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Best Practices for Reporting Preclinical Studies

Accelerating Biomedical Discoveries through Rigor and Transparency - NIH proposes to enhance reproducibility throught rigor and transparency.

Literature Supporting Reproducibility – Articles supporting the need for transparency, reproducibility, and translation in preclinical efficacy 

ARRIVE Guidelines  – Intended to improve the reporting of research using animals

Center for Open Science, Transparency and Openness Promotion (TOP) Guidelines   - Published in Science in 2015, TOP includes eight modular standards, each with three levels of increasing stringency

Cost of Reproducibility - View on ways early-career researchers can adopt practices to improve reproducibility while achieving career goals and providing better science.

Experimental Design Assistant - Helps researchers improve the design of animal experiments.

Nature Editorial: Journals Unite for Reproducibility  – Consensus on reporting principles

NIH Grants: Policy & Compliance - Resources for Preparing Your Application - Demonstrate rigor in your application by using tools such as the experiemental design assistant, sample size and authentication guides.

NIH Principles and Guideline for Reporting Preclinical Research  – Consensus on reporting principles

Rigor or mortis: best practices for preclinical research in neuroscience - Implications of best practices


Animal Models

AlzForum – Research Models  – Information about mouse models of Alzheimer’s disease, Amyotrophic Lateral Sclerosis, and related neurodegenerative diseases

Alzheimer's Disease Mouse Model Resource  - Jackson Laboratory Repository

Charles River Alzheimer’s Disease Model  - CVN and Tg2576 mouse models

MODEL-AD  - Model Organism Development and Evaluation for Late-Onset Alzheimer’s Disease

MouseBytes - Open access database for mouse cognition, imaging and genomics data integration

Mouse Genome Informatics  - Resource for laboratory mouse, providing integrated genetic, genomic, and biological data

Mouse Models of Alzheimer's Disease - List of Mouse Genome Database Models, The Jackson Laboratory

Search for JAX® Mice  - Targeted mutation strains

The Jackson Laboratory: Mouse Phenome Database  - Collection of measured data on laboratory mouse strains and populations


Therapeutic Agents & Targets

AMP-AD Target Discovery and Preclinical Validation Project  - Integrates data from human brain samples with network modeling approaches and experimental validation for rapid sharing of data

STOP-AD - Offers preclinical screening of compounds through the MODEL-AD Preclinical Testing Core (Slide Deck)

AlzForum Therapeutics - Catalog of the therapeutics currently or previously tested as treatment for Alzheimer's disease and related disorders

Open Targets  - Information on the relationships between potential drug targets and diseases, using various data types, showing workflows, and related information on the target or disease

Pharos Targets - Data on protein targets, small molecule activity, genomic behavior and disease links from  the University of New Mexico, School of Medicine, Target Central Resource Database



ADNI | Alzheimer's Disease Neuroimaging Initiative  - Unites researchers with study data as they work to define the progression of Alzheimer’s disease

Alzheimer's Biomarkers in Down Syndrome - Initiative to track dementia onset, and progress within Down synrome volunteers

Connectivity Map (also known as cmap) - a collection of genome-wide transcriptional expression data from cultured human cells treated with bioactive small molecules and simple pattern-matching algorithms that together enable the discovery of functional connections between drugs, genes and diseases

NIH/NIA/Accelerating Medicines Partnership – Biomarkers Project  - Consortium of three NIA-supported Phase II/III secondary prevention trials testing several anti-amyloid therapies



Espacenet  – Contains data on more than 90 million patent documents

Free Patents Online  – Patent information including Drugs

Google Patents  – Full text of patents from around the world

The Lens  – Patents that cite specific authors in the scientific literature

United States Patent and Trademark Office  – Department of Commerce, database of patents, patent applications, and other patent documents


Medicinal Chemistry & Pharmacology

ChEMBL - Open large-scale bioactivity database, which offers tracking of compounds in various stages, via the European Bioinformatics Institute

ChemSpider - A database of chemicals owned by the Royal Society of Chemistry

Drug Bank  – A bioinformatics and cheminformatics resource that combines detailed drug data with comprehensive drug target information

Open PHACTS Explorer - Answers critical pharmacology questions defined by eight major pharmaceutical companies

PubChem Compound  – Contains validated chemical depiction information provided to describe substances


Clinical Trials

Alzheimer’s Disease Clinical Trials from Center Watch  - A listing of Alzheimer's Disease medical research trials actively recruiting patient volunteers

Alzheimer’s Disease Cooperative Study (ADCS)  - Develops and tests new interventions and treatments for Alzheimer’s disease that might not otherwise be developed by industry  - Clinical studies on a wide range of diseases and conditions

Webinar Transcript: Draft Guidance For Industry On Alzheimer’s Disease: Developing Drugs For The Treatment Of Early Stage Disease  – Transcript for FDA Webinar


Data Resources & Data Repositories

Academic Drug Discovery Consortium  – Central repository of drug discovery centers, partnerships, job opportunities and events

ADNI | Alzheimer's Disease Neuroimaging Initiative  - Unites researchers with study data as they work to define the progression of Alzheimer’s disease

ALZGENE  – Field synopsis of genetic association studies in AD

Agora - Discover Alzheimer's Disease Genes - (BETA) Designed to aggregate evidence in support of AD target discovery

Alzheimer's Disease Genetics Consortium (ADGC)  – Research to identify genes associated with an increased risk of developing late-onset Alzheimer’s disease

Alzheimer’s Disease Sequencing Project (ADSP) - Large scale sequencing project to identify AD risk and protective gene variants

AMP-AD Knowledge Portal  - Accelerating Medicine Partnership for Alzheimer's Disease Target Discovery and Preclinical Validation Project

Comparative Toxicogenomics Database   - Database that aims to advance understanding about how environmental exposures affect human health

Gene Ontology Consortium  - Computational model of biological systems, from the molecular level to larger pathways, cellular and organism-level systems

KEGG Pathway Database  - Wiring diagrams of molecular interactions, reactions, and relations

International Alzheimer’s Disease Research Portfolio (IADRP)  - Brings together funded research supported by public and private organizations both in the US and abroad

National Cell Repository for Alzheimer’s Disease  – Helps researchers find genes that increase the risk for Alzheimer’s disease (AD) and dementia

PhenX Toolkit  - Catalog of recommended, standard measures of phenotypes and environmental exposures for use in biomedical research

The NIA Genetics of Alzheimer’s Disease Data Storage (NIAGADS) Site  - Data from genomic studies of late-onset Alzheimer’s disease, available to qualified investigators

The National Alzheimer's Coordinating Center  – A large relational database of standardized clinical and neuropathological research data


Literature Indexes

PubMed  – Citations to life science and biomedical literature

EMBASE [Subscription needed]  – Biomedical literature database

FDA Resources on Drugs and Devices  – Resources on drugs and devices


Text Mining Resources

OntoMate  – A text mining tool aiding curation at the Rat Genome Database

PhenoMiner  – Text-data mining of phenotype relations from biomedical literatures

PubTator  - Web-based tool for accelerating manual literature curation