yusuke1997/dblp-id-title huggingface dataset:
Phosphorylated protamines. II. Circular dichroism of complexes with DNA, dependency on ionic strength
The Eukaryotic Promoter Database EPD
Ensembl 2014
Composite Module Analyst: identification of transcription factor binding site combinations using genetic algorithm
CADB: Conformation Angles DataBase of proteins
BPROMPT: a consensus server for membrane protein prediction
g: Profiler: a web server for functional enrichment analysis and conversions of gene lists (2019 update)
Analysis of DNA damage and repair in murine leukemia L1210 cells using a quantitative polymerase chain reaction assay
WDSPdb: a database for WD40-repeat proteins
x BASE, a collection of online databases for bacterial comparative genomics
A high yield affinity purification method for specific RNA-binding proteins: isolation of the iron regulatory factor from human placenta
GEMS: a web server for biclustering analysis of expression data
A Chinese hamster ovary cyclophilin cDNA sequence
Standard and generalized McDonald-Kreitman test: a website to detect selection by comparing different classes of DNA sites
Human protein reference database - 2006 update
BLAST: improvements for better sequence analysis
XREFdb: cross-referencing the genetics and genes of mammals and model organisms
ChipInfo: software for extracting gene annotation and gene ontology information for microarray analysis
PRINTS-S: the database formerly known as PRINTS
Heterogeneity of 5' -termini of nucleolar 45S, 32S and 28S RNA in mouse hepatoma
The complete nucleotide sequence of the chick a-actin gene and its evolutionary relationship to the actin gene family
Improvements in the HbVar database of human hemoglobin variants and thalassemia mutations for population and sequence variation studies
BrainBase: a curated knowledgebase for brain diseases
CottonGen: a genomics, genetics and breeding database for cotton research
SVM-Prot: web-based support vector machine software for functional classification of a protein from its primary sequence
ChemFOnt: the chemical functional ontology resource
SIFT: predicting amino acid changes that affect protein function
NAPS: a residue-level nucleic acid-binding prediction server
PSSRdb: a relational database of polymorphic simple sequence repeats extracted from prokaryotic genomes
Peptide nucleic acid (PNA) binding-mediated induction of human gamma- globin gene expression
Primary structure of guinea pig apolipoprotein E
ReMap 2018: an updated atlas of regulatory regions from an integrative analysis of DNA-binding ChIP-seq experiments
The 2015 Nucleic Acids Research Database Issue and Molecular Biology Database Collection
8-Phosphorus substituted isosteres of purine and deazapurines
Detection of multiple conformations of the E-domain of 5S rRNA from Escherichia coli in solution and in crystals by NMR spectroscopy
Expanded and updated data and a query pipeline for iBeetle-Base
CHOP: parsing proteins into structural domains
SCRIPDB: a portal for easy access to syntheses, chemicals and reactions in patents
UTRdb: a specialized database of 5' and 3' untranslated regions of eukaryotic mRNAs
Demarcation of a sequence involved in mediating catabolite repression of the gene for the 11 kDa subunit VIII of ubiquinol-cytochrome c oxidoreductase in Saccharomyces cerevisiae
TOPSAN: a dynamic web database for structural genomics
AntigenDB: an immunoinformatics database of pathogen antigens
BeEP Server: using evolutionary information for quality assessment of protein structure models
seeMotif: exploring and visualizing sequence motifs in 3D structures
Data mining tools for the Saccharomyces cerevisiae morphological database
Epitome: database of structure-inferred antigenic epitopes
The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease
Relation between genomic and capsid structures in RNA viruses
The nucleoside sequence of tyrosine tRNA from Bacillus stearothermophilus
NORINE: a database of nonribosomal peptides
SeqFIRE: a web application for automated extraction of indel regions and conserved blocks from protein multiple sequence alignments
FLAGdb/FST: a database of mapped flanking insertion sites (FSTs) of Arabidopsis thaliana T-DNA transformants
Turbidimetric and potentiometric studies of ribosomal subunits from an erythromycin resistant mutant of Escherichia coli
AGRIS: the Arabidopsis Gene Regulatory Information Server, an update
The TIGR Plant Repeat Databases: a collective resource for the identification of repetitive sequences in plants
PDBsum: summaries and analyses of PDB structures
An Alu polymorphism intragenic to the neurofibromatosis type 1 gene (NF1)
Update on XplorMed: a web server for exploring scientific literature
Alternative splicing in the human cytochrome P450IIB6 gene: use of a cryptic exon within intron 3 and splice acceptor site within exon 4
