CIPARS Canadian Integrated Program for Antimicrobial Resistance Surveillance (CIPARS)
AMRFinderPlus Bacterial resistance mechanisms
Antimicrobial Drug Database (AMDD) Bacterial resistance mechanisms
ARDB (no longer maintained) Bacterial resistance mechanisms
ARGminer Bacterial resistance mechanisms
BacMet Bacterial resistance mechanisms
Beta-Lactamase Database (BLAD) Bacterial resistance mechanisms
Beta-Lactamase Database (BLDB) Bacterial resistance mechanisms
CBMAR Bacterial resistance mechanisms
The Comprehensive Antibiotic Resistance Database Bacterial resistance mechanisms
FARME Bacterial resistance mechanisms
INTEGRALL Bacterial resistance mechanisms
LacED Bacterial resistance mechanisms
MEGARes Bacterial resistance mechanisms
MUBII-TB-DB Bacterial resistance mechanisms
Mustard Database Bacterial resistance mechanisms
MvirDB Bacterial resistance mechanisms
PathoPhenoDB Bacterial resistance mechanisms
PATRIC database Bacterial resistance mechanisms
RAC: Repository of Antibiotic resistance Cassettes Bacterial resistance mechanisms
ResFinder Bacterial resistance mechanisms
TBDReaMDB Bacterial resistance mechanisms
u-CARE Bacterial resistance mechanisms
VFDB Bacterial resistance mechanisms



AMRFinderPlus A bioinformatic tool that allows users to identify antimicrobial resistance determinants, stress response, and virulence genes in bacterial genomes
Antimicrobial Drug Database (AMDD) An antimicrobial database
ARDB (no longer maintained) A database that tracks antibiotic resistance genes
ARGminer Antibiotic resistance database
BacMet Antibiotic resistance database
Beta-Lactamase Database (BLAD) Structural and phenotypic data on a class of enzymes, beta-lactamase.
Beta-Lactamase Database (BLDB) A database that documents beta-lactamase structure and function.
CBMAR A database focused on the annotation and discovery of novel beta-lactamase genes and proteins in bacteria.
EARS-Net A central and comprehensive database for the European Union that focuses on eight different bacterial pathogens
ESAC-Net A central and comprehensive database for the European Union that focuses on reference data on antimicrobial consumption by 30 countries across Europe.
FARME A database that compiles publicly available DNA elements and predicted proteins that confer antibiotic resistance, regulatory elements and mobile genetic elements.
INTEGRALL Annotated integrons and all other transposable elements that confer resistance to antibiotics in bacteria.
LacED A database that identifies and corrects inconsistencies in already existing databases, namely Beta-lactamases.
MEGARes A hand-curated antibiotic resistance database which incorporates previously published resistance sequences for antimicrobial drugs.
MUBII-TB-DB Highly structured, text-based database focusing on Mycobacterium tuberculosis
Mustard Database Tracks Antimicrobial Resistance Determinants (ARDs)
MvirDB A publicly available database that stores information on toxins, virulence factors and antibiotic resistance genes.
PathoPhenoDB Connects pathogens to their phenotypes
PATRIC database The bacterial bioinformatics resource center
RAC Repository of antibiotic resistance cassettes
ResFinder Antimicrobial resistance genes from whole-genome data sets
The Comprehensive Antibiotic Resistance Database Antibiotic resistance database
u-CARE A database focused on the documentation of multi-drug resistant Escherichia coli (E.coli)[
VFDB A database that provides scientist quick access to virulence factors in bacterial pathogens



BacDive Bacterial metadatabase that provides strain-linked information about bacterial and archaeal biodiversity, including taxonomy information
NCBI Taxonomy A taxonomic database operated by NCBI and concentrating on all taxa for which DNA sequences are available (those sequences are stored by GenBank, another database operated by NCBI).



The University of Minnesota Biocatalysis/Biodegradation Database Microbial biocatalytic reactions and biodegradation pathways primarily for xenobiotic, chemical compounds.




AAindex Database of amino acid indices, amino acid mutation matrices, and pair-wise contact potentials
AAindex Amino Acid index database
Amino Acids Sequence Database (PRF/SEQDB) This database consists of amino acid sequences of peptides and proteins, including sequences predicted from genes. You can also search literature in which the sequence is presented.Sequences not included in EMBL, GenBank and SwissProt are also found in PRF/SEQDB since it is constructed on the basis of all amino acid sequences of peptides and proteins reported in literature.



metalife bioinformatics database metalife makes available various bioinformatics algorithms, which perform all essential tasks in sequence analysis and sequence-based predictions.



ChEMBL Manually curated database of bioactive molecules with drug-like properties. It brings together chemical, bioactivity, and genomic data to aid the translation of genomic information into effective new drugs.  



SABIO-RK: database for biochemical reactions and their kinetic properties Database for biochemical reactions and their kinetic properties




SWEET-DB SWEET-DB offers access to CarbBank entries via graphics-oriented surface. Bibliographic search and similarity-based structure search is possible. 3D structures (optimized by TINKER) of hit entries are displayed and can be saved as PDB files.
Carbohydrate-Active Enzymes This server describes the families of structurally-related catalytic and carbohydrate-binding modules (or functional domains) of enzymes that degrade, modify, or create glycosidic bonds.



ChemDiv, Inc.: Diverse chemical libraries. Compound collections. Combinatorial chemistry Chemistry discovery and development services provider: Diversity small molecule organic compounds for bioscreening, combinatorial libraries.
CHEMLIBnetBASE Complements the databases of CHEMnetBASE with dozens of resources, references, and CRC handbooks.
CHEMnetBASE Includes several chemical dictionaries, and the CRC handbook of chemistry & physics.
Current chemical reactions Contains single- and multi-step new synthetic methods. The overall reaction flow is provided for each method, along with a detailed and accurate graphical representation of each reaction step.
ProQuest materials science collection This databases provides access to Materials Research Database with METADEX, ProQuest Materials Science Journals, and deep indexing of over a million tables and figures.
Reaxys Reaxys is a web-based search and retrieval system for chemical compounds, bibliographic data and chemical reactions.
SciFinder SciFinder provides access to several Chemical Abstracts Service databases, including Chemical Abstracts, Registry, CASREACT, CHEMLIST, and CHEMCAT..



ADME DB ADME DB is a database containing information on Human Cytochrome P450 metabolism, kinetics, transporter and structure. The information is organized by category (therapeutic area), drug name, enzyme, reaction, and type. The database includes about 11 000 entries, 5000 reactions, 3000 references and 6500 structures in mol format.
BioFrontier / P450 BioFrontier/P450 is a system, which enables every user to search for information about Human Cytochrome P450. It uses a structure formula or reaction formula as a search query. In addition to the searching function, the system can also predict information about unknown metabolites by analyzing data in the system.





BRENDA-The Comprehensive Enzyme Information System BRENDA is the main collection of enzyme functional data available to the scientific community. The enzymes are classified according to the Enzyme Commission list of enzymes. Some 3500 “different” enzymes are covered.
Carbohydrate-Active Enzymes This server describes the families of structurally-related catalytic and carbohydrate-binding modules (or functional domains) of enzymes that degrade, modify, or create glycosidic bonds.
Enzymes and Metabolic Pathways The EMP Project, Inc. was incorporated in 1999 to provide organizational, legal, and financial support for the EMP group projects, such as Enzymes and Metabolic Pathways Database (EMP) and Metabolic Pathways Database (MPW). EMP/MPW is the most comprehensive single source of computerized biochemical data available today. Moreover, this is a powerful tool for metabolic reconstruction and modeling, unmatched in either academia or the genomics industry. Both databases are currently used in a number of public and commercial genomics projects.




NCI Database Browser A WWW browser to the new and enlarged NCI database (250.000 compounds) with all kinds of nifty output features and links to other services for continued processing.



