Dear Colleagues,
We are so excited to invite you to our August Bioinformatics Community of Practice meeting tomorrow at 12:30 CEST. Our colleague from the South African National Institute for Communicable Disease will be presenting on a new pipeline she is creating. Please see the summary below. Likewise, please see the Zoom link for tomorrow’s meeting below.
We look forward to seeing you all tomorrow!
Warm regards, Christa
Antifungal resistance is an emerging global health threat, particularly affecting immunocompromised populations. In Africa, the situation is exacerbated by high burdens of HIV, limited diagnostics, and increasing resistance in key fungal pathogens like Candida auris, Aspergillus fumigatus, and Cryptococcus neoformans. Resistance is driven by overuse of antifungals, poor infection control, and environmental pressures. To combat this, bioinformatic pipelines offer scalable tools for species identification and resistance gene detection. Our pipeline begins by identifying SPAdes genome assemblies, then uses BLAST against a custom fungal database for species assignment. It extracts reference accession numbers, downloads corresponding genomes, organizes data by species, and uses tools like ChroQueTas to detect antimicrobial resistance (AMR) genes. These methods can be applied in African public health labs to improve surveillance, support diagnostics, and inform treatment decisions — but require investment in sequencing capacity, training, and infrastructure.
Topic: SeqAfrica Bionformatics Community of Practice (recurring invitation) Time: Every month on the First Thursday
Join Zoom Meeting https://dtudk.zoom.us/j/68532308758?pwd=AK8CRJQaskd7BvavJZ8RapDJ63baCg.1
Meeting ID: 685 3230 8758 Passcode: 210273
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Meeting ID: 685 3230 8758 Passcode: 210273
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Meeting ID: 685 3230 8758 Passcode: 210273 Dear Colleagues,
We are so excited to invite you to our August Bioinformatics Community of Practice meeting tomorrow at 12:30 CEST. Our colleague from the South African National Institute for Communicable Disease will be presenting on a new pipeline she is creating. Please see the summary below. Likewise, please see the Zoom link for tomorrow’s meeting below.
We look forward to seeing you all tomorrow!
Warm regards, Christa
“Antifungal resistance is an emerging global health threat, particularly affecting immunocompromised populations. In Africa, the situation is exacerbated by high burdens of HIV, limited diagnostics, and increasing resistance in key fungal pathogens like Candida auris, Aspergillus fumigatus, and Cryptococcus neoformans. Resistance is driven by overuse of antifungals, poor infection control, and environmental pressures. To combat this, bioinformatic pipelines offer scalable tools for species identification and resistance gene detection. Our pipeline begins by identifying SPAdes genome assemblies, then uses BLAST against a custom fungal database for species assignment. It extracts reference accession numbers, downloads corresponding genomes, organizes data by species, and uses tools like ChroQueTas to detect antimicrobial resistance (AMR) genes. These methods can be applied in African public health labs to improve surveillance, support diagnostics, and inform treatment decisions — but require investment in sequencing capacity, training, and infrastructure.”
Topic: SeqAfrica Bionformatics Community of Practice (recurring invitation) Time: Every month on the First Thursday
Join Zoom Meeting https://dtudk.zoom.us/j/68532308758?pwd=AK8CRJQaskd7BvavJZ8RapDJ63baCg.1
Meeting ID: 685 3230 8758 Passcode: 210273
---
One tap mobile +31207946519,,68532308758#,,,,*210273# Netherlands +31207946520,,68532308758#,,,,*210273# Netherlands
---
Dial by your location • +31 20 794 6519 Netherlands • +31 20 794 6520 Netherlands • +31 20 794 7345 Netherlands • +31 707 006 526 Netherlands • +31 20 241 0288 Netherlands • +31 20 794 0854 Netherlands
Meeting ID: 685 3230 8758 Passcode: 210273
Find your local number: https://dtudk.zoom.us/u/ccOdRjxrFb
---
Join by SIP 68532308758@109.105.112.236mailto:68532308758@109.105.112.236 • 68532308758@109.105.112.235mailto:68532308758@109.105.112.235
---
Join by H.323 • 109.105.112.236 • 109.105.112.235
Meeting ID: 685 3230 8758 Passcode: 210273 Dear Colleagues,
We are so excited to invite you to our August Bioinformatics Community of Practice meeting tomorrow at 12:30 CEST. Our colleague from the South African National Institute for Communicable Disease will be presenting on a new pipeline she is creating. Please see the summary below. Likewise, please see the Zoom link for tomorrow’s meeting below.
We look forward to seeing you all tomorrow!
Warm regards, Christa
“Antifungal resistance is an emerging global health threat, particularly affecting immunocompromised populations. In Africa, the situation is exacerbated by high burdens of HIV, limited diagnostics, and increasing resistance in key fungal pathogens like Candida auris, Aspergillus fumigatus, and Cryptococcus neoformans. Resistance is driven by overuse of antifungals, poor infection control, and environmental pressures. To combat this, bioinformatic pipelines offer scalable tools for species identification and resistance gene detection. Our pipeline begins by identifying SPAdes genome assemblies, then uses BLAST against a custom fungal database for species assignment. It extracts reference accession numbers, downloads corresponding genomes, organizes data by species, and uses tools like ChroQueTas to detect antimicrobial resistance (AMR) genes. These methods can be applied in African public health labs to improve surveillance, support diagnostics, and inform treatment decisions — but require investment in sequencing capacity, training, and infrastructure.”
Topic: SeqAfrica Bionformatics Community of Practice (recurring invitation) Time: Every month on the First Thursday
Join Zoom Meeting https://dtudk.zoom.us/j/68532308758?pwd=AK8CRJQaskd7BvavJZ8RapDJ63baCg.1
Meeting ID: 685 3230 8758 Passcode: 210273
---
One tap mobile +31207946519,,68532308758#,,,,*210273# Netherlands +31207946520,,68532308758#,,,,*210273# Netherlands
---
Dial by your location • +31 20 794 6519 Netherlands • +31 20 794 6520 Netherlands • +31 20 794 7345 Netherlands • +31 707 006 526 Netherlands • +31 20 241 0288 Netherlands • +31 20 794 0854 Netherlands
Meeting ID: 685 3230 8758 Passcode: 210273
Find your local number: https://dtudk.zoom.us/u/ccOdRjxrFb
---
Join by SIP 68532308758@109.105.112.236mailto:68532308758@109.105.112.236 • 68532308758@109.105.112.235mailto:68532308758@109.105.112.235
---
Join by H.323 • 109.105.112.236 • 109.105.112.235
Meeting ID: 685 3230 8758 Passcode: 210273
[cid:image001.png@01DC06C0.63370570] Christa Twyford Gibson Project Manager for SeqAfrica Project Fleming Fund Regional Grant SeqAfrica (dtu.dk)https://www.food.dtu.dk/english/topics/antimicrobial-resistance/seqafrica chrgi@dtu.dkmailto:chrgi@dtu.dk +45 53 81 91 15 National Food Institute Research Group for Global Capacity Building Building 204 Henrik Dams Allé 2800 Kgs. Lyngby www.food.dtu.dkhttp://www.food.dtu.dk/