SCRATCH: a protein structure and structural feature prediction server
OligoArrayDb: pangenomic oligonucleotide microarray probe sets database
rna-tools.online: a Swiss army knife for RNA 3D structure modeling workflow
HAMAP in 2015: updates to the protein family classification and annotation system
Comparative interactomics with Funcoup 2.0
UTRdb: a specialized database of 5'- and 3'-untranslated regions of eukaryotic mRNAs
ConSite: web-based prediction of regulatory elements using cross-species comparison
The Mouse Genome Database (MGD): the model organism database for the laboratory mouse
Transfer RNA genes of Drosophila melanogaster
Scansite 2.0: proteome-wide prediction of cell signaling interactions using short sequence motifs
CancerMIRNome: an interactive analysis and visualization database for miRNome profiles of human cancer
PharmacoDB: an integrative database for mining in vitro anticancer drug screening studies
JAR3D Webserver: Scoring and aligning RNA loop sequences to known 3D motifs
Cloning, chromosomal localization and expression pattern of the POU domain gene Oct-11
StructMAn: annotation of single-nucleotide polymorphisms in the structural context
DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions
Yeast omnipotent supressor SUP1 (SUP45): nucleotide sequence of the wildtype and a mutant gene
Xenopus sonic hedgehog as a potential morphogen during embryogenesis and thyroid hormone-dependent metamorphosis
Nucleos: a web server for the identification of nucleotide-binding sites in protein structures
The TIGR Plant Transcript Assemblies database
I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure
Effects of double-strand break repair proteins on vertebrate telomere structure
The Reactome pathway Knowledgebase
Key for protein coding sequences identification: computer analysis of codon strategy
CirGRDB: a database for the genome-wide deciphering circadian genes and regulators
MMDB: annotating protein sequences with Entrez's 3D-structure database
MRPrimerW2: an enhanced tool for rapid design of valid high-quality primers with multiple search modes for qPCR experiments
The CyberCell Database (CCDB): a comprehensive, self-updating, relational database to coordinate and facilitate in silico modeling of Escherichia coli
Retinoblastoma susceptibility genes contain 5' sequences with a high propensity to form guanine-tetrad structures
Functional analysis of the interaction between HCV 5'UTR and putative subunits of eukaryotic translation initiation factor eIF3
Rfam 14: expanded coverage of metagenomic, viral and microRNA families
Analysis of the complete nucleotide sequence of the group IV RNA coliphage SP
Potential secondary structure at translation-initiation sites [published erratum appears in Nucleic Acids Res 1988 May 11;16(9): 4196]
PlantTFDB 4.0: toward a central hub for transcription factors and regulatory interactions in plants
The cell: an image library-CCDB: a curated repository of microscopy data
OncoVar: an integrated database and analysis platform for oncogenic driver variants in cancers
LipidSig: a web-based tool for lipidomic data analysis
e-RNA: a collection of web servers for comparative RNA structure prediction and visualisation
Methylation blockage and other improvements to a comprehensive DNA analysis program
The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions
ARTS-DB: a database for antibiotic resistant targets
FAF-Drugs3: a web server for compound property calculation and chemical library design
NSDNA: a manually curated database of experimentally supported ncRNAs associated with nervous system diseases
MDsrv: visual sharing and analysis of molecular dynamics simulations
The UCSC Genome Browser database: 2023 update
PBmice: an integrated database system of piggyBac (PB) insertional mutations and their characterizations in mice
FlyRNAi.org - the database of the Drosophila RNAi screening center and transgenic RNAi project: 2021 update
ResFinderFG v2.0: a database of antibiotic resistance genes obtained by functional metagenomics
UniLectin3D, a database of carbohydrate binding proteins with curated information on 3D structures and interacting ligands
H-InvDB in 2013: an omics study platform for human functional gene and transcript discovery
HexServer: an FFT-based protein docking server powered by graphics processors
Strong transcriptional activation of translocated c-myc genes occurs without a strong nearby enhancer or promoter
AngioDB: database of angiogenesis and angiogenesis-related molecules
SIFTER search: a web server for accurate phylogeny-based protein function prediction
Conformational changes of nucleic acids and poly (d(A-T)-d(A-T)) caused by photoaddition of furocoumarins
PRALINE: a multiple sequence alignment toolbox that integrates homology-extended and secondary structure information
