VAMPr: VAriant Mapping and Prediction of antimicrobial resistance

Resources

• Association between genotype and phenotype
• Phenotype prediction
• Phenotype prediction models

---

Source code download

• GitHub page

---

Analysis workflow

---

Example

Species	Pseudomonas aeruginosa
Antibiotics	imipenem
Genotype	K18093.13; oprD; imipenem/basic amino acid-specific outer membrane pore
Association p-value	5.806791e-05
Resistance ratio

---

Statistics

• 9 pathogen species
• 29 antibiotics
• 3,393 isolates
• 29,187 phenotypes
• 14,615 genotypes
• 93 association/prediction models
• 5,359 significant associations (FDR <= 0.05)
• 91.1 average prediction accuracy

---

Contacts

• Jiwoong Kim (Jiwoong.Kim@UTSouthwestern.edu)
• Xiaowei Zhan (Xiaowei.Zhan@UTSouthwestern.edu)
• David Greenberg (David.Greenberg@UTSouthwestern.edu)