The Cancer Genome Atlas (TCGA) Provides data from hundreds of cancer samples obtained using high-throughput techniques such as gene expression profiling, copy number variation profiling, SNP genotyping, genome-wide DNA methylation profiling, microrna profiling, and exon sequencing of at least 1,200 genes



The Cancer Imaging Archive (TCIA) Cancer imaging




Blocks WWW Server A service for biological sequence analysis at the Fred Hutchinson Cancer Research Center in Seattle, Washington, USA.
Healthcare Cost and Utilization Project (HCUP) The largest collection of hospital care data in the United States. It includes hundreds of millions of inpatient, outpatient, and emergency records.
JASPAR A database of manually curated, non-redundant transcription factor binding profiles.
MetOSite A database about methionine sulfoxidation sites and its functional roles in proteins
Oncogenomic databases A compilation of databases that serve for cancer research
RIKEN integrated database of mammals Integrated database of mammals
TDR Targets A chemogenomics database focused on drug discovery in tropical diseases
TRANSFAC A database about eukaryotic transcription factors, their genomic binding sites and DNA-binding profiles




Biomodels Database Published mathematical models describing biological processes



European Bioinformatics Institute Tools for bioinformatics. Web based Blast Fasta Clustal.
BLAST/BLAT Search our genomes for your DNA or protein sequence
Blast Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences
Sequence alignment Align two or more protein sequences with the Clustal Omega program



HyperCLDB HyperCLDB is a hypetext devoted to availability of human and animal cell lines that are available from European collections.More than 4,000 cell lines are recorded.A free text search engine is as well available.
Cellosaurus A knowledge resource on cell lines



Cell Signaling Networks Database Cell Signaling Networks Data base (CSNDB) is a data- and knowledge- base for signaling pathways of human cells. It compiles the information on biological molecules, sequences, structures, functions, and biological reactions which transfer the cellular signals. Signaling pathways are compiled as binary relationships of biomolecules and represented by graphs drawn automatically.



ExoCarta Database of exosomal proteins, RNA and lipids



GCRDb G-Protein Coupled Receptor Database.



Hydrogenase&nitrogenase databases Hydrogenase and nitrogenase databases. About 4000 references of hydrogen production studies.



BioGRID General repository for interaction datasets (Samuel Lunenfeld Research Institute)
BIOINFO BANK Analysis of protein and protein-DNA interactions.
IntAct  Open-source database for molecular interactions (EMBL-EBI)
NCI-Nature Pathway Interaction Database Interaction database



HMDB Contains detailed information about small molecule metabolites found in the human body
Aging metabolomics All metabolomes in body fluids in aging
Bmi metabolomics Bmi metabolomic data
Disease metabolomics Disease metabolomic data
Gender metabolomics Gender metabolomic data
Geno metabolomics Geno metabolomic data
Golm metabolomics Golm metabolomic data
All metabolomes in body fluids All body fluid metabolomic data
Metabolomic classes Metabolomic classes data
Pharma metabolomics Metabolomic pharma data
Pathway metabolomics Metabolomic pathway data
Yeast metabolomics Metabolomic yeast data
Diurnal metabolomics Metabolomic diurnal data



Metalloprotein site Database and Browser An structural database of metal-binding sites in metalloproteins, including an interactive search and visualization interface.



The PROMISE Database The Prosthetic groups and Metal Ions in Protein Active Sites Database.



ConsensusPathDB A molecular functional interaction database, integrating information from 12 other
Entrez National Center for Biotechnology Information
Neuroscience Information Framework (University of California, San Diego) Integrates hundreds of neuroscience relevant resources; many are listed below



BioCyc Database Collection Collection of thousands of Pathway/Genome Databases (PGDBs), and software tools for exploring them.  
Reactome Navigable map of human biological pathways, ranging from metabolic processes to hormonal signalling (Ontario Institute for Cancer ResearchEuropean Bioinformatics InstituteNYU Langone Medical CenterCold Spring Harbor Laboratory)
WikiPathways Pathways
BioCyc Database Collection EcoCyc and MetaCyc are organism specific pathway/genome database
KEGG PATHWAY Database Univ. of Kyoto pathway database
Reactome Navigable map of human biological pathways, ranging from metabolic processes to hormonal signalling (Ontario Institute for Cancer ResearchEuropean Bioinformatics InstituteNYU Langone Medical CenterCold Spring Harbor Laboratory)
WikiPathways Pathways



Peptide search Find sequences that exactly match a query peptide sequence



Handbook of Porphyrin Science Porphyrins, phthalocyanines, and their analogs and derivatives  



Database of ribosomal crosslinks (DRC) The Database of Ribosomal Cross-links (DRC) provides a complete collection of all the published data produced by cross-linking studies on the Escherichia coli ribosome, as well as on its components and functional ligands.



Netpath Curated resource of signal transduction pathways in humans




Plotty Platform for building, deploying, and hyperscaling artificial inteligence (AI)



MANET database A bioinformatics database that maps evolutionary relationships of protein architectures directly onto biological networks.
European Bioinformatics Institute Tools for bioinformatics. Web based Blast Fasta Clustal.




Bedtools Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome.
BioJava The open-source Java framework for bioinformatics.
BioPerl The Bioperl Project is an international association of users & developers of open source Perl tools for bioinformatics, genomics and life science.
Biopython Biopython is a set of freely available tools for biological computation written in Python by an international team of developers.
ENCODE The Encyclopedia of DNA Elements (ENCODE) is a public research project which aims to identify functional elements in the human and mouse genomes.
Ensembl The Ensembl project started in 1999 with the goal to automatically annotate the human genome, integrate this annotation with other available biological data, and make all this publicly available via the web. Since then, many more genomes have been added to Ensembl and the range of available data has expanded to include comparative genomics, variation and regulatory data.
FastQC FastQC aims to provide a simple way to do some quality control checks on raw sequence data coming from high throughput sequencing pipelines. It provides a modular set of analyses which you can use to give a quick impression of whether your data has any problems of which you should be aware before doing any further analysis.
Java Java is a general-purpose computer-programming language that is concurrent, class-based, object-oriented, and specifically designed to have as few implementation dependencies as possible.
NCI Database Browser A WWW browser to the new and enlarged NCI database (250.000 compounds) with all kinds of nifty output features and links to other services for continued processing.
OMICtools OmicX is a global benchmark in big biodata analytics. Powered by machine teaching, its unique dynamic analytics ecosystem deciphers and analyses life science data.
OWL OWL is a non-redundant composite of 4 publicly-available primary sources: SWISS-PROT, PIR (1-3), GenBank (translation) and NRL-3D. SWISS-PROT is the highest priority source, all others being compared against it to eliminate identical and trivially-different sequences. The strict redundancy criteria render OWL relatively “small” and hence efficient in similarity searches.
Perl Perl 5 is a highly capable, feature-rich programming language with over 30 years of development.
Python Python is a programming language that lets you work quickly and integrate systems more effectively.
Samtools Samtools is a suite of programs for interacting with high-throughput sequencing data. It consists of three separate repositories - Samtools, BCFtools, HTSlib.
UCSC Genome Browser The UCSC Genome Browser provides a broad collection of vertebrate and model organism assemblies and annotations, along with a large suite of tools for viewing, analyzing and downloading data.



Codon Usage Database Codon Usage Database compiled from CUTG.



DATA PROCESSING AND ANALYSIS SOFTWARE TIBCO Statistica advanced analytics and data science platform helps you to embed analytics everywhere, empower more people and innovate faster. The IBM SPSS® software platform offers advanced statistical analysis, a vast library of machine-learning algorithms, text analysis, open-source extensibility, integration with big data and seamless deployment into applications. Origin is an industry-leading scientific graphing and data analysis software. Microsoft Excel is the industry leading spreadsheet program, a powerful data visualization and analysis tool. SigmaPlot is a software package for scientific graphing and statistical data analysis. SigmaStat provides a wide range of powerful yet easy-to-use statistical analyses designed to meet the needs of research scientists and engineers.


DATA REPOSITORIES : Registry of Research Data Repositories is a worldwide registry of research data repositories in multiple disciplines.  



Barcode of Life Data Systems Database of DNA barcodes



Dictionary of Substances & Their Effects (DOSE, 3rd Electronic Edition) 2005 edition. Comprehensive compilation of peer-reviewed health and environmental data on several thousand chemical substances. Includes biological, ecological and toxicological risks, hazards, and effects data and regulatory limits for the substances.  