JuncDB: an exon-exon junction database
MetaRouter: bioinformatics for bioremediation
MitoMiner v4.0: an updated database of mitochondrial localization evidence, phenotypes and diseases
PTM-Switchboard - a database of posttranslational modifications of transcription factors, the mediating enzymes and target genes
The protein identification resource (PIR)
INFOGENE: a database of known gene structures and predicted genes and proteins in sequences of genome sequencing projects
Novel DNA sequences at chromosome 10q26 are amplified in human gastric carcinoma cell lines: molecular cloning by competitive DNA reassociation
Object-oriented Transcription Factors Database (ooTFD)
CentrosomeDB: a human centrosomal proteins database
Minimotif miner 2nd release: a database and web system for motif search
The pancreatic expression database: recent extensions and updates
ExonSkipDB: functional annotation of exon skipping event in human
NASA GeneLab: interfaces for the exploration of space omics data
CalFitter 2.0: Leveraging the power of singular value decomposition to analyse protein thermostability
Animal-SNPAtlas: a comprehensive SNP database for multiple animals
CPLM: a database of protein lysine modifications
GreenPhylDB v5: a comparative pangenomic database for plant genomes
SNPSTR: a database of compound microsatellite-SNP markers
A cholinesterase genes server (ESTHER): a database of cholinesterase- related sequences for multiple alignments, phylogenetic relationships, mutations and structural data retrieval
NQ-Flipper: recognition and correction of erroneous asparagine and glutamine side-chain rotamers in protein structures
PLMItRNA, a database for tRNAs and tRNA genes in plant mitochondria: enlargement and updating
RMBase v2.0: deciphering the map of RNA modifications from epitranscriptome sequencing data
qPTMplants: an integrative database of quantitative post-translational modifications in plants
AS2TS system for protein structure modeling and analysis
Bac Dive - The Bacterial Diversity Metadatabase in 2016
Plasmid ATLAS: plasmid visual analytics and identification in high-throughput sequencing data
MSCAN: identification of functional clusters of transcription factor binding sites
Two EcoT14I RFLPs at the human renin (REN) gene locus
SIGNOR: a database of causal relationships between biological entities
DomainViz: intuitive visualization of consensus domain distributions across groups of proteins
The influence of chromatin structure on the distribution of DNA repair synthesis studied by nuclease digestion
Composite human VK genes and a model of their evolution
Identification and characterization of transcription factor IIIA from Schizosaccharomyces pombe
Transcription of a human transposon-like sequence is usually directed by other promoters
iPBA: a tool for protein structure comparison using sequence alignment strategies
TmPrime: fast, flexible oligonucleotide design software for gene synthesis
The Genomic Threading Database: a comprehensive resource for structural annotations of the genomes from key organisms
Site-directed mutagenesis in the DNA linking site of bacteriophage phi 29 terminal protein: isolation and characterization of a Ser232----Thr mutant
TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction
JASPAR, the open access database of transcription factor-binding profiles: new content and tools in the 2008 update
Sequences at the C-terminus of the herpes simplex virus type 1 UL30 protein are dispensable for DNA polymerase activity but not for viral origin-dependent DNA replication
Single amino acid substitutions in the HsdR subunit of the type IB restriction enzyme EcoAI uncouple the DNA translocation and DNA cleavage activities of the enzyme
Anonymous DNA sequence from chromosome 21 showing a three allele insertion/deletion RFLP (HGM 9 provisional no. D21S82)
OMA 2011: orthology inference among 1000 complete genomes
PRISM: a web server and repository for prediction of protein-protein interactions and modeling their 3D complexes
Use of fluorescent sequence-specific polyamides to discriminate human chromosomes by microscopy and flow cytometry
webSDA: a web server to simulate macromolecular diffusional association
FTMAP: extended protein mapping with user-selected probe molecules
The nucleotide sequence of pACYC177
Gene Expression Nebulas (GEN): a comprehensive data portal integrating transcriptomic profiles across multiple species at both bulk and single-cell levels
exoRBase 2.0: an atlas of mRNA, lncRNA and circRNA in extracellular vesicles from human biofluids
Correct splicing of a group II intron from a chimeric reporter gene transcript in tobacco plastids
The protein structure initiative structural genomics knowledgebase
Subti Wiki 2.0 - an integrated database for the model organism Bacillus subtilis
