Brugia malayi - public RNASeq studies
Table of Contents
- Brugia malayi transcriptomics at different life cycle stages
- The effect of in vitro cultivation on the transcriptome of adult Brugia malayi
- Deciphering the loss of fertility in ivermectin-treated Brugia malayi females in vitro: a transcriptomic approach [Study I]
- Deciphering the loss of fertility in ivermectin-treated Brugia malayi females in vitro: a transcriptomic approach [Study II]
- The effect on anthelmintic drugs on Brugia malayi gene expression in vivo
- 7 other studies
Analysed
ERP000948: Brugia malayi transcriptomics at different life cycle stages
Wellcome Sanger Institute
High-throughput sequencing to profile the transcriptome of the human filarial nematode Brugia malayi, the causative agent of lymphatic filariasis, across multiple life-cycle stages.
E-MTAB-811 in ArrayExpress
Design: 6 conditions
| Condition | num. replicates | Biosourceprovider | Biosourcetype | Developmental stage | Organism part | Sex | Strain |
|---|---|---|---|---|---|---|---|
| Adult female | 1 | Filariasis Research Reagent Resource (FR3) Center at University of Wisconsin Oshkosh, WI. | frozen_sample | adult | whole organism | female | FR3 |
| Adult male | 1 | Filariasis Research Reagent Resource (FR3) Center at University of Wisconsin Oshkosh, WI. | frozen_sample | adult | whole organism | male | FR3 |
| Eggs/embryos | 1 | Filariasis Research Reagent Resource (FR3) Center at University of Wisconsin Oshkosh, WI. | frozen_sample | eggs and embryos | whole organism | mixed | FR3 |
| L3 | 1 | Filariasis Research Reagent Resource (FR3) Center at University of Wisconsin Oshkosh, WI. | frozen_sample | larva L3 | whole organism | mixed | FR3 |
| L4 | 1 | Filariasis Research Reagent Resource (FR3) Center at University of Wisconsin Oshkosh, WI. | frozen_sample | larva L4 | whole organism | mixed | FR3 |
| Microfilariae | 1 | Filariasis Research Reagent Resource (FR3) Center at University of Wisconsin Oshkosh, WI. | frozen_sample | mature microfilariae | whole organism | mixed | FR3 |
SRP063061: The effect of in vitro cultivation on the transcriptome of adult Brugia malayi
Geary Lab, Parasitology, McGill University
Design: 4 conditions
| Condition | num. replicates | Developmental stage | Timepoint |
|---|---|---|---|
| 48h | 6 | adult | 48h |
| 5 days | 6 | adult | 5 days |
| Upon arrival | 6 | adult | Upon arrival |
| Upon dissection | 6 | adult | Upon dissection |
SRP066610: Deciphering the loss of fertility in ivermectin-treated Brugia malayi females in vitro: a transcriptomic approach [Study I]
Geary Lab, Parasitology, McGill University
Design: 7 conditions
| Condition | num. replicates | Developmental stage | Sex | Timepoint | Treatment |
|---|---|---|---|---|---|
| 0h | 2 | adult | female | RNA extraction upon arrival at McGill | |
| 24 h | 2 | adult | female | RNA extraction at 24 h | |
| 48 h | 2 | adult | female | RNA extraction at 48 h | |
| 72 h | 2 | adult | female | RNA extraction at 72 h | |
| Ivermectin 100nM, 24 h | 2 | adult | female | RNA extraction at 24 h | Ivermectin 100nM |
| Ivermectin 100nM, 48 h | 2 | adult | female | RNA extraction at 48 h | Ivermectin 100nM |
| Ivermectin 100nM, 72 h | 2 | adult | female | RNA extraction at 72 h | Ivermectin 100nM |
SRP066611: Deciphering the loss of fertility in ivermectin-treated Brugia malayi females in vitro: a transcriptomic approach [Study II]
Geary Lab, Parasitology, McGill University
Design: 7 conditions
| Condition | num. replicates | Concentration | Developmental stage | Sex | Timepoint | Treatment |
|---|---|---|---|---|---|---|
| 0h | 3 | adult | female | RNA extraction upon arrival at McGill | ||
