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Matthew Berriman - Publications

Affiliations: 
2000-2022 Parasite Genomics Wellcome Trust Sanger Insititute 
 2022- School of Infection and Immunity University of Glasgow (United Kingdom) 
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286 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Chevalier FD, Le Clec'h W, Berriman M, Anderson TJ. A single locus determines praziquantel response in . Antimicrobial Agents and Chemotherapy. e0143223. PMID 38289079 DOI: 10.1128/aac.01432-23  0.302
2023 Buddenborg SK, Lu Z, Sankaranarayan G, Doyle SR, Berriman M. The stage- and sex-specific transcriptome of the human parasite Schistosoma mansoni. Scientific Data. 10: 775. PMID 37935722 DOI: 10.1038/s41597-023-02674-2  0.834
2023 Coghlan A, Partridge FA, Duque-Correa MA, Rinaldi G, Clare S, Seymour L, Brandt C, Mkandawire TT, McCarthy C, Holroyd N, Nick M, Brown AE, Tonitiwong S, Sattelle DB, Berriman M. A drug repurposing screen for whipworms informed by comparative genomics. Plos Neglected Tropical Diseases. 17: e0011205. PMID 37669291 DOI: 10.1371/journal.pntd.0011205  0.815
2023 Padalino G, Coghlan A, Pagliuca G, Forde-Thomas JE, Berriman M, Hoffmann KF. Using ChEMBL to Complement Schistosome Drug Discovery. Pharmaceutics. 15. PMID 37242601 DOI: 10.3390/pharmaceutics15051359  0.739
2023 Hoshizaki J, Adjalley SH, Thathy V, Judge K, Berriman M, Reid AJ, Lee MCS. Correction: A manually curated annotation characterises genomic features of P. falciparum lncRNAs. Bmc Genomics. 24: 189. PMID 37024784 DOI: 10.1186/s12864-023-09164-0  0.616
2022 Hoshizaki J, Adjalley SH, Thathy V, Judge K, Berriman M, Reid AJ, Lee MCS. A manually curated annotation characterises genomic features of P. falciparum lncRNAs. Bmc Genomics. 23: 780. PMID 36451097 DOI: 10.1186/s12864-022-09017-2  0.626
2022 Lu Z, Sankaranarayanan G, Rawlinson KA, Offord V, Brindley PJ, Berriman M, Rinaldi G. The Transcriptome of Developing Eggs Reveals Key Mediators in Pathogenesis and Life Cycle Propagation. Frontiers in Tropical Diseases. 2: 713123. PMID 36389622 DOI: 10.3389/fitd.2021.713123  0.834
2022 Cortés A, Martin J, Rosa BA, Stark KA, Clare S, McCarthy C, Harcourt K, Brandt C, Tolley C, Lawley TD, Mitreva M, Berriman M, Rinaldi G, Cantacessi C. The gut microbial metabolic capacity of microbiome-humanized vs. wild type rodents reveals a likely dual role of intestinal bacteria in hepato-intestinal schistosomiasis. Plos Neglected Tropical Diseases. 16: e0010878. PMID 36279280 DOI: 10.1371/journal.pntd.0010878  0.742
2022 Doyle SR, Laing R, Bartley D, Morrison A, Holroyd N, Maitland K, Antonopoulos A, Chaudhry U, Flis I, Howell S, McIntyre J, Gilleard JS, Tait A, Mable B, Kaplan R, ... ... Berriman M, et al. Genomic landscape of drug response reveals mediators of anthelmintic resistance. Cell Reports. 41: 111522. PMID 36261007 DOI: 10.1016/j.celrep.2022.111522  0.812
2022 Coghlan A, Padalino G, O'Boyle NM, Hoffmann KF, Berriman M. Identification of anti-schistosomal, anthelmintic and anti-parasitic compounds curated and text-mined from the scientific literature. Wellcome Open Research. 7: 193. PMID 36003342 DOI: 10.12688/wellcomeopenres.17987.1  0.726
2022 Vianney TJ, Berger DJ, Doyle SR, Sankaranarayanan G, Serubanja J, Nakawungu PK, Besigye F, Sanya RE, Holroyd N, Allan F, Webb EL, Elliott AM, Berriman M, Cotton JA. Genome-wide analysis of Schistosoma mansoni reveals limited population structure and possible praziquantel drug selection pressure within Ugandan hot-spot communities. Plos Neglected Tropical Diseases. 16: e0010188. PMID 35981002 DOI: 10.1371/journal.pntd.0010188  0.822
2022 Costain AH, Phythian-Adams AT, Colombo SAP, Marley AK, Owusu C, Cook PC, Brown SL, Webb LM, Lundie RJ, Smits HH, Berriman M, MacDonald AS. Dynamics of Host Immune Response Development During Infection. Frontiers in Immunology. 13: 906338. PMID 35958580 DOI: 10.3389/fimmu.2022.906338  0.807
