yusuke1997/dblp-id-title huggingface dataset:
The construction, identification and characterisation of plasmids containing human alpha-lactalbumin cDNA sequences
EID: the Exon?Intron Database?an exhaustive database of protein-coding intron-containing genes
The ASTRAL Compendium in 2004
MitoAge: a database for comparative analysis of mitochondrial DNA, with a special focus on animal longevity
HMDB 4.0: the human metabolome database for 2018
IPD-IMGT/HLA Database
Dissecting endonuclease and exonuclease activities in endonuclease V from Thermotoga maritima
The eukaryotic promoter database in its 30th year: focus on non-vertebrate organisms
LoQAtE - Localization and Quantitation ATlas of the yeast proteomE. A new tool for multiparametric dissection of single-protein behavior in response to biological perturbations in yeast
Bioverse: functional, structural and contextual annotation of proteins and proteomes
A TaqI RFLP in Xq26-Xqter detected by pX45h [HGM8 no. DXS100h]
miRGator: an integrated system for functional annotation of microRNAs
TransfactomeDB: a resource for exploring the nucleotide sequence specificity and condition-specific regulatory activity of trans -acting factors
tGRAP, the G-protein coupled receptors mutant database
KLONER; a computer program to simulate recombinant DNA strategies by restriction map manipulation
MtDB: a database for personalized data mining of the model legume Medicago truncatula transcriptome
The nuclear export signal-dependent localization of oligonucleopeptides enhances the inhibition of the protein expression from a gene transcribed in cytosol
IMGT/HLA Database - a sequence database for the human major histocompatibility complex
Providing web servers and training in Bioinformatics: 2010 update on the Bioinformatics Links Directory
Poxvirus Bioinformatics Resource Center: a comprehensive Poxviridae informational and analytical resource
pLannotate: engineered plasmid annotation
Analysis of transcription in the archaebacterium Sulfolobus indicates that archaebacterial promoters are homologous to eukaryotic pol II promoters
Patome: a database server for biological sequence annotation and analysis in issued patents and published patent applications
Expression, purification and characterization of the recombinant ribonuclease P protein component from Bacillus subtilis
WormBase: network access to the genome and biology of Caenorhabditis elegans
PlantRegMap: charting functional regulatory maps in plants
ClinVar: public archive of relationships among sequence variation and human phenotype
The Human Phenotype Ontology in 2021
A statistical test for comparing several nucleotide sequences
ACMES: fast multiple-genome searches for short repeat sequences with concurrent cross-species information retrieval
TFBSshape: an expanded motif database for DNA shape features of transcription factor binding sites
Human immunodeficiency virus reverse transcriptase and protease sequence database
ClusterMine360: a database of microbial PKS/NRPS biosynthesis
IMGT/GENE-DB: a comprehensive database for human and mouse immunoglobulin and T cell receptor genes
PhyloPars: estimation of missing parameter values using phylogeny
The Human Anatomic Gene Expression Library (H-ANGEL), the H-Inv integrative display of human gene expression across disparate technologies and platforms
Computer programs for the characterization of protein coding genes
ViruSurf: an integrated database to investigate viral sequences
SARA-Coffee web server, a tool for the computation of RNA sequence and structure multiple alignments
AgeAnno: a knowledgebase of single-cell annotation of aging in human
Frog2: Efficient 3D conformation ensemble generator for small compounds
spongeScan: A web for detecting microRNA binding elements in lncRNA sequences
AUGUSTUS: a web server for gene finding in eukaryotes
Human TFIIIA alone is sufficient to prevent nucleosomal repression of a homologous 5S gene
mESAdb: microRNA Expression and Sequence Analysis Database
DoGSD: the dog and wolf genome SNP database
The helix-hairpin-helix DNA-binding motif: a structural basis for non- sequence-specific recognition of DNA
QMEAN server for protein model quality estimation
The 2022 Nucleic Acids Research database issue and the online molecular biology database collection
Characterization of the factors binding to a PEPCK gene upstream hypersensitive site with LCR activity
MIBiG 2.0: a repository for biosynthetic gene clusters of known function
MuPlex: multi-objective multiplex PCR assay design
5NosoAE: a web server for nosocomial bacterial antibiogram investigation and epidemiology survey
BAliBASE (Benchmark Alignment dataBASE): enhancements for repeats, transmembrane sequences and circular permutations
Levels of DNA polymerase-alpha and beta in normal and xeroderma pigmentosum fibroblasts