Conference proceedings citation index. "Conference Proceedings Citation Index helps researchers access the published literature from ... conferences, symposia, seminars, colloquia, workshops, and conventions worldwide."



MathSciNet American Mathematical Society.




DNAMAN DNAMAN is a one-for-all software package for molecular biology applications. This package can perform restriction analyses, multiple sequence alignment, PCR primer design, protein sequence analysis, and plasmid drawing.
DNAStar DNASTAR’s Molecular Biology Suite is a comprehensive sequence analysis and alignment software for molecular biology research. The suite provides software solutions for DNA, RNA and protein editing and annotation, Sanger sequence assembly, multiple sequence alignment, virtual cloning, primer design and comprehensive sequence analysis.
SnapGene SnapGene offers a fast and easy way to plan, visualize, and document your everyday molecular biology procedures.
Vector NTI Vector NTI software is a completely integrated suite of sequence analysis and design tools that help you manage, view, analyze, transform, share, and publish diverse types of molecular biology data, all within one graphically rich analysis environment.
Web of science--all databases Web of Science All Databases indexes (formerly Thomson Reuters Web of Knowledge) indexes core journal articles, conference proceedings, data sets, and other resources in the sciences, social sciences, arts, and humanities.



Cell Profiler Extract quantitative measurements for multiple images
FIJI An extended version of ImageJ with various plugins
ImageJ A free software for image analysis
L-measure Quantitative morphologic measurement
Neurostudio Trace dendritic arbor of neurons


Google patents Comprehensive list of patents
Derwent innovations index The world's most comprehensive database of international patent information.



Protocol Exchange Open repository for sharing scientific research protocols. These protocols are posted directly on the Protocol Exchange by authors and are made freely available to the scientific community for use and comment.  
Springer Nature Experiments Platform connecting researchers with protocols and methods. JoVE creates the ultimate solutions for advancing research and science education by making and publishing videos of scientific experiments from the top laboratories around the globe. Cold Spring Harbor Protocols is an interdisciplinary journal providing a definitive source of research methods in cell, developmental and molecular biology, genetics, bioinformatics, protein science, computational biology, immunology, neuroscience and imaging. Bio-101 is an online database of life science protocols. Its mission is to make life science research more efficient and reproducible by curating and hosting high-quality, experimentally validated, freely accessible protocols. Protocol Online is a database of research protocols in a variety of life science fields. It contains protocols contributed by worldwide researchers as well as links to web protocols hosted by worldwide research labs, biotech companies, personal web sites.
Cold Spring Harbor protocols The database is fully searchable by keyword and subject.
Current protocols Current protocols in bioinformatics; Current protocols in cell biology; Current protocols in immunology; Current protocols in molecular biology; Current protocols in neuroscience; Current protocols in protein science.
JoVE. General. "General" section of the Journal of Visualized Experiments (JoVE), which is an online journal publishing visualized (video-based) biological research studies.
Nature Methods Nature Methods is a forum for the publication of novel methods and significant improvements to tried-and-tested basic research techniques in the life sciences.
Nature Protocols Nature Protocols is an online journal of laboratory protocols for bench researchers.
Springer Protocols Provides access to peer-reviewed biological and biomedical research protocols from the Methods in Molecular Biology, Methods in Molecular Medicine, Neuromethods, Methods in Pharmacology and Toxicology, and Methods in Biotechnology series.





Array Designer Array Designer is a microarray software that enables fast, efficient design of specific oligos for making whole genome arrays, tiling arrays and resequencing arrays.
GenScript Pcr Primer Design Genscript online PCR primer design tool for perfect PCR and sequencing primers design.
NCBI - Primer-BLAST NCBI’s Primer-BLAST tool is for designing PCR primers and checking them for specificity.
NIH primer design Design primers.
NIH primer design Primer blast.
ODIN primer design Primer blast.
PCR Primer Design Tool - Eurofins Genomics The PCR prime rdesgin tool analyses the entered DNA sequence and chooses the optimum PCR primer pairs.
PrimeBank-MGH-PGA Primer Bank is a public resource for PCR primers.
Primer Design Tool - Modern Software Transform Your R&D With Benchling's Cutting-Edge Primer Design Tool.
Primer Premier Primer Premier's search algorithm finds optimal PCR, multiplex and SNP genotyping primers with the most accurate melting temperature using the nearest neighbor algorithm.
Primer3Plus - Bioinformatics The regions of interest can be marked using targets. Returns a list of all possible primers the can be designed on the template sequence.
PrimerQuest Tool - Primer Design Design algorithm includes multiple checks to reduce primer-dimer formation.
Real Time PCR Primer Sets Database of validated primer sets for quantitative PCR.



Academic Accelerator

Journal Information

AccessScience Multimedia encyclopedia and dictionary covering all major scientific disciplines.  

ACM Digital Library

Citations, abstracts and some full-text of articles published by the Association for Computing Machinery

AGRICOLA Agriculture, animal sciences, horticulture, hydrology (1970-present).  
Agricultural & Environmental Science Database Extensive coverage of environmental science and related disciplines, and including scholarly journals, trade and industry journals, magazines, technical reports, conference proceedings, and government publications.  

Albert Einstein's Complete Papers

Archival access to all of the Albert Einstein's Complete Papers

Applied science & technology full text

Contains indexing and abstracts for nearly 800 core English-language, scientific and technical publications back to 1983.

Avery Index to architectural periodicals

The Avery Index to Architectural Periodicals database offers a comprehensive listing of journal articles on architecture and design, including bibliographic descriptions.

Best Free Reference Web Sites

An index of the web sites included in the 1999-present annual lists issued by the Mars Best of Free Reference Web Sites Committee of the American Library Association

Bibliography on cold regions science and technology

Bibliography includes references to scientific and engineering research related to material and operations in a winter battlefield, the nature and impact of cold on facilities and activities, cold-related environmental problems, and the impact of human activity on cold environments.

Biodiversity Heritage Library Books, journals, and other materials on biodiversity from a worldwide consortium of natural history, botanical, research, and national libraries. Provides free access to hundreds of thousands of volumes from the 15th to the 21st centuries.  
Biological & Agricultural Index Plus 1983-present. Agriculture, animal husbandry, botany, cytology, ecology, entomology, environmental science, fishery sciences, food science, forestry, genetics, horticulture, microbiology, plant pathology, soil science, veterinary medicine, zoology.  

Biological abstracts

An index with abstracts to periodicals in biology and the life sciences.
BioMed Central Open-access biomedical electronic journals. Articles are also immediately available on publication thru PubMed Central.  

BioMed Central

Free access to high impact journals published in BioMed Central


Collection of full-text, peer-reviewed research journals in biological, ecological and environmental sciences.


Pre-publication paper collection

BIOSIS Previews Comprehensive index to life sciences research literature. Covers journals (5000+), reports, meetings (1500+), reviews, and books in all areas of biology. Weekly email alerts available.

Book citation index. Science (BKCI-S)

The Book Citation Index is designed to enhance the powerful discovery and analysis capabilities of Web of Knowledge by incorporating comprehensive book citation data. Researchers can search for and identify the most relevant and esteemed literature along with peer-reviewed journals.

Botanicus (Missouri Botanical Garden Botanicus Collection) 1480-1950. Historic botanical literature from the Missouri Botanical Garden Library.  
Cambridge Scientific Abstracts Databases in several electronic formats as well as the traditional print journal. They are available through eleven different commercial online hosts and five CD-ROM vendors, while our web-based Internet Database Service (IDS) provides access not only to all of our databases but also to those of several other publishing partners.

Charles Darwin's Library

Archival access to all of the Charles Darwin papers and notes


CINAHL provides indexing for close to 3000 journals from the fields of nursing and allied health.


Scientific Literature Digital Library hosted by Penn State

Cold Spring Harbor monograph archive

Monographs in areas of molecular, cell, and developmental biology, genetics, evolutionary biology, neuroscience, cancer biology, and molecular pathology.

College & Research Libraries

An official publications of the Association of College & Research Libraries, a division of the American Library Association

Current contents connect

"Current Contents Connect is a current awareness database that provides easy Web access to complete tables of contents, abstracts, bibliographic information, and abstracts from the most recently published issues of leading scholarly journals.

