Standout Papers
Citation Impact
Citing Papers
Selective targeting of engineered T cells using orthogonal IL-2 cytokine-receptor complexes
2018 StandoutScienceNobel
Structures of Cas9 Endonucleases Reveal RNA-Mediated Conformational Activation
2014 StandoutScienceNobel
An enumerative algorithm for de novo design of proteins with diverse pocket structures
2020 StandoutNobel
Prokka: rapid prokaryotic genome annotation
2014 Standout
The Genetic Basis for Bacterial Mercury Methylation
2013 StandoutScience
Global analysis of protein folding using massively parallel design, synthesis, and testing
2017 StandoutScienceNobel
Biological structure and function emerge from scaling unsupervised learning to 250 million protein sequences
2021
All-atom 3D structure prediction of transmembrane β-barrel proteins from sequences
2015
Structure of the human TRPM4 ion channel in a lipid nanodisc
2017 StandoutScienceNobel
Protein structure determination using metagenome sequence data
2017 StandoutScienceNobel
De novo design of picomolar SARS-CoV-2 miniprotein inhibitors
2020 StandoutScienceNobel
Chemical composition is maintained in poorly conserved intrinsically disordered regions and suggests a means for their classification
2012
Four-component protein nanocages designed by programmed symmetry breaking
2024 StandoutNatureNobel
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
2013 Standout
The mutational landscape of phosphorylation signaling in cancer
2013
Integrative genomic mining for enzyme function to enable engineering of a non-natural biosynthetic pathway
2015 StandoutNobel
Major bacterial lineages are essentially devoid of CRISPR-Cas viral defence systems
2016
The promise and challenge of therapeutic genome editing
2020 StandoutNatureNobel
Structure of the TRPA1 ion channel suggests regulatory mechanisms
2015 StandoutNatureNobel
REPPER--repeats and their periodicities in fibrous proteins
2005
Pathogenic missense protein variants affect different functional pathways and proteomic features than healthy population variants
2021
MAFFT version 5: improvement in accuracy of multiple sequence alignment
2005 Standout
RepeatsDB: a database of tandem repeat protein structures
2013
Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes
2013
β-Propeller Blades as Ancestral Peptides in Protein Evolution
2013
Cas13d Is a Compact RNA-Targeting Type VI CRISPR Effector Positively Modulated by a WYL-Domain-Containing Accessory Protein
2018
The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides
2015
New CRISPR–Cas systems from uncultivated microbes
2016 StandoutNatureNobel
SMART: recent updates, new developments and status in 2015
2014
The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3
2015 Nature
Functional Classification and Experimental Dissection of Long Noncoding RNAs
2018 Standout
The Human Transcription Factors
2018 Standout
A mitochondrial genome sequence of a hominin from Sima de los Huesos
2013 StandoutNatureNobel
Complete nitrification by Nitrospira bacteria
2015 StandoutNature
Hepatitis-C-virus-like internal ribosome entry sites displace eIF3 to gain access to the 40S subunit
2013 StandoutNatureNobel
TRANSFAC(R) and its module TRANSCompel(R): transcriptional gene regulation in eukaryotes
2005 Standout
De novo design of luciferases using deep learning
2023 StandoutNatureNobel
Pfam: clans, web tools and services
2005 Standout
IMG 4 version of the integrated microbial genomes comparative analysis system
2013
Cryo-EM structure of the protein-conducting ERAD channel Hrd1 in complex with Hrd3
2017 StandoutNatureNobel
Foreign DNA capture during CRISPR–Cas adaptive immunity
2015 StandoutNatureNobel
Two RNA-binding motifs in eIF3 direct HCV IRES-dependent translation
2013 StandoutNobel
Improved contact prediction in proteins: Using pseudolikelihoods to infer Potts models
2013
A map of constrained coding regions in the human genome
2018
Rational design of α-helical tandem repeat proteins with closed architectures
2015 StandoutNatureNobel
The carbohydrate-active enzymes database (CAZy) in 2013
2013 Standout
Fast and Flexible Protein Design Using Deep Graph Neural Networks
2020
The RCSB Protein Data Bank: new resources for research and education
2012
TIGRFAMs and Genome Properties in 2013
2012
The coming of age of de novo protein design
2016 StandoutNatureNobel
The MPI bioinformatics Toolkit as an integrative platform for advanced protein sequence and structure analysis
2016
Conserved expression of lincRNA during human and macaque prefrontal cortex development and maturation
2014
Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system
2016
Structure of mammalian eIF3 in the context of the 43S preinitiation complex
2015 StandoutNatureNobel
MAFFT: Iterative Refinement and Additional Methods
2013
CDD: NCBI's conserved domain database
2014 Standout
ECOD: An Evolutionary Classification of Protein Domains