SLITHER: a web server for generating contiguous conformations of substrate molecules entering into deep active sites of proteins or migrating through channels in membrane transporters
ESPript/ENDscript: extracting and rendering sequence and 3D information from atomic structures of proteins
CyanoBase, the genome database for Synechocystis sp. strain PCC6803: status for the year 2000
BacMap: an interactive picture atlas of annotated bacterial genomes
U-3'-BCIP: a chromogenic substrate for the detection of RNase A in recombinant DNA expression systems
TransTerm: a database of translational signals
The metabolic pathway collection: an update
AANT: the Amino Aciduchleotide Interaction Database
ChEBI in 2016: Improved services and an expanding collection of metabolites
ProteinsPlus: a web portal for structure analysis of macromolecules
ResponseNet2.0: revealing signaling and regulatory pathways connecting your proteins and genes - now with human data
Network of Cancer Genes: a web resource to analyze duplicability, orthology and network properties of cancer genes
ZFIN, the Zebrafish Model Organism Database: increased support for mutants and transgenics
ProteinLens: a web-based application for the analysis of allosteric signalling on atomistic graphs of biomolecules
CyanoBase: a large-scale update on its 20th anniversary
MMDB: Entrez's 3D-structure database
PITDB: a database of translated genomic elements
WU-Blast2 server at the European Bioinformatics Institute
xVis: a web server for the schematic visualization and interpretation of crosslink-derived spatial restraints
Assembly PCR oligo maker: a tool for designing oligodeoxynucleotides for constructing long DNA molecules for RNA production
ProPan: a comprehensive database for profiling prokaryotic pan-genome dynamics
canSAR: an updated cancer research and drug discovery knowledgebase
ArrayXPath: mapping and visualizing microarray gene-expression data with integrated biological pathway resources using Scalable Vector Graphics
SMART 7: recent updates to the protein domain annotation resource
A mutation spectra database for bacterial and mammalian genes: 1998
OligoDesign: optimal design of LNA (locked nucleic acid) oligonucleotide capture probes for gene expression profiling
MINTbase v2.0: a comprehensive database for tRNA-derived fragments that includes nuclear and mitochondrial fragments from all The Cancer Genome Atlas projects
CARD 2023: expanded curation, support for machine learning, and resistome prediction at the Comprehensive Antibiotic Resistance Database
Localize.pytom: a modern webserver for cryo-electron tomography
Gene length and codon usage bias in Drosophila melanogaster, Saccharomyces cerevisiae and Escherichia coli
VISTA Enhancer Browser - a database of tissue-specific human enhancers
Nucleotide sequence of rat mitochondrial NADH dehydrogenase subunit 1. GTG, a new initiator codon in vertebrate mitochondrial genome
ASD: a bioinformatics resource on alternative splicing
Kinomer v. 1.0: a database of systematically classified eukaryotic protein kinases
Gramene 2016: comparative plant genomics and pathway resources
ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data
MoNetFamily: a web server to infer homologous modules and module-module interaction networks in vertebrates
PHI-base: a new interface and further additions for the multi-species pathogen-host interactions database
CancerTracer: a curated database for intrapatient tumor heterogeneity
A comprehensive comparison of multiple sequence alignment programs
ComSin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder
SNP-Seek database of SNPs derived from 3000 rice genomes
GWASdb v2: an update database for human genetic variants identified by genome-wide association studies
The dbGaP data browser: a new tool for browsing dbGaP controlled-access genomic data
g: Profiler - a web server for functional interpretation of gene lists (2011 update)
RegulatorTrail: a web service for the identification of key transcriptional regulators
PmiREN: a comprehensive encyclopedia of plant miRNAs
Spaced words and kmacs : fast alignment-free sequence comparison based on inexact word matches
Patch Finder Plus (PFplus): A web server for extracting and displaying positive electrostatic patches on protein surfaces
sRNAMap: genomic maps for small non-coding RNAs, their regulators and their targets in microbial genomes
Triplex formation by oligonucleotides containing novel deoxycytidine derivatives [published erratum appears in Nucleic Acids Res 1997 Sep 15;25(18): following 3750]
PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries
PlantGDB: a resource for comparative plant genomics
NPInter v5.0: ncRNA interaction database in a new era
MINT, the molecular interaction database: 2009 update
The PEDANT genome database
WebTetrado: a webserver to explore quadruplexes in nucleic acid 3D structures
