a mapping between ncbi taxonomy ID and habitat?

Am trying to find a database mapping between bacterial taxonomy ID and where that microbe is likely to be isolated from (ie human gut, soil, plants, etc). Tried JGI-Gold but have had little success with consistency of annotation quality + accuracy. Any ideas?

microbiology genome

• 1,274 views • link

written 7.7 years ago by bioguy

• 0 views • link

written 7.7 years ago by Pierre Lindenbaum

0 answers

No answers yet.

More posts like this

Shotgun dataset with polyG, low qualiity
written 1.4 years ago by shevch2009 •

Hi, I have a data for two samples from permafrost, it's shotgun sequencing paired data 250bp, from Novaseq. The fastqc showed PolyG tails, wich I …
Herald: The Biostar Herald for Monday, November 25, 2024
written 1.7 years ago by Biostar

The **Biostar Herald** publishes user submitted links of bioinformatics relevance. It aims to provide a summary of interesting and relevant information you may have missed. …
Tool: Just released VEBA 2.0 in Nucleic Acids Research, a modular genome-resolved metagenomics/meta…
written 2.1 years ago by O.rka

![enter image description here][1] I've been developing the VEBA software suite during the beginning of COVID lockdown. Had a 2022 release in BMC Bioinformatics for …
Job: Computational Research Scientist: JG-Joint Genome Institute
written 5.4 years ago by BerkeleyLab •

Computational Research Scientist - 92220 Organization: JG-Joint Genome Institute Lawrence Berkeley National Lab’s (LBNL, https://www.lbl.gov/) Joint Genome Institute (JGI, https://jgi.doe.gov/) Division has an opening for …
Contaminating sequences from Novogene RNAseq results
written 6.6 years ago by n.bailey2 •

Hi, I wondered if anyone had a similar experience with results from Novogene commercial RNAseq. My experiment was dual RNAseq of 2 species *In Vitro* …
How to determine species of paired-end .fastq files (low mapping rates and inconsistent findings)
written 6.9 years ago by LRStar

This is somewhat of a follow-up from previous posts (most recently https://www.biostars.org/p/400324/#400461 ). I was recently given a paired-end .fastq files (where each read has …
Tutorial: Update kraken databases
written 9.3 years ago by Sej Modha

[Kraken][1] is a really good k-mer based classification tool. I frequently use this tool for viral signal detection in metagenomic samples. A number of useful …
GATK variant recal malformed vcf
written 11.7 years ago by SemiQuant

Hi, I'm attempting to do GATK variant recalibration on files I generated using HaplotypeCaller. I keep getting the following error. Your input file has a …
Obtaining sequences of a particular gene under a particular taxonomy (using E-utilities)
written 12.1 years ago by cjb60 •

Hi there, I'm having a bit of trouble trying to find out how to construct a particular pipeline using the Entrez E-utilities. Specifically, what I …
Ways To Programmatically Determine Whole Genome Completion Dates, Genomic Type, Given A Taxonomic I…
written 14.7 years ago by Bliptrip •

<p>I have been tasked with determining statistical information on a dataset of microbial protein sequences, most importantly the average number of proteins per genome (think …