2014
HMMER web server: 2015 update
2015
Unusual biology across a group comprising more than 15% of domain Bacteria
2015 Nature
Improved protein structure prediction using potentials from deep learning
2020 StandoutNatureNobel
De novo design of bioactive protein switches
2019 StandoutNatureNobel
Mutation effects predicted from sequence co-variation
2017
Adding unaligned sequences into an existing alignment using MAFFT and LAST
2012
Protein structure prediction and analysis using the Robetta server
2004 StandoutNobel
Nuclear DNA sequences from the Middle Pleistocene Sima de los Huesos hominins
2016 StandoutNatureNobel
Template-based protein structure modeling using the RaptorX web server
2012
FAMSA: Fast and accurate multiple sequence alignment of huge protein families
2016
The MEROPS database of proteolytic enzymes, their substrates and inhibitors in 2017 and a comparison with peptidases in the PANTHER database
2017
RepeatsDB 2.0: improved annotation, classification, search and visualization of repeat protein structures
2016
The eukaryotic linear motif resource ELM: 10 years and counting
2013
Generating functional protein variants with variational autoencoders
2021
NCBI prokaryotic genome annotation pipeline
2016 Standout
IMG/M 4 version of the integrated metagenome comparative analysis system
2013
Exploring the repeat protein universe through computational protein design
2015 StandoutNatureNobel
The reduced genomes of Parcubacteria (OD1) contain signatures of a symbiotic lifestyle
2015
CasX enzymes comprise a distinct family of RNA-guided genome editors
2019 StandoutNatureNobel
Controlling protein assembly on inorganic crystals through designed protein interfaces
2019 StandoutNatureNobel
UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches
2014
Genomic Expansion of Domain Archaea Highlights Roles for Organisms from New Phyla in Anaerobic Carbon Cycling
2015
Cryo-EM structure of a type IV secretion system
2022 StandoutNatureNobel
Two distinct RNase activities of CRISPR-C2c2 enable guide-RNA processing and RNA detection
2016 StandoutNatureNobel
Three-Dimensional Structures of Membrane Proteins from Genomic Sequencing
2012
Organoid single-cell genomic atlas uncovers human-specific features of brain development
2019 StandoutNatureNobel
IMG/M: integrated genome and metagenome comparative data analysis system
2016
A General Computational Approach for Repeat Protein Design
2014 StandoutNobel
Ensembl comparative genomics resources
2016
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
2015 Standout
MobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins
2017
Uniclust databases of clustered and deeply annotated protein sequences and alignments
2016
De novo protein design by deep network hallucination
2021 StandoutNatureNobel
Pfam: The protein families database in 2021
2020 Standout
Direct-coupling analysis of residue coevolution captures native contacts across many protein families
2011
The cBio Cancer Genomics Portal: An Open Platform for Exploring Multidimensional Cancer Genomics Data
2012 Standout
The Pfam protein families database in 2019
2018 Standout
A structural model of the active ribosome-bound membrane protein insertase YidC
2014
UCSF ChimeraX: Meeting modern challenges in visualization and analysis
2017 Standout
Infernal 1.1: 100-fold faster RNA homology searches
2013 Standout
Programmed DNA destruction by miniature CRISPR-Cas14 enzymes
2018 StandoutScienceNobel
Classification of Intrinsically Disordered Regions and Proteins
2014 Standout
Short Linear Motifs: Ubiquitous and Functionally Diverse Protein Interaction Modules Directing Cell Regulation
2014
pVHL suppresses kinase activity of Akt in a proline-hydroxylation–dependent manner
2016 StandoutScienceNobel
The switches.ELM Resource: A Compendium of Conditional Regulatory Interaction Interfaces
2013
CCMpred—fast and precise prediction of protein residue–residue contacts from correlated mutations
2014
Expanded metabolic versatility of ubiquitous nitrite-oxidizing bacteria from the genus Nitrospira
2015
CRISPR-Cas guides the future of genetic engineering
2018 StandoutScienceNobel
Genomic resolution of a cold subsurface aquifer community provides metabolic insights for novel microbes adapted to high CO 2 concentrations
2016
Accurate proteome-wide missense variant effect prediction with AlphaMissense
2023 StandoutScienceNobel
Works of Ruth Y. Eberhardt being referenced
The challenge of increasing Pfam coverage of the human proteome
2013
Rfam 12.0: updates to the RNA families database
2014
The Pfam protein families database: towards a more sustainable future
2015 Standout
Rfam 11.0: 10 years of RNA families
2012
Pfam: the protein families database
2013 Standout
Rfam: Annotating Families of Non-Coding RNA Sequences
2014
Filling out the structural map of the NTF2-like superfamily
2013
The Pfam protein families database
2011 Standout