Berkeley Phylogenomics Group web servers: resources for structural phylogenomic analysis
InterPro: the integrative protein signature database
PathBank: a comprehensive pathway database for model organisms
Gramene: a resource for comparative grass genomics
RiceVarMap: a comprehensive database of rice genomic variations
The University of Minnesota pathway prediction system: predicting metabolic logic
Transient conformation changes in chromatin during excision repair of ultraviolet damage to DNA
MspI and SstI RFLPs at the human insulin receptor locus on chromosome 19
Dinucleotide repeat polymorphisms at the D16S260, D16S261, D16S265, D16S266, and D16S267 loci
A frequent polymorphism of the complement component C4 gene
PaintOmics 4: new tools for the integrative analysis of multi-omics datasets supported by multiple pathway databases
Super: a web server to rapidly screen superposable oligopeptide fragments from the protein data bank
RF-Cloning.org: an online tool for the design of restriction-free cloning projects
HHsenser: exhaustive transitive profile search using HMM-HMM comparison
Editorial: The 17th Annual Nucleic Acids Research Web Server Issue 2019
p53 gene mutation: software and database
GIMICA: host genetic and immune factors shaping human microbiota
The RNA modification database--1998
Compilation of DNA sequences of Escherichia coli K12: description of the interactive databases ECD and ECDC (update 1996)
SynergyFinder 3.0: an interactive analysis and consensus interpretation of multi-drug synergies across multiple samples
Web-Beagle: a web server for the alignment of RNA secondary structures
SimpleSynteny: a web-based tool for visualization of microsynteny across multiple species
Polyoma and hamster papovavirus large T antigen-mediated replication of expression shuttle vectors in Chinese hamster ovary cells
The SWISS-MODEL Repository: new features and functionalities
A spin label study of the thermal unfolding of secondary and tertiary structure in E. colic transfer RNAs
The chAB4 and NF1-related long-range multisequence DNA families are contiguous in the centromeric heterochromatin of several human chromosomes
The multilocus sequence typing network: mlst.net
rrndb: the Ribosomal RNA Operon Copy Number Database
DNAproDB: an interactive tool for structural analysis of DNA-protein complexes
PLAZA 4.0: an integrative resource for functional, evolutionary and comparative plant genomics
ValiDichro: a website for validating and quality control of protein circular dichroism spectra
The carbohydrate-active enzyme database: functions and literature
SPADE web service for prediction of allergen IgE epitopes
CancerGeneNet: linking driver genes to cancer hallmarks
EuPathDB: The Eukaryotic Pathogen database
The RNA workbench 2.0: next generation RNA data analysis
Nucleotide sequence involving murG and murC in the mra gene cluster region of Escherichia coli
CORUM: the comprehensive resource of mammalian protein complexes-2022
APD3: the antimicrobial peptide database as a tool for research and education
Steroid receptor RNA activator protein binds to and counteracts SRA RNA-mediated activation of MyoD and muscle differentiation
PheNetic: network-based interpretation of molecular profiling data
PRECOGx: exploring GPCR signaling mechanisms with deep protein representations
DNA structural transitions within the PKD1 gene
FireDB - a database of functionally important residues from proteins of known structure
Plant cis-acting regulatory DNA elements (PLACE) database: 1999
BRENDA, the ELIXIR core data resource in 2021: new developments and updates
A database on cytogenetics in haematology and oncology
corRna: a web server for predicting multiple-point deleterious mutations in structural RNAs
Enhancing UCSF Chimera through web services
STellaris: a web server for accurate spatial mapping of single cells based on spatial transcriptomics data
The Ontology Lookup Service: more data and better tools for controlled vocabulary queries
3D-GNOME 3.0: a three-dimensional genome modelling engine for analysing changes of promoter-enhancer contacts in the human genome
iNetModels 2.0: an interactive visualization and database of multi-omics data
EWAS Atlas: a curated knowledgebase of epigenome-wide association studies
The FSSP database: fold classification based on structure-structure alignment of proteins
AppaDB: an AcedB database for the nematode satellite organism Pristionchus pacificus
Post-PCR sterilization: development and application to an HIV-1 diagnostic assay
MyMpn: a database for the systems biology model organism Mycoplasma pneumoniae
The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases
Attenuation of PCR inhibition in the presence of plant compounds by addition of BLOTTO
MGnify: the microbiome sequence data analysis resource in 2023
The ConsensusPathDB interaction database: 2013 update
