Links

Simons Foundation: CBIOMES

NSF: MIM: Machine Learning, Systems Modeling, and Experimental Approaches to Understand the Universal Rules of Life of Microbiota Using Marine Time Series Data. In collaboration with Fengzhu Sun (USC), Jinchi Lv (USC), Yan Liu (USC), and Emily Zakem (Carnegie Institution).

Past

NSF:  USC Microbial Observatory/San Pedro Ocean Time Series

NIH: Linking viruses and hosts in metagenomic data bioinformatically

Ocean Sampling Day, Micro3
Earth Microbiome Project
Tara Oceans

Department of Biological Sciences, Marine Environmental Biology Program
Environmental Studies Program
San Pedro Ocean Time Series (SPOT)
USC Microbial Observatory
USC Sea Grant
Wrigley Institute for Environment and Sustainability

Fengzhu Sun

Caron Lab, USC
Giovannoni Lab, OSU
Jones Lab, KAUST
Martiny Lab, UCI
Meren Lab, HIFMB
Noble Lab, UNC Chapel Hill
Orange County Sanitation District (OCSan)
Rohwer Lab, SDSU
Santoro Lab, UCSB
Southern California Coastal Water Research Project (SCCWRP)
Sullivan Lab, The OSU
Suttle Lab, UBC
Wommack Lab, UDEL

Follows Lab MIT

Armbrust Lab, U Washington

Alpine Microbial Observatory, CU-Boulder
Arctic LTER (ARC)
Bermuda Atlantic Time-series Study (BATS)
Boiling Springs Lake (BSL) Microbial Observatory
California Current Ecosystem LTER (CCE)
California Cooperative Oceanic Fisheries Investigations (Calcofi)
Cedar Creek Natural History Area Microbial Observatory, UMN
Coweeta LTER (CWT)
Duke Forest Mycological Observatory, Duke
Florida Coastal Everglades LTER (FCE)
Georgia Coastal Ecysystems LTER (GCE)
Hawaiian Ocean Time Sereies (HOT) / ALOHA, UH
Hubbard Brook LTER (HBR)
McMurdo LTER (MCM)
Methylotrophic Microbial Observatory, UW
Moorea Coral Reef LTER (MCR)
North Temperate Lakes Microbial Observatory, UWISC LTER
Palmer Station LTER (PAL)
Plum Island Sound Estuary LTER (PIE)
Salt Plains Microbial Observatory, OK State
San Salvador Microbial Observatory
Santa Barbara Coastal LTER (SBC)
Sapelo Island Microbial Carbon Observatory (SIMCO), UGA
Soap Lake Microbial Observatory, CWU
USC Microbial Observatory
Virginia Coastal Reserve LTER (VCR)

Anvi’o: ANalysis and VIsualization platform for ‘Omics data

ARB Project
Comprehensive R Archive Network (CRAN)
GenBank
Genomes OnLine Database (GOLD), JGI
Green Genes
IDT Oligo Analyzer Tool
Integrated Microbial Genomes System (IMG)
International Census of Marine Microbes (ICOMM)
iPLANT
mothur
NCBI: National Center for Biotechnology Information
protocols.io: Life Science Protocol Repository
QIIME 2
Ribosomal Database Project
SILVA
VERVENet

Happy Belly Bioinformatics

extended Local Similarity Analysis with 3-way Liquid Association

Fuhrman Lab tools on protocols.io