Current index to statistics.

Contains cumulative bibliographic citations to statistical books and articles in more than 1,000 journals, with coverage generally extending back to 1974, earlier in some instances.

Darwin Correspondence Project

Archival access to all of the Charles Darwin letters

Data citation index

Indexes research data, including data studies and data sets, and links them to the scientific literature to track data citation.

Digital Public Library of America

America’s libraries, archives, and museums

Directory of Open Access Journals

Free, full text journals, mostly in the sciences

DOAJ (Directory Of Open Access Journals)

DOAJ is a community-curated online directory that indexes and provides access to high quality, open access, peer-reviewed journals.

Dryad Repository of data underlying scientific publications in the basic and applied biosciences
Encyclopedia of Life Sciences Provides 3000+ peer-reviewed articles, images, a glossary of terms, news, and some multimedia files on a wide variety of life sciences topics. Released 2001, continuously updated.  

Engineering village 2

Engineering Village 2 provides access to over 5 million abstracts from Compendex, full text research articles, patents, standards and handbooks, seamlessly.

Eric Weisstein's World of Science: A Wolfram Web Resource

Citation, abstracts, and some full text of unpublished and difficult-to-find technical reports from several different U.S. government agencies

Free databases

Free databases

FSTA Direct Published by IFIS Publishing, the FSTA. – Food Science and Technology Abstracts. database is the largest and most respected database in its field, covering all aspects of food science, food technology and food-related human nutrition. The entire FSTA. database is now available directly from IFIS Publishing for the first time in a web-searchable form as FSTA Direct..
Gale OneFile: Agriculture Nearly 200 titles focused on agriculture and its related fields: from practical aspects of farming to cutting edge scientific research in horticulture.  

Garden, landscape & horticultural index

"Garden, Landscape & Horticulture Index (GLHI) is the premier resource for access to articles about plants and gardens.

General science full text

General science full text features bibliographic indexes (coverage starting 1984), full text (starting 1995), plus graps, charts, diagrams, photos, and illustrations.

GigaDB Repository of large scale datasets underlying scientific publications in the biological and biomedical research

Handbook of paleoanthropology / Winfried Henke, Ian Tattersall (eds.)

"Comprehensive handbook that takes a multifaceted and multidisciplinary approach to palaeoanthropology

IEEE Xplore Digital Library

Provides web access to more than three-million full-text documents from some of the world's most highly cited publications in electrical engineering, computer science and electronics.

Immunology Abstracts

Summarizes studies relating to all aspects of immune systems in man and animals, in normal functions and disorders.


Free access to citations and abstracts to articles from over 20,000 journals in a variety of subject areas

IntechOpen IntechOpen offers peer-reviewed books to the academic and scientific community on an open-access platform.  

ION - Index of Organism Names

Index of organism’s names

ISI journal citation reports

JCR is a comprehensive, and unique resource tool for Journal Citation and Article Counts; Impact Factor; Immediacy Index; Cited Half-Life; Citing Half-Life; Source Data Listing, etc.


Provides image and full-text online access to back issues of selected scholarly journals in history, economics, political science, demography, mathematics and other fields of the humanities and social sciences.


MEDLINE (via EBSCOHost) is the U.S. National Library of Medicine® (NLM) premier bibliographic database that contains more than 22 million references to journal articles in life sciences with a concentration on biomedicine.


MEDLINE (via the National Library of Medicine) is the U.S. National Library of Medicine® (NLM) premier bibliographic database that contains more than 22 million references to journal articles in life sciences with a concentration on biomedicine.

MEDLINEplus: dictionaries

Presents an extensive selection of medical dictionaries, encyclopedias, glossaries, directories, and links to news and information regarding health topics and drug information for the general public.

National Academies Press

Download PDFs in education, science, and medicine

National Science Digital Library Education and research in science, technology, engineering, mathematics.  
Nature Journals Online Online access to the journal Nature and its sister publications in Biotechnology, Cell Biology, Genetics, Immunology, Medicine, Neuroscience, and Structural Biology. 1996-present (varies by title).  
NCBI (National Center for Biotechnology Information) Platform for biomedical and genomic databases.  
NCBI Bookshelf National Center for Biotechnology Information e-books.  

NCBI Bookshelf

A collection of biomedical books that can be searched directly by concept. National Center for Biotechnology Information.

Oceanic abstracts

An index to the worldwide technical literature pertaining to marine and brackish water environments.


Online, full-text handbooks covering topics in physics.


The Public Library of Science provides free access to the full-text of all of their highly rated journals

PLOS (Public Library of Science) Provides open-access peer-reviewed scientific and medical journal articles and journals.  

POPLINE / National Library of Medicine

Retired on September 1, 2019, the Popline database contained "more than 400,000 records" and "provided students and researchers worldwide with access to journal articles, reports, books, unpublished resources, and full-text documents to users in low- and middle-income countries."

ProQuest dissertations & theses global

Searchable and browsable database of dissertations and theses from around the world.

PubMed References and abstracts on life sciences and biomedical topics

PubMed / a service of the National Library of Medicine and the National Institutes of Health

Provides access to over 16 million citations from MEDLINE and other life science journals for biomedical articles back to the 1950s. Includes links to many sites providing full text articles and other related resources.

Science Daily

Major headlines in all science disciplines

Science Direct Science journals database.
Science Magazine Science publishing

Science Watch

Behind-the-scenes look at the scientists, journals, institutions, nations A gateway to government science information and research results. Searches over 55 scientific databases and 200 million pages of science information with just one query, and is a portal to over 2100 scientific Websites. [Free]

Over 55 databases and over 2100 selected websites from 13 federal agencies, offering 200 million pages of authoritative U.S. government science information

Scientific electronic library online : SciELO

An electronic virtual library of scholarly journals published in Latin America.

SciFinder Combined access to Chemical Abstracts CAPlus, Registry, CASREACT, CHEMLIST, CHEMCAT databases, and Medline.
SciFindern Next generation SciFinder interface that includes the latest datasets, search features, and mobile support.  


Provides indexing, abstracting of and citation linking to journals in biology ,physics, chemistry, geosciences, agriculture, medicine, business, social work, and the social sciences.

Statistical Sources

Statistical sources at Cornell University

Web of Science: Core Collection Access the world’s leading scholarly literature in the sciences, social sciences, arts, and humanities and examine proceedings of international conferences, symposia, seminars, colloquia, workshops, and conventions.


Worldwide catalog of over 100 million books

Zoological record

Bibliographical references from more than 6,000 international journals, review annuals, monographs, meeting proceedings, books and reports, representing research in all major areas of zoology, including: behavior, ecology, evolution, genetics, habitat, nutrition, parasitology, reproduction, taxonomy, zoogeography.





EndNote EndNote is a reference management software that not only frees you from the tedious work of manually collecting and curating your research materials and formatting bibliographies, but also gives you greater ease and control in coordinating with your colleagues.
Mendeley Mendeley is a free reference manager and academic social network that can help you organize your research, collaborate with others online, and discover the latest research.
NoteExpress NoteExpress is designed to help you organize research notes and bibliographic references, generate bibliographies automatically, and search and capture bibliographic data from Internet with efficiency and ease.



Blocks WWW Server A service for biological sequence analysis at the Fred Hutchinson Cancer Research Center in Seattle, Washington, USA.



WikiProfessional A web-based research environment for semantic searching, providing an intuitive tool for analyzing and relating concepts.



Web of Science: All Databases Provides cross-search of multiple Web of Science databases. The Global Science Gateway searches dozens of open access science databases.
Zoological Record Extensive coverage of the world's zoological and animal science literature, covering research from biochemistry to veterinary medicine.  
WolframAlpha Provides scientific information for questions



Blocks WWW Server A service for biological sequence analysis at the Fred Hutchinson Cancer Research Center in Seattle, Washington, USA.



RECODE The RECODE database is a compilation of ‘programmed’ translational recoding events taken from the scientific literature and personal communications. The database deals with programmed ribosomal frameshifting, codon redefinition and translational bypass occurring in a variety of organisms.
Recorder-2000 – The naturalists database Recorder-2000 – the main database used by recorders/naturalists/ecologists working to National Biodiversity Network (NBN) standards.


