Additional file 9: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Additional file 5: of In-depth comparative analysis of malaria parasite genomes reveals protein-coding genes linked to human disease in Plasmodium falciparum genome

Xuewu Liu (457532)
Yuanyuan Wang (20181)
Jiao Liang (5162900)
Luojun Wang (5162903)
Na Qin (774536)
Ya Zhao (807581)
Gang Zhao (161405)

May 2018

Table S4. The P. berghei genes included in rodent malaria parasite-enriched clusters. (XLSX 20Â kb

Additional file 9: of In-depth comparative analysis of malaria parasite genomes reveals protein-coding genes linked to human disease in Plasmodium falciparum genome

Xuewu Liu (457532)
Yuanyuan Wang (20181)
Jiao Liang (5162900)
Luojun Wang (5162903)
Na Qin (774536)
Ya Zhao (807581)
Gang Zhao (161405)

May 2018

Table S5. Candidate genes related to virulence of the P. falciparum parasite. (XLSX 31Â kb

Additional file 2: of In-depth comparative analysis of malaria parasite genomes reveals protein-coding genes linked to human disease in Plasmodium falciparum genome

Xuewu Liu (457532)
Yuanyuan Wang (20181)
Jiao Liang (5162900)
Luojun Wang (5162903)
Na Qin (774536)
Ya Zhao (807581)
Gang Zhao (161405)

May 2018

Figure S1. Clusters composed of members from a single species or six species. a) Clusters comprise P...

Additional file 10: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Sequence annotation file GTF_VarRifStev_filtered out.gtf (see Additional file 1 for explanatory deta...

Additional file 1: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Masking of P. falciparum genome annotation file to exclude polymorphic regions of genes. (PDF 546â...

Additional file 7: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Figure S3. Differential expression of merozoite invasion-related genes among schizonts from differen...

Additional file 4: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Table S2. Genes showing significant differences in transcript levels (log2 fold >â2, at least 4 fo...

Additional file 11: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

RNA-seq comparison of gene expression in paired E64-treated and untreated P. falciparum 3D7 schizont...

Additional file 6: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Table S3. Log2 fold differences in transcript levels of genes differentially expressed among pairwis...

Additional file 2: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Table S1. List of genes with different detected transcript levels between 3D7 and D10 strains by abs...

Additional file 8: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Figure S3. Gene expression levels for eight genes newly detected as differentially expressed among c...

Additional file 5: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia Díaz-Ingelmo (6067160)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Figure S2. Normalised read counts for the ten most highly differentiated genes between cultured clin...

Additional file 3: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Figure S1. Multiple biological replicate preparations of P. falciparum schizont stage transcriptomes...

Additional file 9 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Yan-hui Zhang (9264941)
Xin-zhuan Su (34662)
Jian Li (41607)
Jia-jian Shi (14126615)
Li-hua Xie (14126618)

November 2022

Additional file 9: FigureS9. GO enrichment analysis of differentially expressed genes between mild m...

Additional file 1: of Genetic variation associated with increased insecticide resistance in the malaria mosquito, Anopheles coluzzii

Bradley Main (5060450)
Amanda Everitt (5060447)
Anthony Cornel (5060444)
Fereydoun Hormozdiari (32797)
Gregory Lanzaro (642381)

April 2018

Table S1. This table provides links to video examples of the Malpighian tubule dissections described...

Additional file 5: of In-depth comparative analysis of malaria parasite genomes reveals protein-coding genes linked to human disease in Plasmodium falciparum genome

Xuewu Liu (457532)
Yuanyuan Wang (20181)
Jiao Liang (5162900)
Luojun Wang (5162903)
Na Qin (774536)
Ya Zhao (807581)
Gang Zhao (161405)

May 2018

Table S4. The P. berghei genes included in rodent malaria parasite-enriched clusters. (XLSX 20Â kb

Additional file 9: of In-depth comparative analysis of malaria parasite genomes reveals protein-coding genes linked to human disease in Plasmodium falciparum genome

Xuewu Liu (457532)
Yuanyuan Wang (20181)
Jiao Liang (5162900)
Luojun Wang (5162903)
Na Qin (774536)
Ya Zhao (807581)
Gang Zhao (161405)

May 2018

Table S5. Candidate genes related to virulence of the P. falciparum parasite. (XLSX 31Â kb

Additional file 2: of In-depth comparative analysis of malaria parasite genomes reveals protein-coding genes linked to human disease in Plasmodium falciparum genome

Xuewu Liu (457532)
Yuanyuan Wang (20181)
Jiao Liang (5162900)
Luojun Wang (5162903)
Na Qin (774536)
Ya Zhao (807581)
Gang Zhao (161405)

May 2018

Figure S1. Clusters composed of members from a single species or six species. a) Clusters comprise P...

