protein PIWI controls mobilization of retrotransposons in the Drosophila male germline
2005
Deep mutational scanning: a new style of protein science
2014
Identification of microRNAs of the herpesvirus family
2005 StandoutNobel
Inference of miRNA targets using evolutionary conservation and pathway analysis
2007
MicroRNA-122 plays a critical role in liver homeostasis and hepatocarcinogenesis
2012
MicroRNA-Mediated Feedback and Feedforward Loops Are Recurrent Network Motifs in Mammals
2007
An Extensive MicroRNA-Mediated Network of RNA-RNA Interactions Regulates Established Oncogenic Pathways in Glioblastoma
2011
Global and Local Architecture of the Mammalian microRNA–Transcription Factor Regulatory Network
2007
Hepatitis C Virus RNA Functionally Sequesters miR-122
2015 StandoutNobel
Argonaute2 complexes carry a population of circulating microRNAs independent of vesicles in human plasma
2011 Standout
The Piwi-piRNA Pathway Provides an Adaptive Defense in the Transposon Arms Race
2007 Science
Functionally distinct regulatory RNAs generated by bidirectional transcription and processing of microRNA loci
2008
High precision in protein contact prediction using fully convolutional neural networks and minimal sequence features
2018
Ago HITS-CLIP Expands Understanding of Kaposi's Sarcoma-associated Herpesvirus miRNA Function in Primary Effusion Lymphomas
2012
A Cellular MicroRNA Mediates Antiviral Defense in Human Cells
2005 Science
Regulation of Hepatitis C Virus Translation and Infectious Virus Production by the MicroRNA miR-122
2010
A Uniform System for the Annotation of Vertebrate microRNA Genes and the Evolution of the Human microRNAome
2015
Codon-level information improves predictions of inter-residue contacts in proteins by correlated mutation analysis
2015
Microarray profiling of microRNAs reveals frequent coexpression with neighboring miRNAs and host genes
2005
Modulation of Hepatitis C Virus RNA Abundance and the Isoprenoid Biosynthesis Pathway by MicroRNA miR-122 Involves Distinct Mechanisms
2009
A structural model of the active ribosome-bound membrane protein insertase YidC
2014
SWISS-MODEL: homology modelling of protein structures and complexes
2018 Standout
NONCODING RNAS IN THE MAMMALIAN CENTRAL NERVOUS SYSTEM
2006
The evolution of RNAi as a defence against viruses and transposable elements
2008
Evidence for maternally transmitted small interfering RNA in the repression of transposition in Drosophila virilis
2005
One contact for every twelve residues allows robust and accurate topology‐level protein structure modeling
2013 StandoutNobel
The new frontier of genome engineering with CRISPR-Cas9
2014 StandoutScienceNobel
Cloning and Identification of a MicroRNA Cluster within the Latency-Associated Region of Kaposi's Sarcoma-Associated Herpesvirus
2005
A role for Dicer in immune regulation
2006 StandoutNobel
A MicroRNA Feedback Circuit in Midbrain Dopamine Neurons
2007 Science
Ribo-gnome: The Big World of Small RNAs
2005 Science
Template‐based and free modeling of I‐TASSER and QUARK pipelines using predicted contact maps in CASP12
2017
Kaposi's sarcoma-associated herpesvirus expresses an array of viral microRNAs in latently infected cells
2005
Predicting effective microRNA target sites in mammalian mRNAs
2015 Standout
Altered lymphopoiesis and immunodeficiency in miR-142 null mice
2015
Protein structure prediction using multiple deep neural networks in the 13th Critical Assessment of Protein Structure Prediction (CASP13)
2019 StandoutNobel
The role of microRNA genes in papillary thyroid carcinoma
2005 Standout
ComplexContact: a web server for inter-protein contact prediction using deep learning
2018
Robust and accurate prediction of residue–residue interactions across protein interfaces using evolutionary information
2014 StandoutNobel
Prioritizing genes for systematic variant effect mapping
2020
DeMaSk: a deep mutational scanning substitution matrix and its use for variant impact prediction
2020
Relief of microRNA-Mediated Translational Repression in Human Cells Subjected to Stress
2006
MicroRNA-206 Is Highly Expressed in Newly Formed Muscle Fibers: Implications Regarding Potential for Muscle Regeneration and Maturation in Muscular Dystrophy
2008
NF-κB-dependent induction of microRNA miR-146, an inhibitor targeted to signaling proteins of innate immune responses
2006 StandoutNobel
Analysis of several key factors influencing deep learning-based inter-residue contact prediction
2019
Cell-type-specific signatures of microRNAs on target mRNA expression
2006
Evolutionary-scale prediction of atomic-level protein structure with a language model
2023 StandoutScience
Information-Driven Structural Modelling of Protein–Protein Interactions
2014
Modulation of Hepatitis C Virus RNA Abundance by a Liver-Specific MicroRNA
2005 StandoutScience