SOFTWARE ACD/ChemSketch Freeware is a drawing package that allows you to draw chemical structures including organics, organometallics, polymers, and Markush structures. It also includes features such as calculation of molecular properties (e.g., molecular weight, density, molar refractivity etc.), 2D and 3D structure cleaning and viewing, functionality for naming structures (fewer than 50 atoms and 3 rings), and prediction of logP. Adobe Illustrator is a vector graphics editor developed and marketed by Adobe Inc. Adobe Photoshop is an imaging and graphic design software developed and published by Adobe Inc. for macOS and Windows.
Edraw Max Edraw Max is a 2D business technical diagramming software which helps create flowcharts, organizational charts, mind map, network diagrams, floor plans, workflow diagrams, business charts, and engineering diagrams.
Image Pro Plus Image-Pro Plus image analysis software makes it easy to acquire images, count, measure and classify objects, and automate your work.
LYSANDRASOFT LYSANDRA – a software for creating keys and database on different groups of living organisms. By present day we finished completely creating the first key and catalogue on the beetles of the genus Cryptocephalus (Chrysomelidae, Coleoptera) for the Palearctic Region and here we propose the work on CD to your. On our site you can learn all about this work and if it will interest to you, you can order and acquire this work on CD.
Morpheus Converts microarray or qPCR results to heatmaps



DiProDB A database to collect and analyse thermodynamic, structural and other dinucleotide properties




Alexander Street Video Streaming videos and documentaries.  






Western Blotting Provides scientific information for Western Blotting




DDBJ DDBJ (DNA Data Bank of Japan) is the sole DNA data bank in Japan, which is officially certified to collect DNA sequences from researchers and to issue the internationally recognized accession number to data submitters. We collect data mainly from Japanese researchers, but of course accept data and issue the accession number to researchers in any other countries.



PolymiRTS A database of DNA variations in putative microRNA target sites



GSDB The Genome Sequence DataBase (GSDB) is a database of publicly available nucleotide sequences and their associated annotation maintained by NCGR. GSDB acquires most of its sequence data from the International Nucleotide Sequence Database Collaboration (IC, comprising DDBJ, EMBL, and GenBank databases) on a nightly basis. Each sequence record is parsed and stored in a relational database representation.
DNA Data Bank of Japan (National Institute of Genetics) DNA databank
EMBL (European Bioinformatics Institute) DNA databank

provides automatic annotation databases for human, mouse, other vertebrate and eukaryote genomes

Ensembl Genomes

provides genome-scale data for bacteria, protists, fungi, plants and invertebrate metazoa, through a unified set of interactive and programmatic interfaces (using the Ensembl software platform)

GenBank (National Center for Biotechnology Information) DNA databank

A direct-to-consumer genetic testing service in which customers provide a saliva sample that is laboratory analysed, using single nucleotide polymorphism genotyping.


A haplotype map (HapMap) of the human genome


Online Mendelian Inheritance in Man of inherited diseases


An open access, annotated and curated collection of publicly available nucleotide sequences (DNA, RNA) and their protein products.

1000 Genomes Project

The genomes of more than a thousand anonymous participants from a number of different ethnic groups were analyzed and made publicly available.

EggNOG Database

A hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses. It provides multiple sequence alignments and maximum-likelihood trees, as well as broad functional annotation.





Nucleosome positioning region database Nucleosome positioning



BIOEXPLORER The database of simple sequence repeats in the human genome
SSRD: A Simple Sequence Repeats Database of the Human Genome The database of simple sequence repeats in the human genome(SSRD), is a comprehensive resource for information about Simple Sequence Repeats in the human genome. The 501 SSRs, contained in SSRD, are divided into k-mer repeats, where k ranges from one to six, i.e. monomer repeats to hexamer repeats.



SNPedia Database of SNPs




Chromatin structure Structure of chromatin
Genome analysis Methods for analysis of genome
Epigenetic tools Databases of epigenetics
iMETHYL database Methylome data
Methbank database A database of DNA methylomes across a variety of species
Metbase database A database of DNA methylomes



MethBase Database of DNA methylation data visualized on the UCSC Genome Browser




AmiGO 2 AmiGO 2 is a project to create the next generation of AmiGO--the current official web-based set of tools for searching and browsing the Gene Ontology database
Assembly Converter Map (liftover) your data's coordinates to the current assembly.
BioGPS BioGPS is a gene portal built with two guiding principles in mind -- customizability and extensibility
Biolinks A subdivision of This site contains a comprehensive list of genetic related database links.
BioMart Use this data-mining tool to export custom datasets from Ensembl.
BLAST/BLAT Search our genomes for your DNA or protein sequence.
Data Slicer Get a subset of data from a BAM or VCF file.
DECIPHER DECIPHER (DatabasE of genomiC varIation and Phenotype in Humans using Ensembl Resources) is an interactive web-based database which incorporates a suite of tools designed to aid the interpretation of genomic variants
Ensembl DNA sequences and assemblies 
File Chameleon Convert Ensembl files for use with other analysis tools
Gene Wiki Describe the relationships and functions of all human genes.
GTR® Genetic Testing Registry (GTR®) provides a central location for voluntary submission of genetic test information by providers
HGNC Gene nomenclature
ID History Converter Convert a set of Ensembl IDs from a previous release into their current equivalents.
Linkage Disequilibrium Calculator Calculate LD between variants using genotypes from a selected population.
Monarch An integrative data and analytic platform connecting phenotypes to genotypes across species, bridging basic and applied research with semantics-based analysis
NDEx query Examine gene(s) for their properties, relevant pathways (curated and experimentally derived), protein interactions (PPI network), gene associations (including drugs, disease and gene association networks), pathway figures (node only networks) and INDRAgo (machine curated pathways)
OMIM OMIM is a comprehensive, authoritative compendium of human genes and genetic phenotypes
Post-GWAS Upload GWAS summary statistics and highlight likely causal gene candidates.
TiGER Genes
Variant Effect Predictor
Analyse your own variants and predict the functional consequences of known and unknown variants via our Variant Effect Predictor (VEP) tool.
Variant Recoder Translate a variant identifier, HGVS notation or genomic SPDI notation to all possible variant IDs, HGVS, VCF format and genomic SPDI.
VCF to PED converter Parse a vcf file to create a linkage pedigree file (ped) and a marker information file, which together may be loaded into ld visualization tools like Haploview.
WikiProfessional Gene Wiki



Gene Disease Database A database of diseased genes



CTD (Comparative Toxicogenomics Database) Describes chemical-gene-disease interactions



Biolinks A subdivision of This site contains a comprehensive list of genetic related database links.



HGNC a resource for approved human gene nomenclature
International Human Epigenome Consortium Integrates epigenomic reference data from well-known national endeavors such as the Canadian CEEHRC, European Blueprint, European Genome-phenome Archive (EGA), US ENCODE and NIH Roadmap, German DEEP, Japanese CREST, Korean KNIH, Singapore's GIS and China's EpiHK



GeneCards A database of human genes, proteins and diseases



EPD Eukaryotic Promoter Database A database of eukaroytic promoters



Housekeeping and Reference Transcript Atlas (HRT Atlas) Web-based tool for searching cell specific candidate reference genes/transcripts suitable for qPCR experiment normalization. HRT Atlas also describes a complete list of human and mouse housekeeping genes and transcripts




Coffee genomics

CoffeeDNA is a public domain database for coffee genomics comprising comprehensive information on coffee germplasm, Coffea specific Microsatellites, Transposons, SNPs, Expressed Sequence Tag sequences and Gene profiling




1000 Genomes Project The genomes of more than a thousand anonymous participants from a number of different ethnic groups were analyzed and made publicly available.
23andMe's database Database
DNA Data Bank of Japan National Institute of Genetics
EMBL European Bioinformatics Institute
Ensembl Provides automatic annotation databases for human, mouse, other vertebrate and eukaryote genomes
Ensembl Genomes Provides genome-scale data for bacteria, protists, fungi, plants and invertebrate metazoa, through a unified set of interactive and programmatic interfaces (using the Ensembl software platform)
GenBank National Center for Biotechnology Information
HapMap A haplotype map (HapMap) of the human genome
RefSeq An open access, annotated and curated collection of publicly available nucleotide sequences (DNA, RNA) and their protein products.