Additional file 10: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Sequence annotation file GTF_VarRifStev_filtered out.gtf (see Additional file 1 for explanatory deta...

Additional file 1: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Masking of P. falciparum genome annotation file to exclude polymorphic regions of genes. (PDF 546â...

Additional file 7: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Figure S3. Differential expression of merozoite invasion-related genes among schizonts from differen...

Additional file 4: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Table S2. Genes showing significant differences in transcript levels (log2 fold >â2, at least 4 fo...

Additional file 11: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

RNA-seq comparison of gene expression in paired E64-treated and untreated P. falciparum 3D7 schizont...

Additional file 6: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Table S3. Log2 fold differences in transcript levels of genes differentially expressed among pairwis...

Additional file 2: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Table S1. List of genes with different detected transcript levels between 3D7 and D10 strains by abs...

Additional file 8: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Figure S3. Gene expression levels for eight genes newly detected as differentially expressed among c...

Additional file 5: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia Díaz-Ingelmo (6067160)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Figure S2. Normalised read counts for the ten most highly differentiated genes between cultured clin...

Additional file 3: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Sarah Tarr (6067133)
Ofelia DĂaz-Ingelmo (6067136)
Lindsay Stewart (560932)
Suzanne Hocking (6067139)
Lee Murray (3357719)
Craig Duffy (3550022)
Thomas Otto (5241)
Lia Chappell (530631)
Julian Rayner (3988232)
Gordon Awandare (3690160)
David Conway (218340)

December 2018

Figure S1. Multiple biological replicate preparations of P. falciparum schizont stage transcriptomes...

Additional file 9 of Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections

Yan-hui Zhang (9264941)
Xin-zhuan Su (34662)
Jian Li (41607)
Jia-jian Shi (14126615)
Li-hua Xie (14126618)

November 2022

Additional file 9: FigureS9. GO enrichment analysis of differentially expressed genes between mild m...

Additional file 1: of Genetic variation associated with increased insecticide resistance in the malaria mosquito, Anopheles coluzzii

Bradley Main (5060450)
Amanda Everitt (5060447)
Anthony Cornel (5060444)
Fereydoun Hormozdiari (32797)
Gregory Lanzaro (642381)

April 2018

Table S1. This table provides links to video examples of the Malpighian tubule dissections described...

Additional file 5: of In-depth comparative analysis of malaria parasite genomes reveals protein-coding genes linked to human disease in Plasmodium falciparum genome

Xuewu Liu (457532)
Yuanyuan Wang (20181)
Jiao Liang (5162900)
Luojun Wang (5162903)
Na Qin (774536)
Ya Zhao (807581)
Gang Zhao (161405)

May 2018

Table S4. The P. berghei genes included in rodent malaria parasite-enriched clusters. (XLSX 20Â kb

Additional file 9: of In-depth comparative analysis of malaria parasite genomes reveals protein-coding genes linked to human disease in Plasmodium falciparum genome

Xuewu Liu (457532)
Yuanyuan Wang (20181)
Jiao Liang (5162900)
Luojun Wang (5162903)
Na Qin (774536)
Ya Zhao (807581)
Gang Zhao (161405)

May 2018

Table S5. Candidate genes related to virulence of the P. falciparum parasite. (XLSX 31Â kb

Additional file 2: of In-depth comparative analysis of malaria parasite genomes reveals protein-coding genes linked to human disease in Plasmodium falciparum genome

Xuewu Liu (457532)
Yuanyuan Wang (20181)
Jiao Liang (5162900)
Luojun Wang (5162903)
Na Qin (774536)
Ya Zhao (807581)
Gang Zhao (161405)

May 2018

Figure S1. Clusters composed of members from a single species or six species. a) Clusters comprise P...

Additional file 9: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Abstract

Extracted data

Additional file 9: of Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum

Abstract

Extracted data

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