The Genome Sequence DataBase: towards an integrated functional genomics resource
LUCApedia: a database for the study of ancient life
PEP-SiteFinder: a tool for the blind identification of peptide binding sites on protein surfaces
DNA conformational analysis in solution by uranyl mediated photocleavage
CABS-flex 2.0: a web server for fast simulations of flexibility of protein structures
DASHR: database of small human noncoding RNAs
WormBase: a comprehensive resource for nematode research
PromH: promoters identification using orthologous genomic sequences
BindUP: a web server for non-homology-based prediction of DNA and RNA binding proteins
Uprobe 2008: an online resource for universal overgo hybridization-based probe retrieval and design
Influence of tRNA tertiary structure and stability on aminoacylation by yeast aspartyl-tRNA synthetase
CAPweb: a bioinformatics CGH array Analysis Platform
KnotProt 2.0: a database of proteins with knots and other entangled structures
SEdb: a comprehensive human super-enhancer database
GPCRpred: an SVM-based method for prediction of families and subfamilies of G-protein coupled receptors
MEXPRESS update 2019
Nucleotide sequence of a Drosophila melanogaster H1 histone gene
JASPAR: an open-access database for eukaryotic transcription factor binding profiles
Studies on the inhibition of highly purified calf thymus 8S and 7.3S DNA polymerase alpha by aphidicolin
FlyAtlas 2: a new version of the Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
MultiPipMaker and supporting tools: alignments and analysis of multiple genomic DNA sequences
OOTFD (Object-Oriented Transcription Factors Database): an object- oriented successor to TFD
VMD: a community annotation database for oomycetes and microbial genomes
PRECOG: PREdicting COupling probabilities of G-protein coupled receptors
Differential requirements for polypeptide chain initiation complex formation at the three bacteriophage R17 initiator regions
WebQUAST: online evaluation of genome assemblies
RNAi Codex: a portal/database for short-hairpin RNA (shRNA) gene-silencing constructs
The Small Subunit rRNA Modification Database
Updated MS²PIP web server delivers fast and accurate MS² peak intensity prediction for multiple fragmentation methods, instruments and labeling techniques
The UCSC Genome Browser database: update 2010
ToxoDB: an integrated Toxoplasma gondii database resource
piNET: a versatile web platform for downstream analysis and visualization of proteomics data
Prediction of an rRNA methyltransferase domain in human tumor-specific nucleolar protein P120
The Chemical Probes Portal: an expert review-based public resource to empower chemical probe assessment, selection and use
The plant organelles database (PODB): a collection of visualized plant organelles and protocols for plant organelle research
dbPTM 3.0: an informative resource for investigating substrate site specificity and functional association of protein post-translational modifications
Heterogeneity of human U1 snRNAs
PIRSF: family classification system at the Protein Information Resource
MolluscDB: an integrated functional and evolutionary genomics database for the hyper-diverse animal phylum Mollusca (Corrigendum)
WALTZ-DB 2.0: an updated database containing structural information of experimentally determined amyloid-forming peptides
cDNA sequence of human beta-NGF
Cloning of internal Ca pump from rabbit stomach smooth muscle
A peptide to DNA conversion program
The UCSC Interaction Browser: multidimensional data views in pathway context
INCLUSive: a web portal and service registry for microarray and regulatory sequence analysis
ezTag: tagging biomedical concepts via interactive learning
ARTS: a web-based tool for the set-up of high-throughput genome-wide mapping panels for the SNP genotyping of mouse mutants
PREX: PeroxiRedoxin classification indEX, a database of subfamily assignments across the diverse peroxiredoxin family
ASD: the Alternative Splicing Database
MAGIA 2 : from miRNA and genes expression data integrative analysis to microRNA-transcription factor mixed regulatory circuits (2012 update)
mMGE: a database for human metagenomic extrachromosomal mobile genetic elements
g: Profiler - a web server for functional interpretation of gene lists (2016 update)
POSTAR: a platform for exploring post-transcriptional regulation coordinated by RNA-binding proteins
Tissue-specific transcriptome sequencing analysis expands the non-human primate reference transcriptome resource (NHPRTR)
LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures
SomamiR 2.0: a database of cancer somatic mutations altering microRNA-ceRNA interactions
Dali server: conservation mapping in 3D
Pseudogene.org: a comprehensive database and comparison platform for pseudogene annotation
Isotopica: a tool for the calculation and viewing of complex isotopic envelopes