Bioinformatic Harvester Bioinformatic database
ArrayExpress Archive of functional genomics data; stores data from high-throughput functional genomics experiments from EMBL
Personal Genome Project Human genomes of 100,000 volunteers from around the world
Gene Expression Omnibus (GEO) A public functional genomics data repository from the U.S. National Cancer Institute (NCI), which supports array- and sequence-based data. Tools for querying and downloading gene expression profiles are provided.
Chromatin structure Structure of chromatin
Genome analysis Methods for analysis of genome



The Unified Database An integrated Human Genome mapping database.




Antibodies MSRS Primary Antibody Database – lists 125,000+ primary antibodies from 600+ companies worldwide. Each search lists all the antibodies found according to criteria and are sortable in 10 fields including: antibody, host, antigen species, label, form, clone number, isotype, unit, product number and company. The database is regularly update and we accept antibody listings from companies, laboratories, and individuals without any charge.



IMGT server IMGT is a database specializing in Immunoglobulins (Ig), T cell receptors (TcR) and Major Histocompatibility Complex (MHC) molecules of all vertebrate species, created in 1989 by Marie-Paule Lefranc.



Russian Immunology This searchable Web Site was created in 2001 by Russian Journal of Immunology in collaboration with Russian Society of Immunology. The “Russian Immunology” contains information about immunological societies and journals, regional Russian institutes and laboratories, as well as constantly updated list of conferences and courses in immunology and adjacent fields.



MHCPEP MHCPEP is a database comprising over 13000 peptide sequences known to bind MHC molecules. Entries were compiled from published reports as well as from direct submissions of experimental data. Each entry contains the peptide sequence, its MHC specificity and, when available, experimental method, observed activity, binding affinity, source protein, anchor positions, and publication references.



Russian Immunology This searchable Web Site was created in 2001 by Russian Journal of Immunology in collaboration with Russian Society of Immunology. The “Russian Immunology” contains information about immunological societies and journals, regional Russian institutes and laboratories, as well as constantly updated list of conferences and courses in immunology and adjacent fields.




ProQuest aquatic science collection A resource for researchers studying conservation, aquatic pollution, environmental quality, oceanography, policy and legislation, and more.
ProQuest atmospheric science collection This collection includes the Meteorological & Geoastrophysical Abstracts database, full-text ProQuest Atmospheric Science Journals, and deep indexing to uncover hidden data.
Water resources abstracts Provides citations and abstracts to the technical and scientific literature on water-related topics.
WATERnetBASE Comprehensive multidiscipline resource providing access to reference works on drinking water, ground water, hydrogeology, hydrology, storm water, surface water, waste water, water pollution and wetlands. Also includes the current edition of Water encyclopedia.



Anatomage TableOnCloud Interactive Anatomy Software Virtual anatomy dissection software.  


Anthropology Index Online An index to anthropological journals.
Anthropology online This site provides the largest, most comprehensive resource for the study of human culture and behavior.
AnthropologyPlus . Anthropology Plus combines Anthropological Literature.
AnthroSource / a service of the American Anthropological Association in partnership with University of California Press. Current issues of American Anthropological Association's journals and bulletins.



Environment abstracts Allows users to search abstracts of thousands of journal articles and conference papers and link to selected full text.
Environment complete "Environment Complete offers deep coverage in applicable areas of agriculture, ecosystem ecology, energy, renewable energy sources, natural resources, marine & freshwater science, geography, pollution & waste management, environmental technology, and environmental law.
ENVIROnetBASE Provides access to environmental handbooks published by CRC Press.
Environmental & Ecology Databases on EBSCOhost Collection of three major environmental collections.  
GeoRef Indexes references and selected abstracts to the world's literature in geology, including journal articles, books, maps, conference papers, reports, theses, and references to all publications of the U.S. Geological Survey.
GreenFILE "GreenFILE offers well-researched but accessible information covering all aspects of human impact on the environment.
Sustainability science abstracts "The Sustainability database explores the management of human use and conservation of the natural resource base, ensuring the attainment and continued satisfaction of human needs in the present as well as maintaining the potential to meet the needs and aspirations of future generations.


GeoRef Indexes references and selected abstracts to the world's literature in geology.
GeoScienceWorld Serves as a comprehensive resource for research and communications in the geological and earth sciences.


WHO (World Health Organization) United Nations information on health topics.
ASFA The ASFA series is the premier reference in the field of aquatic resources.


Health, United States Health, United States is an annual report on trends in health statistics.


History of science, technology, and medicine History of science and technology and allied historical fields.


Ethnographic video online and anthropology online Intended to be a visual encyclopedia of human behavior and culture, online in streaming video.



FINDbase The Frequency of INherited Disorders database


CDC (Centers for Disease Control) The U.S. government's Infectious Diseases Center Page, with information, news releases and links to bioterrorism and emergency preparedness resources.
Center for Biosecurity-UPMC This is a premier source for bioterrorism and biodefense links and information.



UCSC Malaria Genome Browser Genome of malaria causing species (Plasmodium falciparum and others)



Medical Equipment directory world-wide Index and directory medical equipment, biotechnology, biochemistry and pharmaceutical industry world-wide


Internet Pathology Laboratory for Medical Education The WebPath® educational resource contains over 2700 images with text that illustrate gross and microscopic pathologic findings along with radiologic imaging associated with human disease conditions.


AccessMedicine Access Medicine from McGraw-Hill Medical is a comprehensive online medical resource that provides a complete spectrum of knowledge from the best minds in medicine, with essential information accessible anywhere.





OMIM (Online Mendelian Inheritance in Man): inherited diseases Online Mendelian Inheritance in Man of inherited diseases



Neuroimaging Informatics Tools and Resources Clearinghouse Neuroimaging


ORGANISMS Navigate the universe of biological entities



EggNOG Database A hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses. It provides multiple sequence alignments and maximum-likelihood trees, as well as broad functional annotation.



PHI-base Pathogen-host interaction database. It links gene information to phenotypic information from microbial pathogens on their hosts. Information is manually curated from peer reviewed literature.



TOXLINE Covers journal articles, monographs, technical reports, theses, and other literature in all areas of toxicology, including chemicals and pharmaceuticals, pesticides, environmental pollutants, and mutagens and teratogens. Covers 1999-present.  
TOXNET Toxicology data, citations and abstracts for the toxicology literature, Toxic Release Information and chemical information.  
United States Pharmacopeia: The National Formulary Compendium of drug information for the United States published annually by the United States Pharmacopeial Convention.   





Mega MEGA is an integrated tool for conducting automatic and manual sequence alignment, inferring phylogenetic trees, mining web-based databases, estimating rates of molecular evolution, and testing evolutionary hypotheses.
TREE-PUZZLE TREE-PUZZLE is a computer program to reconstruct phylogenetic trees from molecular sequence data by maximum likelihood.
FigTree FigTree is designed as a graphical viewer of phylogenetic trees and as a program for producing publication-ready figures.
DNASTAR - MegAlign MegAlign is DNASTAR’s software application providing both DNA and protein sequence alignment using a range of pairwise sequence alignment and multiple alignment methods. Use bootstrapping to test for consistency and robustness of phylogenetic trees created using one of the Clustal methods.



International Plant Names Index - IPNI Database of the names and associated basic bibliographical details of all seed plants.  
AGRICOLA Agricultural engineering and marketing, animal breeding, entomology, environmental pollution, farm mangagement, foods and feeds, pesticides, rural sociology, social sciences, veterinary medicine, and water resources.




The Cancer Imaging Archive (TCIA) Radiology archives
Neuroimaging Informatics Tools and Resources Clearinghouse Radiology resources and clearinghouse





Specimens Gross and microscopic images of pathology specimens. All should have Creative Commons Attribution (CC-BY) licenses.  



TOXNET toxicology data network / National Library of Medicine.



