SmedGD was a web resource 15 years. It hosted the Schmidtea mediterranea genome assemblies and data. This resource has been retired. There is a new home for the SmedSxl v3.1 genome assembly on SIMRbase. Check out the SmedSxl v3.1 Genome Browser. There are newer and more complete genome assemblies available. The current genome assembly can be found at PlanMine.

SmedSxl v3.1 Genome Browser

SmedSxl v3.1 genome browser, previously found on SmedGD, is now hosted by SIMRbase.

SmedGD Data Downloads

Genome Assemblies – Nucleotide FASTA files

MAKER annotations – GFF

MAKER annotations – Protein FASTA files

MAKER annotations – Nucleotide FASTA files

Smed Unigenes

Smed Unigenes Annotations

Transcriptome Assemblies

Reddien 2005 RNAi Screen

GBrowse MYSQL Dumps - GFF

SmedGD 2.0: The Schmidtea mediterranea genome database

2015 Aug;53(8):535-46.
doi: 10.1002/dvg.22872.
Epub 2015 Jul 17.
Sofia M C Robb, Kirsten Gotting, Eric Ross, Alejandro Sánchez Alvarado

View manuscript at PMC

Planarians have emerged as excellent models for the study of key biological processes such as stem cell function and regulation, axial polarity specification, regeneration, and tissue homeostasis among others. The most widely used organism for these studies is the free-living flatworm Schmidtea mediterranea. In 2007, the Schmidtea mediterranea Genome Database (SmedGD) was first released to provide a much needed resource for the small, but growing planarian community. SmedGD 1.0 has been a depository for genome sequence, a draft assembly, and related experimental data (e.g., RNAi phenotypes, in situ hybridization images, and differential gene expression results). We report here a comprehensive update to SmedGD (SmedGD 2.0) that aims to expand its role as an interactive community resource. The new database includes more recent, and up-to-date transcription data, provides tools that enhance interconnectivity between different genome assemblies and transcriptomes, including next-generation assemblies for both the sexual and asexual biotypes of S. mediterranea. SmedGD 2.0 not only provides significantly improved gene annotations, but also tools for data sharing, attributes that will help both the planarian and biomedical communities to more efficiently mine the genomics and transcriptomics of S. mediterranea.

SmedGD: the Schmidtea mediterranea genome database

Nucleic Acids Research
2008 Jan;36(Database issue):D599-606.
doi: 10.1093/nar/gkm684.
Epub 2007 Sep 18.
Sofia M C Robb, Eric Ross, Alejandro Sánchez Alvarado

View Manuscript at PMC

The planarian Schmidtea mediterranea is rapidly emerging as a model organism for the study of regeneration, tissue homeostasis and stem cell biology. The recent sequencing, assembly and annotation of its genome are expected to further buoy the biomedical importance of this organism. In order to make the extensive data associated with the genome sequence accessible to the biomedical and planarian communities, we have created the Schmidtea mediterranea Genome Database (SmedGD). SmedGD integrates in a single web-accessible portal all available data associated with the planarian genome, including predicted and annotated genes, ESTs, protein homologies, gene expression patterns and RNAi phenotypes. Moreover, SmedGD was designed using tools provided by the Generic Model Organism Database (GMOD) project, thus making its data structure compatible with other model organism databases. Because of the unique phylogenetic position of planarians, SmedGD will prove useful not only to the planarian research community, but also to those engaged in developmental and evolutionary biology, comparative genomics, stem cell research and regeneration.