| 48 h | 3 | adult | female | RNA extraction at 48 h | ||
| 5 d | 3 | adult | female | RNA extraction at 5 d | ||
| Ivermectin 1 uM, 48 h | 3 | 1 uM | adult | female | RNA extraction at 48 h | Ivermectin |
| Ivermectin 1 uM, 5 d | 2 | 1 uM | adult | female | RNA extraction at 5 d | Ivermectin |
| Ivermectin 300 nM, 48 h | 3 | 300 nM | adult | female | RNA extraction at 48 h | Ivermectin |
| Ivermectin 300 nM, 5 d | 3 | 300 nM | adult | female | RNA extraction at 5 d | Ivermectin |
SRP108080: The effect on anthelmintic drugs on Brugia malayi gene expression in vivo
Infectious Diseases, University of Georgia
Downloads
Design: 24 conditions
| Condition | num. replicates | Developmental stage | Sex | Timepoint | Treatment |
|---|---|---|---|---|---|
| Microfilaria, 1 day, Albendazole | 3 | Microfilaria | 1 day | Albendazole | |
| Microfilaria, 1 day, Control (DMSO) | 3 | Microfilaria | 1 day | Control (DMSO) | |
| Microfilaria, 1 day, Diethylcarbamazine | 3 | Microfilaria | 1 day | Diethylcarbamazine | |
| Microfilaria, 1 day, Ivermectin | 3 | Microfilaria | 1 day | Ivermectin | |
| Microfilaria, 7 days, Albendazole | 2 | Microfilaria | 7 days | Albendazole | |
| Microfilaria, 7 days, Control (DMSO) | 2 | Microfilaria | 7 days | Control (DMSO) | |
| Microfilaria, 7 days, Diethylcarbamazine | 2 | Microfilaria | 7 days | Diethylcarbamazine | |
| Microfilaria, 7 days, Ivermectin | 2 | Microfilaria | 7 days | Ivermectin | |
| adult, female, 1 day, Albendazole | 3 | adult | female | 1 day | Albendazole |
| adult, female, 1 day, Control (DMSO) | 3 | adult | female | 1 day | Control (DMSO) |
| adult, female, 1 day, Diethylcarbamazine | 3 | adult | female | 1 day | Diethylcarbamazine |
| adult, female, 1 day, Ivermectin | 3 | adult | female | 1 day | Ivermectin |
| adult, female, 7 days, Albendazole | 3 | adult | female | 7 days | Albendazole |
| adult, female, 7 days, Control (DMSO) | 3 | adult | female | 7 days | Control (DMSO) |
| adult, female, 7 days, Diethylcarbamazine | 3 | adult | female | 7 days | Diethylcarbamazine |
| adult, female, 7 days, Ivermectin | 3 | adult | female | 7 days | Ivermectin |
| adult, male, 1 day, Albendazole | 3 | adult | male | 1 day | Albendazole |
| adult, male, 1 day, Control (DMSO) | 3 | adult | male | 1 day | Control (DMSO) |
| adult, male, 1 day, Diethylcarbamazine | 3 | adult | male | 1 day | Diethylcarbamazine |
| adult, male, 1 day, Ivermectin | 3 | adult | male | 1 day | Ivermectin |
| adult, male, 7 days, Albendazole | 3 | adult | male | 7 days | Albendazole |
| adult, male, 7 days, Control (DMSO) | 3 | adult | male | 7 days | Control (DMSO) |
| adult, male, 7 days, Diethylcarbamazine | 3 | adult | male | 7 days | Diethylcarbamazine |
| adult, male, 7 days, Ivermectin | 3 | adult | male | 7 days | Ivermectin |
Other
These studies are available in ENA, and the reads successfully align to our genomes.
We have decided not to include them in our analysis.
Either they failed to meet minimal criteria for inclusion, we've been asked to exclude them for data quality reasons, or we were unable to interpret the metadata.
SRP064921: Brugia malayi Raw sequence reads
University of South Florida
5 runs in ENA
SRP068692: Brugia malayi isolate:FR3 Raw sequence reads
SRP078934: Brugia malayi Immune transcriptome
SRP090644: Brugia malayi Raw sequence reads
New York University
14 runs in ENA
SRP096033: Enrichment of Wolbachia Endosymbiont Transcripts from Host Nematode RNA by Cappable-seq
SRP201437: Tissue-specific expression of Brugia malayi
University of Wisconsin-Madison
3 runs in ENA
SRP216772: Molting Brugia malayi RNA-seq
New York University
1 run in ENA
Release 15 - October 2020
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