Visible Body Visible Body is an interactive visual database of the human body, with thousands of 3D models, animations, CTI & MRI scans, definitions, pronunciations, and more. Instructors can use Courseware for assignments and tracking students' progress.  




Cytokine Family Database The Cytokine Family Database (dbCFC) is a collection of EST (Expressed Sequence Tag) records of cytokines deposited in the NCBI GenBank. It provides information about the identification of EST records to cytokine members and related data contained in other databases.



DOMO DOMO is a database of homologous protein domain families. It was obtained from successive sequence analysis steps including similarity search, domain delineation, multiple sequence alignment and motif construction. 83054 non redundant protein sequences from SWISSPROT and PIR have been analysed yielding a database of 99058 domains clustered into 8877 multiple sequence alignments.



A Library of Protein Family Cores Structural alignments of protein families and computed average core structures for each family. The core structures can be divided into residues with low spatial variation and those with high spatial variation. Amino acids with low spatial variance occupy essentially the same relative position in all family members. This library is useful for building models, threading, and exploratory analysis. It is also a useful mechanism for summarizing variability in NMR structures.
Assembly Converter Map (liftover) your data's coordinates to the current assembly
BioGPS BioGPS is a gene portal built with two guiding principles in mind - customizability and extensibility.
CATH Protein Structure Classification database
CiteAb CiteAb’s antibody and biochemical search engine provides a simple way for researchers to find reagents that work.
Data Slicer Get a subset of data from a BAM or VCF file
Database of Interacting Proteins Univ. of California
Interact An Object Oriented Database for Protein-Protein Interactions.
DisProt Database of experimental evidences of disorder in proteins (Indiana University School of MedicineTemple UniversityUniversity of Padua)
ExPASy Molecular Biology Server This is the ExPASy proteomics server of the Swiss Institute of Bioinformatics (SIB). This server is dedicated to the analysis of protein sequences and structures as well as 2-D PAGE.
File Chameleon Convert Ensembl files for use with other analysis tools This website is intended to become a “one-stop shop” portal to pharmacological information. The searchable database provides quantitative information on drug targets and the prescription medicines and experimental drugs that act on them. It aims to offer accurate information on the basic science underlying drug action.
ID History Converter Convert a set of Ensembl IDs from a previous release into their current equivalents
InterPro InterPro provides functional analysis of proteins by classifying them into families and predicting domains and important sites.
Linkage Disequilibrium Calculator Calculate LD between variants using genotypes from a selected population LOCATE is a curated database that houses data describing the membrane organization and subcellular localization of proteins from the RIKEN FANTOM4 mouse and human protein sequence set. Protein complexes are key molecular entities that integrate multiple gene products to perform cellular functions. The CORUM database is a collection of experimentally verified mammalian protein complexes.
MobiDB Database of intrinsic protein disorder annotation (University of Padua)
ModBase Database of comparative protein structure models (Sali Lab, UCSF)
NCBI Protein sequence and knowledgebase (National Center for Biotechnology Information)
neXtProt A human protein-centric knowledge resource
PaxDB PaxDB is a comprehensive absolute protein abundance database, which contains whole genome protein abundance information across organisms and tissues.
Pfam Protein families database of alignments and HMMs (Sanger Institute)
PIR – Protein Information Resource The Protein Information Resource (PIR), in collaboration with the Munich Information Center for Protein Sequences(MIPS) and the Japanese International Protein Sequence Database (JIPID) maintains the PIR-International Protein Sequence Database – a comprehensive, annotated, and non-redundant set of protein sequence databases in which entries are classified into family groups and alignments of each group are available.
PIR-NREF The PIR-NREF is a Non-redundant REFerence protein database designed to provide a timely and comprehensive collection of all protein sequence data, keeping pace with the genome sequencing projects and containing source attribution and minimal redundancy.
PMD The Protein Mutant Database (PMD) covers natural as well as artificial mutants, including random and site-directed ones, for all proteins except members of the globin and immunoglobulin families. The PMD is based on literature, not on proteins. That is, each entry in the database corresponds to one article which may describe one, several or a number of protein mutants.
PRINTS A compendium of protein fingerprints from (Manchester University)
ProDom The Protein Domain database.
PROSITE PROSITE is a database of protein families and domains. It consists of biologically significant sites, patterns and profiles that help to reliably identify to which known protein family (if any) a new sequence belongs.
Protein Data Bank Worldwide repository for the processing and distribution of 3-D biological macromolecular structure data.  
Protein Data Bank (PDB) Protein database
Protein Databases Proteins, also known as the essential building blocks of a human body are a vital part of living organisms. Studies regarding the structure and...
Protein Information Resource Georgetown University Medical Center [GUMC])
Retrieve/ID mapping Batch search with UniProt IDs or convert them to another type of database ID (or vice versa)
Structural Classification of Proteins (SCOP) Structural classification
Swiss-model Server and repository for protein structure models
Swiss-Prot Protein knowledgebase (Swiss Institute of Bioinformatics)
Text Search Search by the name of protein BioGRID is an interaction repository with data compiled through comprehensive curation efforts. The index searches publications for protein and genetic interactions, chemical associations and post translational modifications from major model organism species.
UniProt The mission of UniProt is to provide the scientific community with a comprehensive, high-quality and freely accessible resource of protein sequence and functional information. Users can enter gene or protein identifiers from different organisms to obtain physical and regulatory interaction partners in the human interactome.
Uniprot UniProt Knowledgebase
UniprotKB UniProt Knowledgebase
UnifRef Provides clustered sets of sequences
UniParc A comprehensive and non-redundant database of publicly available protein sequences
Variant Effect Predictor
Analyse your own variants and predict the functional consequences of known and unknown variants via our Variant Effect Predictor (VEP) tool
Variant Recoder Translate a variant identifier, HGVS notation or genomic SPDI notation to all possible variant IDs, HGVS, VCF format and genomic SPDI
VCF to PED converter Parse a vcf file to create a linkage pedigree file (ped) and a marker information file, which together may be loaded into ld visualization tools like Haploview Since 1971, the Protein Data Bank archive (PDB) has served as the single repository of information about the 3D structures of proteins, nucleic acids, and complex assemblies.





Human protein atlas A public database with expression profiles of human protein coding genes both on mRNA and protein level in tissues, cells, subcellular compartments, and cancer tumors. The Human Protein Atlas aims to map all the human proteins in cells, tissues and organs using integration of various omics technologies, including antibody-based imaging, mass spectrometry-based proteomics, transcriptomics and systems biology.
Human Protein Atlas: aims at mapping all the human proteins in cells, tissues and organs Aims at mapping all the human proteins in cells, tissues and organs



Crystal TB Crystal T.B. is a database containing information on Protein Crystallization Conditions, which was carefully selected by experts in this field. The database greatly helps researchers in setting conditions for protein crystallization, by comparing information found in the database, thus contributing to reducing the time to analyze protein structures.



Protein Domains Proteomics is known as the study of protein structures and these structural units are distinguished as protein domains. The overall functional role of a...
CDD A Conserved Domain Database and Search Service.



Cytoscape Protein-protein and Protein-DNA interactions
NDEx Protein-protein and Protein-DNA interactions
String Protein-protein interaction networks, functional enrichment analysis



Similarity Matrix of Proteins (SIMAP) Database of protein similarities computed using FASTA



Proteomes Set of proteins thought to be expressed by an organism



Minimotif Miner Database of short contiguous functional peptide motifs



PolyQ Database of polyglutamine repeats in disease and non-disease associated proteins



MIPS Munich Information Centre for Proteins Sequences (Germany).



Interact An Object Oriented Database for Protein-Protein Interactions.



Human Protein Atlas (HPA) A public database with expression profiles of human protein coding genes both on mRNA and protein level in tissues, cells, subcellular compartments, and cancer tumors.