PartiGeneDB - collating partial genomes
Cross-species microarray analysis with the OSCAR system suggests an INSR->Pax6->NQO1 neuro-protective pathway in aging and Alzheimer's disease
EPGD: a comprehensive web resource for integrating and displaying eukaryotic paralog/paralogon information
TrypanoCyc: a community-led biochemical pathways database for Trypanosoma brucei
deepBase v2.0: identification, expression, evolution and function of small RNAs, LncRNAs and circular RNAs from deep-sequencing data
m5C-Atlas: a comprehensive database for decoding and annotating the 5-methylcytosine (m5C) epitranscriptome
EcoCyc: Enyclopedia of Escherichia coli Genes and Metabolism
The UCSC Genome Browser database: 2018 update
The GTOP database in 2009: updated content and novel features to expand and deepen insights into protein structures and functions
The IUPHAR/BPS guide to PHARMACOLOGY in 2022: curating pharmacology for COVID-19, malaria and antibacterials
IPC 2.0: prediction of isoelectric point and p K a dissociation constants
PROCOGNATE: a cognate ligand domain mapping for enzymes
SIREs: searching for iron-responsive elements
The TTV1-encoded viral protein TPX: primary structure of the gene and the protein
The Medicago Genome Initiative: a model legume database
PDX Finder: A portal for patient-derived tumor xenograft model discovery
M-ORBIS: Mapping of mOleculaR Binding sItes and Surfaces
HMDB: a knowledgebase for the human metabolome
OrganoidDB: a comprehensive organoid database for the multi-perspective exploration of bulk and single-cell transcriptomic profiles of organoids
gutMDisorder: a comprehensive database for dysbiosis of the gut microbiota in disorders and interventions
EyeSite: a semi-automated database of protein families in the eye
New specificity and yield enhancer of polymerase chain reactions
GalaxyRefine2: simultaneous refinement of inaccurate local regions and overall protein structure
BTBS: database of transcriptional regulation in Bacillus subtilis and its contribution to comparative genomics
InterPro, progress and status in 2005
mVOC 2.0: a database of microbial volatiles
CSA: comprehensive comparison of pairwise protein structure alignments
probeBase - an online resource for rRNA-targeted oligonucleotide probes: new features 2007
A rapid miniprep method for the preparation of yeast mitochondrial DNA
Marfan Database (second edition): software and database for the analysis of mutations in the human FBN1 gene
PGG.Population: a database for understanding the genomic diversity and genetic ancestry of human populations
Saccharomyces genome database informs human biology
RNAProbe: a web server for normalization and analysis of RNA structure probing data
T-STAG: resource and web-interface for tissue-specific transcripts and genes
Apple II PASCAL programs for molecular biologists
3D-GNOME: an integrated web service for structural modeling of the 3D genome
Exif2Vec: A Framework to Ascertain Untrustworthy Crowdsourced Images Using Metadata
Coordinating the web of services for a smart home
Understanding Cross-Site Linking in Online Social Networks
Keywords-enhanced Deep Reinforcement Learning Model for Travel Recommendation
Reporting incentives and biases in online review forums
Detection of Political Manipulation in Online Communities through Measures of Effort and Collaboration
The Internet with Privacy Policies: Measuring The Web Upon Consent
Topic-aware Web Service Representation Learning
Enhancing the trust-based recommendation process with explicit distrust
Understanding query interfaces by statistical parsing
Combining URL and HTML Features for Entity Discovery in the Web
Sampling Content from Online Social Networks: Comparing Random vs. Expert Sampling of the Twitter Stream
Leveraging popular destinations to enhance Web search interaction
LDoW-PaN: Linked Data on the Web - Presentation and Navigation
A Two Phases Self-healing Framework for Service-oriented Systems
Analyzing and Mining Comments and Comment Ratings on the Social Web
Adaptive quality of service management for enterprise services
Introduction to special issue on service oriented computing (SOC)
Nudges to Mitigate Confirmation Bias during Web Search on Debated Topics: Support vs. Manipulation
The comparative effectiveness of sponsored and nonsponsored links for Web e-commerce queries
PIDKG: Propagating Interaction Influence on the Dynamic Knowledge Graph for Recommendation
Do not crawl in the DUST: Different URLs with similar text
Scraping Relevant Images from Web Pages without Download
Understanding Rug Pulls: An In-depth Behavioral Analysis of Fraudulent NFT Creators
Decoupled Variational Embedding for Signed Directed Networks
Privacy-preserving query log mining for business confidentiality protection
User Studies on End-User Service Composition: A Literature Review and a Design Framework