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BioD specifications


Unique identifier OMICS_20057
Name BioD
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Other
License MIT License
Computer skills Advanced
Version 0.1.0
Stability Stable
Maintained Yes




No version available



  • person_outline Pjotr Prins
  • person_outline Sebastian Wilzbach
  • person_outline George Githinji

BioD citations


The dehydration stress of couch grass is associated with its lipid metabolism, the induction of transporters and the re programming of development coordinated by ABA

BMC Genomics
PMCID: 5930771
PMID: 29720087
DOI: 10.1186/s12864-018-4700-3

[…] controls provided by the supplier were included and b2 oligonucleotides were added to each hybridization cocktail. polya controls (lys, phe, thr, dap) and hybridization controls (biob, bioc, biod and cre) were used to monitor labeling and hybridization. open-source software included within the r statistical package [] were used for the statistical analysis of the chip outputs. […]


Identification of Mycobacterium tuberculosis BioA inhibitors by using structure based virtual screening

Drug Des Devel Ther
PMCID: 5935190
PMID: 29750019
DOI: 10.2147/DDDT.S144240

[…] m. tuberculosis., biotin is an essential cofactor required for fatty acid metabolism, amino acid biosynthesis and gluconeogenesis. m. tuberculosis harbors four necessary genes, namely, biof, bioa, biod and biob, which encode enzymes required for the biosynthesis of biotin from pimeloyl-coa., the second step of biotin biosynthesis pathway is catalyzed by 7,8-diaminopelargonic acid synthase […]


Evolutionary convergence in the biosyntheses of the imidazole moieties of histidine and purines

PLoS One
PMCID: 5919458
PMID: 29698445
DOI: 10.1371/journal.pone.0196349

[…] (mio). biotin is a vitaminic cofactor that transfers co2 as well as c-2 units, and its imidazole moiety is formed enzymatically by action of the dethiobiotin synthetase [ec:] (biod) enzyme. quite significantly, both creatinine and mio are imidazole molecules formed non-enzymatically. creatinine is formed via the spontaneous cyclization of creatine-phosphate []. […]


Expansion of functional personalized cells with specific transgene combinations

Nat Commun
PMCID: 5843645
PMID: 29520052
DOI: 10.1038/s41467-018-03408-4

[…] 3′ ivt express kit (affymetrix; santa clara, ca). 7.5 µg of biotinylated crna were fragmented and placed in a hybridization cocktail containing four biotinylated hybridization controls (biob, bioc, biod, and cre) as recommended by the manufacturer. samples were hybridized to an identical lot of affymetrix genechip hg-u133 plus 2.0 for 16 h at 45 °c., steps for washing and sa-pe staining […]


Understanding the high l valine production in Corynebacterium glutamicum VWB 1 using transcriptomics and proteomics

Sci Rep
PMCID: 5827029
PMID: 29483542
DOI: 10.1038/s41598-018-21926-5

[…] reactions involved in fatty acid and carbohydrate metabolism. the two important enzymes involved in the biotin synthesis, the bioa-encoded 7,8-diaminopelargonic acid synthase and the biod-encoded dethiobiotin synthase, separately catalyzes the first and second step of biotin biosynthesis, were both down-regulated in vwb-1, making it disabled in biotin biosynthesis. hence, […]


Data mining of pediatric medulloblastoma microarray expression reveals a novel potential subdivision of the Group 4 molecular subgroup

PMCID: 5876455
PMID: 29616106
DOI: 10.3892/ol.2018.8094

[…] by quality control microarray processing according to a previous study (). in the aforementioned analysis the fluorescence intensity of the microarray quality control was evaluated using biob, bioc, biod and cre, at final concentrations of 1.5, 5, 25 and 100 pm, respectively. additionally, poly-a rna controls were evaluated using dap, thr, phe and lys to final concentrations of 1:7,500, […]

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