Cellular cofactors affecting hepatitis C virus infection and replication
2007 StandoutNobel
Structure of a Functional Amyloid Protein Subunit Computed Using Sequence Variation
2014
Telomere elongation is under the control of the RNAi-based mechanism in the Drosophila germline
2006
CCMpred—fast and precise prediction of protein residue–residue contacts from correlated mutations
2014
Competing and noncompeting activities of miR-122 and the 5′ exonuclease Xrn1 in regulation of hepatitis C virus replication
2012
Base Pairing between Hepatitis C Virus RNA and MicroRNA 122 3′ of Its Seed Sequence Is Essential for Genome Stabilization and Production of Infectious Virus
2012
MiR-210 Is Induced by Oct-2, Regulates B Cells, and Inhibits Autoantibody Production
2013
Accumulation of miR-155 and BIC RNA in human B cell lymphomas
2005
Myogenic factors that regulate expression of muscle-specific microRNAs
2006
RNA silencing
2005
Large-scale determination of previously unsolved protein structures using evolutionary information
2015 StandoutNobel
Micro-RNA Regulation of the Mammalian lin-28 Gene during Neuronal Differentiation of Embryonal Carcinoma Cells
2005
The neuronal microRNA system
2006
Using deep mutational scanning to benchmark variant effect predictors and identify disease mutations
2020
Stabilization of hepatitis C virus RNA by an Ago2–miR-122 complex
2012
Genomics-aided structure prediction
2012
A biochemical approach to identifying microRNA targets
2007
Accurate proteome-wide missense variant effect prediction with AlphaMissense
2023 StandoutScienceNobel
Predicting protein–protein interactions through sequence-based deep learning
2018
Robust Distal Tip Cell Pathfinding in the Face of Temperature Stress Is Ensured by Two Conserved microRNAS inCaenorhabditis elegans
2015 StandoutNobel
Ensembling multiple raw coevolutionary features with deep residual neural networks for contact‐map prediction in CASP13
2019
Works of Debora S. Marks being referenced
Structure and mutagenic analysis of the lipid II flippase MurJ from Escherichia coli
2018
MicroRNA control of protein expression noise
2015 Science
All-atom 3D structure prediction of transmembrane β-barrel proteins from sequences
2015
MicroRNA targets in Drosophila
2003 Standout
Human MicroRNA Targets
2004 Standout
FreeContact: fast and free software for protein contact prediction from residue co-evolution
2014
MicroRNA profiling of the murine hematopoietic system
2005
Deep generative models of genetic variation capture the effects of mutations
2018
Protein structure prediction from sequence variation
2012
The developmental miRNA profiles of zebrafish as determined by small RNA cloning
2005
miR-122, a Mammalian Liver-Specific microRNA, is Processed from hcr mRNA and MayDownregulate the High Affinity Cationic Amino Acid Transporter CAT-1
2004
Antisense-Mediated Depletion Reveals Essential and Specific Functions of MicroRNAs in Drosophila Development
2005
A Systematic p53 Mutation Library Links Differential Functional Impact to Cancer Mutation Pattern and Evolutionary Conservation
2018
Structured States of Disordered Proteins from Genomic Sequences
2016
Amino acid coevolution reveals three-dimensional structure and functional domains of insect odorant receptors
2015
Mutation effects predicted from sequence co-variation
2017
The microRNA.org resource: targets and expression
2007 Standout
Inferring Pairwise Interactions from Biological Data Using Maximum-Entropy Probability Models
2015
Signatures of RNA binding proteins globally coupled to effective microRNA target sites
2010
Pathway and network analysis of cancer genomes
2015
Protein 3D Structure Computed from Evolutionary Sequence Variation
2011
Transfection of small RNAs globally perturbs gene regulation by endogenous microRNAs
2009
Protein structure determination by combining sparse NMR data with evolutionary couplings
2015
The Small RNA Profile during Drosophila melanogaster Development
2003
Three-Dimensional Structures of Membrane Proteins from Genomic Sequencing
2012
Target mRNA abundance dilutes microRNA and siRNA activity
2010
Direct-coupling analysis of residue coevolution captures native contacts across many protein families
2011
Identification of Virus-Encoded MicroRNAs
2004 StandoutScience
Multiplexed measurement of variant abundance and activity reveals VKOR topology, active site and human variant impact
2020
Disease variant prediction with deep generative models of evolutionary data
2021 Nature
PconsFold: improved contact predictions improve protein models
2014
Sequence co-evolution gives 3D contacts and structures of protein complexes
2014
mRNA turnover rate limits siRNA and microRNA efficacy
2010
Estimation of Residue-Residue Coevolution using Direct Coupling Analysis Identifies Many Native Contacts Across a Large Number of Domain Families
2012