OpenContami

Please cite:

Park SJ, Nakai K. OpenContami: A web-based application for detecting microbial contaminants in next-generation sequencing data. Bioinformatics 37(18):3021-3022 (2021)

Park SJ, Onizuka S, Seki M, Suzuki Y, Iwata T, Nakai K. A systematic sequencing-based approach for microbial contaminant detection and functional inference. BMC Biol. 17(1):72 (2019)

BlackList
SARS-CoV-2 Genome Browser
SARS-CoV-2 Records

Latest Contaminants (>10^4 RPMH)
2025-03-05 OLP-164-1384 (OCT-164-1)
test
 Mycoplasma (1,633,492.99)

2024-07-16 OLP-159-1375 (OCT-159-1)
Unmapped Reads DG-75
 Mycoplasma (49,076.96)

2023-08-23 OLP-105-1064 (OCT-105-1)
test
 Alteromonas (1,397,947.86)
 Synechococcus (150,516.80)
 Pelomonas (51,066.93)
 Bradyrhizobium (48,159.25)
 Pseudomonas (13,536.61)

2023-08-10 OLP-104-1061 (OCT-104-1)
Skin contaminant
 Cutibacterium (4,842,064,000.00)
 Halomonas (3,045,643,000.00)
 Shewanella (2,055,048,000.00)
 Pseudomonas (1,796,600,000.00)
 Ralstonia (1,548,359,000.00)

2022-11-30 OLP-72-882 (OCT-72-34)
EC ATAC Seq
 Acholeplasma (791,003.80)