vampsarchive.mbl.edu
F.A.Q.
http://vampsarchive.mbl.edu/resources/faq.php
What is included in the Diversity and Rarefaction data package? What is included in the OTU Cluster data package? How is the tag sequence trimming done and low-quality reads removed? How is taxonomy assigned to the tags through the GAST process? How are the datasets normalized? How do I download the taxonomic data export files? How do I import the taxonomic data into a spreadsheet? How are the reference databases created? What are the cycling conditions? What are the primers used? File contains ACE values.
vampsarchive.mbl.edu
VAMPS - Recent Updates
http://vampsarchive.mbl.edu/resources/updates.php
July 30th, 2009. A taxonomy file (*.tax) has been added to the OTU Cluster files. The taxonomy file shows the taxonomy corresponding to the reads in the *.list file for the 0.03, 0.06, and 0.10 widths. April 2nd, 2009. The ability to export data for selected domains was added to the Export Taxcounts page. The user can now select Archaea, Bacteria, Eukarya, or Organelle sequences for download, as well as all domains together. March 12th, 2009. March 9th, 2009. March 9th, 2009. February 13th, 2009. The abi...
icomm.mbl.edu
International Census of Marine Microbes (ICOMM)
http://icomm.mbl.edu/index.html
The role of the International Census of Marine Microbes (ICoMM) is to promote an agenda and an environment that will accelerate discovery, understanding, and awareness of the global significance of marine microbes. Forest Rohwer and his colleagues have a new book out entitled 'Coral Reefs in the Microbial Seas'. This book tells the story of their expeditions to the remote Line Islands to study changes in coral reef communities in response to human impacts. This was an ICoMM affiliated project. ICoMM won ...
vampsarchive.mbl.edu
VAMPS - Login Page
http://vampsarchive.mbl.edu/exporter/export_fasta.php
If you do not have a login and would like to view the existing public data only,. You may login as user. If you do not have a login, and would like to upload data and use the visualization tools with your own data, you may request a user account. User account requests are not automated and may take one or two business days to process. Supported by Alfred P. Sloan Foundation. And the Josephine Bay Paul and C. Michael Paul Foundation. Unless otherwise stated, all material 2009 Bay Paul Center, MBL.
vampsarchive.mbl.edu
VAMPS - Databases
http://vampsarchive.mbl.edu/resources/databases.php
The primary reference database of near full-length reference sequences, is derived from the SILVA. RRNA database project (version 95). Low quality sequences are flagged as deleted (pintail score. Is assigned to each sequence and is formed from the accession number and the start and stop locations of the sequence on the rRNA gene. Individual reference databases for specific hypervariable regions ( RefHVR v3, RefHVR v6, RefHVR v9. Are provided as MySQL dumps of the relevant table. The aligned sequences are...
vampsarchive.mbl.edu
VAMPS - Home
http://vampsarchive.mbl.edu/index.php
Revised: July 30th, 2009. The Visualization and Analysis. Of Microbial Population Structures. VAMPS is an integrated collection of tools for researchers to visualize and analyze data for microbial population structures and distributions. For more information on the VAMPS project, visit our VAMPS Overview. There are two essential elements to VAMPS:. Please see our Recent Updates. Page for more information. VAMPS is a project of the Josephine Bay Paul Center in Comparative Molecular Biology and Evolution.
vampsarchive.mbl.edu
VAMPS - Primers and Keys
http://vampsarchive.mbl.edu/resources/prim.php
We use primers that are a combination of the Roche A- and B-adaptors for promoting sequencing, a 5-nucleotide key for identifying samples within a mixture of samples and the amplification primers. Complete Description of Our Primers. We use nucleotide "keys" embedded within the amplification primers to differentiate multiple samples on a GS-FLX run without physically partitioning the picotiter plate. We currently use 5-nucleotide keys, although longer or shorter keys can also work.
en.wikipedia.org
Microbiota - Wikipedia, the free encyclopedia
https://en.wikipedia.org/wiki/Microbiome
From Wikipedia, the free encyclopedia. For other uses, see Microbiota (disambiguation). Depiction of the human skin and bacteria that predominate. Is "the ecological community of commensal. That literally share our body space". Coined the term, emphasising the importance of microorganisms inhabiting the human body in health and disease. Many scientific articles distinguish microbiome. And microbiota to describe either the collective genomes. There are trillions of microbes in the human microbiome. It may...
vampsarchive.mbl.edu
VAMPS - Login Page
http://vampsarchive.mbl.edu/vamps/combined/combined.php
If you do not have a login and would like to view the existing public data only,. You may login as user. If you do not have a login, and would like to upload data and use the visualization tools with your own data, you may request a user account. User account requests are not automated and may take one or two business days to process. Supported by Alfred P. Sloan Foundation. And the Josephine Bay Paul and C. Michael Paul Foundation. Unless otherwise stated, all material 2009 Bay Paul Center, MBL.
microextreme.net
Microbial Diversity and Extreme Environments
http://www.microextreme.net/links.html
Below, you can find a series of links related to extremophilic microorganisms and related areas. If you find other links of potential interest, please, send me an email. With the addresses. Thanks. The Institutional Repository of the Spanish National Research Council. The National Center for Biotechnology Information (NCBI). Provides with DNA and genomic databases and useful bioinformatic tools. An ecosystem-based approach for the production of biological resources in aquaculture. And a FTP server. At th...