ArrayExpress at EBI Any curated MIAME or MINSEQE compliant transcriptomics data
ArrayTrack ArrayTrack hosts both public and private data, including MAQC benchmark data, with integrated analysis tools
caArray at NCI Cancer data, prepared for analysis on caBIG
EBI ArrayExpress
Gene Expression Omnibus (GEO) Any curated MIAME compliant molecular abundance study
GeneNetwork system Open access standard arrays, exons arrays, and RNA-seq data for genetic analysis (eQTL studies) with analysis suite
Genevestigator Gene expression search engine based on manually curated, well annotated public and proprietary microarray and RNA-seq datasets
ImmGen database Open access across all immune system cells; expression data, differential expression, coregulated clusters, regulation
MUSC database The database is a repository for DNA microarray data generated by MUSC investigators as well as researchers in the global research community.
NCI mAdb Hosts NCI data with integrated analysis and statistics tools
NextBio Microarrays analysis
Stanford Microarray database private and published microarray and molecule abundance database (now defunct)
The Cancer Genome Atlas (TCGA) collection of expression data for different cancers
UNC Microarray database provides the service for microarray data storage, retrieval, analysis, and visualization
UNC modENCODE Microarray database Nimblegen customer 2.1 million array
UPenn RAD database MIAME compliant public and private studies, associated with ArrayExpress
UPSC-BASE data generated by microarray analysis within Umeå Plant Science Centre (UPSC).



miRBase The microRNA database
PolymiRTS A database of DNA variations in putative microRNA target sites



ncRNA Noncoding RNAs Database.



Database of RNA-binding Protein Specificities This University of Toronto site page provides a database of RNA-binding protein specificities where you can browse by domain such as RNA Recognition Motif, K Homology, CCCH Zinc Finger and more. Also you can browse by species such as Homo Sapiens, Mus Musculus, Drosophila Melanogaster and Caenorhabditis Elegans.
Extracellular RNA Atlas - GenboreeKB Extracellular RNA Atlas
ExtracellularRNA datasets Extracellular RNA dataset
ExtracellularRNA snapshot Extracellular RNA snapshot
NAR Database Summary Paper Category List Oxford Journals site contains a list of excellent collections of Nucleotide sequence databases, RNA sequence databases, Protein sequence databases, Structure databases, Genomics databases, Metabolic and signaling pathways, Human & other vertebrate genomes, Human genes and diseases, Microarray data & gene expression databases, Protemics resources, Molecular biology databases, Organelle databases, plant databases, Immunological databases and cell biology.
Noncoding RNA Database v2.0 site has a searchable database which provides comprehensive annotations of eukaryotic long non-coding RNAs (lncRNAs). All entries are manually curated from referenced literature and each entry contains references information about the RNA including: Nucleotide sequences, Genomic context, Gene expression data derived from the Illumina Body Atlas, Structural information, Subcellular localization, Conservation, Function with referenced literature.
RNA Databases RNA stands for Ribonucleic acid. The RNA is a polymeric molecule which when teamed with proteins and carbohydrates are considered as three essential macromolecules...
RNA STRAND This site contains known RNA secondary structures of any type and organism. The ultimate goal of this database is to incorporate a comprehensive collection of known RNA secondary structures, and to provide the scientific community with simple yet powerful ways of analyzing, searching and updating the proposed database.
RNABase RNABase is an annotated database of all publicly available RNA structures.
RNA-binding protein database RNA-binding protein database
RNAcentral is a new resource that provides unified access to the ncRNA sequence data supplied by the Expert Databases.
The RNA Modification Database The RNA modification database provides a comprehensive listing of post transcriptionally modified nucleosides from RNA.



rRNA database The European ribosomal RNA database.
Ribosomal Database Project II The Ribosomal Database Project (RDP) provides ribosome related data services to the scientific community, including online data analysis, rRNA derived phylogenetic trees, and aligned and annotated rRNA sequences.
5S ribosomal RNA Database The purpose of this database is to provide information on nucleotide sequences of 5S rRNAs and their genes. The sequences for particular organisms can be retrieved as single files using a taxonomic browser or in multiple sequence structural alignments.



siRNA Database Database of siRNA target sequences and other resources for RNA interference studies.


Small RNA

Small RNA database Small RNAs are broadly defined as the RNAs not directly involved in protein synthesis. Small RNAs are usually in the 75-400 nucleotides range, although some are as long as thousand base pairs. They are synthesized by either RNA Polymerase I, II or III. The sequences reported here are based on actual sequence determinations and not on the basis of oligonucleotide catalogs.



AARS DataBase Aminoacyl-tRNA Synthetase Data Bank.
GtRDB: The Genomic tRNA Database This genomic tRNA database contains tRNA identifications made by the program tRNAscan-SE on complete or nearly complete genomes.



The uRNA Database The uRNADB is a tool in the study of the structures and functions of various U RNAs. It provides aligned, annotated and phylogenetically ordered sequences. The alignments of the sequences represent conserved secondary structure elements where each base pair is proven by comparative sequence analysis.





Encyclopedia of Life Open-access resource of detailed information about species of organisms.  
Catalogue of Life A meta-database of all species on earth




Arabidopsis thaliana database

The Arabidopsis thaliana Database (AtDB) Project provides genomic and related data about Arabidopsis.




SubtiWiki Integrated database for the model bacterium Bacillus subtilis[4]



FlyBase FlyBase is a comprehensive database for information on the genetics and molecular biology of Drosophila. It includes data from the Drosophila Genome Projects and data curated from the literature.



Birds of the World Online database of over 10,000 bird species globally.  




Personal Genome Project Human genomes of 100,000 volunteers from around the world




Legume Information System (LIS) Genomic database for the legume family




Edinburgh Mouse Atlas Mouse gene expression data




Model Organism Databases A database of model organisms




Superfamily Library of HMMs representing superfamilies and database of (superfamily and family) annotations for all completely sequenced organisms


Parasites - Centers for Disease Control & Prevention Introduction to medically important parasites.




PHI-base Pathogen-host interaction database. It links gene information to phenotypic information from microbial pathogens on their hosts. Information is manually curated from peer reviewed literature.



All the world's primates All the World's Primates is the comprehensive and authoritative resource.



EzTaxon-e Database for the identification of prokaryotes based on 16S ribosomal RNA gene sequences



RGD Rat Genome Database Genomic and phenotype data for Rattus norvegicus




Saccharomyces Genome Database genome of the yeast model organism
SCPD The Promoter Database of Saccharomyces cerevisiae.

Schizosaccharomyces pombe


Schizosaccharomyces pombe manually curated phenotypic data for the yeast




SoyBase Database (SoyBase) USDA soybean genetics and genomic database (Soybean)



Virus database on-line (ICTVdB) ICTVdB provides access to the ICTV (International Committee on Taxonomy of Viruses), the Index Virum, a catalogue of all ICTV approved virus names, the universal virus database containg the descriptions of viruses and to an picture gallery of viruses. All databses have links to other prominent websites available around the world which are devoted to information about viruses, along with short, clear descriptions of each of them.




Caenorhabditis elegans C elegans genome
Wormbase Genome of the model organism Caenorhabditis elegans and WormBase ParaSite for parasitic species




Xenbase Genome of the model organism Xenopus tropicalis and Xenopus laevis




PomBase Manually curated phenotypic data for the yeast Schizosaccharomyces pombe



Zebrafish Information Network Genome of this fish model organism



Transcription factor knockout


ATACdb: a comprehensive human chromatin accessibility database


ENdb: an experimentally supported enhancer database for human and mouse


A comprehensive human gene expression profile database with TF knockdown/knockout (KnockTF), which provides a large number of available resources of human gene expression profile datasets associated with TF knockdown/knockout and annotates TFs and their target genes in a tissue/cell type-specific manner.


LncSEA: a comprehensive human lncRNA sets resource and enrichment analysis platform.


SEanalysis: a web tool for super-enhancer associated regulatory analysis


SEdb: the comprehensive human Super-Enhancer database


Users can obtain the number of datasets per knock-method


Users can submit a gene list to extract a transcriptional regulatory subnetwork.
This subnetwork consists of the submitted genes and their one-step neighbors within TF-differentially expressed gene network.


Users can submit a gene list and set (FDR adjusted) P-value to perform TF enrichment.


TRCirc: a resource for transcriptional regulation information of circRNAs


TRlnc: a comprehensive database of human transcriptional regulation of lncRNAs


VARAdb: a variation annotation database for human