The 16S ribosomal RNA mutation database (16SMDB)
CPA: a web-based platform for consensus pathway analysis and interactive visualization
GPCR-ModSim: A comprehensive web based solution for modeling G-protein coupled receptors
PubChem's BioAssay Database
HMDB 5.0: the Human Metabolome Database for 2022
KnotProt: a database of proteins with knots and slipknots
ECO: the Evidence and Conclusion Ontology, an update for 2022
Differential and cell type specific expression of murine alpha- interferon genes is regulated on the transcriptional level
BioHealthBase: informatics support in the elucidation of influenza virus host-pathogen interactions and virulence
FlyRNAi.org - the database of the Drosophila RNAi screening center and transgenic RNAi project: 2017 update
The RESID Database of protein structure modifications
A DNA sequence analysis program for the Apple Macintosh
SARA: a server for function annotation of RNA structures
ESTExplorer: an expressed sequence tag (EST) assembly and annotation platform
IDDB: a comprehensive resource featuring genes, variants and characteristics associated with infertility
The HSSP database of protein structure-sequence alignments
Insertion sites and the terminal nucleotide sequences of the Tn4 transposon
VIOLIN: vaccine investigation and online information network
MTID: a database of Sleeping Beauty transposon insertions in mice
Sequence, structure, and codon preference of the Drosophila ribosomal protein 49 gene
PubFinder: a tool for improving retrieval rate of relevant PubMed abstracts
The Nucleic Acid Database: new features and capabilities
The University of Minnesota Biocatalysis/Biodegradation Database: emphasizing enzymes
Narcisse: a mirror view of conserved syntenies
The DNA Data Bank of Japan launches a new resource, the DDBJ Omics Archive of functional genomics experiments
Multiacetylated forms of H4 are found in a putative transcriptionally competent chromatin fraction from trout testis
PRIDE: new developments and new datasets
The HSSP data base of protein structure-sequence alignments
PncsHub: a platform for annotating and analyzing non-classically secreted proteins in Gram-positive bacteria
Histone Sequence Database: sequences, structures, post-translational modifications and genetic loci
Pharos 2023: an integrated resource for the understudied human proteome
ComplexContact: a web server for inter-protein contact prediction using deep learning
IntFOLD: an integrated web resource for high performance protein structure and function prediction
SePaCS - a web-based application for classification of seroreactivity profiles
Cloning and characterization of the mouse XPAC gene
Efficient octopine Ti plasmid-derived vectors for Agrobacterium- mediated gene transfer to plants
BiQ Analyzer HT: locus-specific analysis of DNA methylation by high-throughput bisulfite sequencing
PRIDE: a public repository of protein and peptide identifications for the proteomics community
WormBase: new content and better access
kmer-SVM: a web server for identifying predictive regulatory sequence features in genomic data sets
FusionDB: a database for in-depth analysis of prokaryotic gene fusion events
The internal regulated promoter of the deo operon of Escherichia coli K- 12
PReMod: a database of genome-wide mammalian cis -regulatory module predictions
HemI 2.0: an online service for heatmap illustration
PolySearch2: a significantly improved text-mining system for discovering associations between human diseases, genes, drugs, metabolites, toxins and more
Phytome: a platform for plant comparative genomics
IntEnz, the integrated relational enzyme database
PLSDB: a resource of complete bacterial plasmids
tRNADB-CE: tRNA gene database curated manually by experts
Plasmid mapping computer program
Nucleotide sequence of a hamster cDNA highly homologous to the Xenopus laevis S19 ribosomal protein
The UCSC Genome Browser database: 2014 update
The 2023 Nucleic Acids Research Database Issue and the online molecular biology database collection
SimRNAweb: a web server for RNA 3D structure modeling with optional restraints
P-Match: transcription factor binding site search by combining patterns and weight matrices
The infrared spectrum and structure of the type I complex of silver and DNA
HmtDB, a genomic resource for mitochondrion-based human variability studies
REDIportal: a comprehensive database of A-to-I RNA editing events in humans
GeneDB - an annotation database for pathogens
PolymiRTS Database: linking polymorphisms in microRNA target sites with complex traits
The AnnotSV webserver in 2023: updated visualization and ranking
GenomeCRISPR - a database for high-throughput CRISPR/Cas9 screens
CNA web server: rigidity theory-based thermal unfolding simulations of proteins for linking structure, (thermo-)stability, and function
PRED-TMBB: a web server for predicting the topology of ?barrel outer membrane proteins
AnimalTFDB 4.0: a comprehensive animal transcription factor database updated with variation and expression annotations
BioUML: an integrated environment for systems biology and collaborative analysis of biomedical data
LncSEA: a platform for long non-coding RNA related sets and enrichment analysis
Synthesis, hybridization properties and antiviral activity of lipid- oligodeoxynucleotide conjugates
The KNOTTIN website and database: a new information system dedicated to the knottin scaffold
e2g: an interactive web-based server for efficiently mapping large EST and cDNA sets to genomic sequences
XR-C1, a new CHO cell mutant which is defective in DNA-PKcs, is impaired in both V(D)J coding and signal joint formation
DIANA-TarBase v7.0: indexing more than half a million experimentally supported miRNA: mRNA interactions
PubTator central: automated concept annotation for biomedical full text articles
FlavorDB: a database of flavor molecules
CellBase, a comprehensive collection of RESTful web services for retrieving relevant biological information from heterogeneous sources
PupaSuite: finding functional single nucleotide polymorphisms for large-scale genotyping purposes
topPTM: a new module of dbPTM for identifying functional post-translational modifications in transmembrane proteins
VirGen: a comprehensive viral genome resource
VISIBIOweb: visualization and layout services for BioPAX pathway models
Possible DNA modification in GC dinucleotides of Trypanosoma brucei telomeric sequences; relationship with antigen gene transcription
SCovid: single-cell atlases for exposing molecular characteristics of COVID-19 across 10 human tissues
FFAS server: novel features and applications
The Gene Wiki: community intelligence applied to human gene annotation
The Digital Ageing Atlas: integrating the diversity of age-related changes into a unified resource
DED: Database of Evolutionary Distances
The Protein Mutant Database
The Sol Genomics Network (SGN) - from genotype to phenotype to breeding
TFBScluster web server for the identification of mammalian composite regulatory elements
WebAUGUSTUS - a web service for training AUGUSTUS and predicting genes in eukaryotes
NrichD database: sequence databases enriched with computationally designed protein-like sequences aid in remote homology detection
PROFtmb: a web server for predicting bacterial transmembrane beta barrel proteins
Orientation of herpes simplex virus type 1 immediate early mRNA's
Datanator: an integrated database of molecular data for quantitatively modeling cellular behavior
Phospho3D 2.0: an enhanced database of three-dimensional structures of phosphorylation sites
PredictProtein - Predicting Protein Structure and Function for 29 Years
The mouse genome database (MGD): new features facilitating a model system
Nucleotide sequence of the chloroplast rbcL gene from cotton Gossypium hirsutum
Plant snoRNA database
Detection of alpha 1-antitrypsin genotypes by analysis of amplified DNA sequences
Active site amino acid sequence of the bovine O6-methylguanine-DNA methyltransferase
The European Bioinformatics Institute's data resources
ORegAnno: an open-access community-driven resource for regulatory annotation
GeConT 2: gene context analysis for orthologous proteins, conserved domains and metabolic pathways
Sequence of the gene encoding the mitochondrial F1-ATPase alpha subunit from Nicotiana plumbaginifolia
siRNAdb: a database of siRNA sequences
Primerize: automated primer assembly for transcribing non-coding RNA domains
The Yeast Proteome Database (YPD): a model for the organization and presentation of genome-wide functional data
ATIVS: analytical tool for influenza virus surveillance
A transcriptional repressor obtained by alternative translation of a trinucleotide repeat
MIPS: analysis and annotation of proteins from whole genomes in 2005
KVFinder-web: a web-based application for detecting and characterizing biomolecular cavities
The AT-rich tract of the SV40 ori core: negative synergism and specific recognition by single stranded and duplex DNA binding proteins
GalaxyWEB server for protein structure prediction and refinement
SFmap: a web server for motif analysis and prediction of splicing factor binding sites
ChIPBase: a database for decoding the transcriptional regulation of long non-coding RNA and microRNA genes from ChIP-Seq data
Analysis of the variations in proviral cytosine methylation that accompany transformation and morphological reversion in a line of Rous sarcoma virus-infected Rat-1 cells
LINbase: a web server for genome-based identification of prokaryotes as members of crowdsourced taxa
SEARCHPKS: a program for detection and analysis of polyketide synthase domains
CellLineNavigator: a workbench for cancer cell line analysis
The MetaFam Server: a comprehensive protein family resource