2022 Berger DJ, Léger E, Sankaranarayanan G, Sène M, Diouf ND, Rabone M, Emery A, Allan F, Cotton JA, Berriman M, Webster JP. Genomic evidence of contemporary hybridization between Schistosoma species. Plos Pathogens. 18: e1010706. PMID 35939508 DOI: 10.1371/journal.ppat.1010706  0.583
2022 Doyle SR, Søe MJ, Nejsum P, Betson M, Cooper PJ, Peng L, Zhu XQ, Sanchez A, Matamoros G, Sandoval GAF, Cutillas C, Tchuenté LT, Mekonnen Z, Ame SM, Namwanje H, ... ... Berriman M, et al. Population genomics of ancient and modern Trichuris trichiura. Nature Communications. 13: 3888. PMID 35794092 DOI: 10.1038/s41467-022-31487-x  0.806
2022 Protasio AV, Dongen SV, Collins J, Quintais L, Ribeiro DM, Sessler F, Hunt M, Rinaldi G, Collins JJ, Enright AJ, Berriman M. Correction: MiR-277/4989 regulate transcriptional landscape during juvenile to adult transition in the parasitic helminth Schistosoma mansoni. Plos Neglected Tropical Diseases. 16: e0010521. PMID 35666710 DOI: 10.1371/journal.pntd.0010521  0.765
2022 Aunin E, Berriman M, Reid AJ. Characterising genome architectures using genome decomposition analysis. Bmc Genomics. 23: 398. PMID 35610562 DOI: 10.1186/s12864-022-08616-3  0.66
2022 Duque-Correa MA, Goulding D, Rodgers FH, Gillis JA, Cormie C, Rawlinson KA, Bancroft AJ, Bennett HM, Lotkowska ME, Reid AJ, Speak AO, Scott P, Redshaw N, Tolley C, McCarthy C, ... ... Berriman M, et al. Defining the early stages of intestinal colonisation by whipworms. Nature Communications. 13: 1725. PMID 35365634 DOI: 10.1038/s41467-022-29334-0  0.813
2022 Addy JWG, Bediako Y, Ndungu FM, Valetta JJ, Reid AJ, Mwacharo J, Ngoi JM, Wambua J, Otieno E, Musyoki J, Said K, Berriman M, Marsh K, Bejon P, Recker M, et al. 10-year longitudinal study of malaria in children: Insights into acquisition and maintenance of naturally acquired immunity. Wellcome Open Research. 6: 79. PMID 35141425 DOI: 10.12688/wellcomeopenres.16562.3  0.568
2021 Kincaid-Smith J, Tracey A, de Carvalho Augusto R, Bulla I, Holroyd N, Rognon A, Rey O, Chaparro C, Oleaga A, Mas-Coma S, Allienne JF, Grunau C, Berriman M, Boissier J, Toulza E. Morphological and genomic characterisation of the Schistosoma hybrid infecting humans in Europe reveals admixture between Schistosoma haematobium and Schistosoma bovis. Plos Neglected Tropical Diseases. 15: e0010062. PMID 34941866 DOI: 10.1371/journal.pntd.0010062  0.835
2021 Rawlinson KA, Reid AJ, Lu Z, Driguez P, Wawer A, Coghlan A, Sankaranarayanan G, Buddenborg SK, Soria CD, McCarthy C, Holroyd N, Sanders M, Hoffmann KF, Wilcockson D, Rinaldi G, ... Berriman M, et al. Daily rhythms in gene expression of the human parasite Schistosoma mansoni. Bmc Biology. 19: 255. PMID 34852797 DOI: 10.1186/s12915-021-01189-9  0.811
2021 Baptista RP, Li Y, Sateriale A, Brooks KL, Tracey A, Sanders MJ, Ansell BRE, Jex AR, Cooper GW, Smith ED, Xiao R, Dumaine JE, Georgeson P, Pope B, Berriman M, et al. Long-read assembly and comparative evidence-based reanalysis of genome sequences reveals expanded transporter repertoire and duplication of entire chromosome ends including subtelomeric regions. Genome Research. PMID 34764149 DOI: 10.1101/gr.275325.121  0.838
2021 Aunin E, Böhme U, Blake D, Dove A, Smith M, Corton C, Oliver K, Betteridge E, Quail MA, McCarthy SA, Wood J, Tracey A, Torrance J, Sims Y, Howe K, ... ... Berriman M, et al. The complete genome sequence of (Tyzzer 1929), a common gut parasite of chickens. Wellcome Open Research. 6: 225. PMID 34703904 DOI: 10.12688/wellcomeopenres.17100.1  0.81
2021 Mkandawire TT, Grencis RK, Berriman M, Duque-Correa MA. Hatching of parasitic nematode eggs: a crucial step determining infection. Trends in Parasitology. PMID 34538735 DOI: 10.1016/j.pt.2021.08.008  0.814
2021 Sankaranarayanan G, Berriman M, Rinaldi G. An uneven race: genome editing for parasitic worms. Nature Reviews. Microbiology. PMID 34404952 DOI: 10.1038/s41579-021-00625-5  0.719
2021 Berger DJ, Crellen T, Lamberton PHL, Allan F, Tracey A, Noonan JD, Kabatereine NB, Tukahebwa EM, Adriko M, Holroyd N, Webster JP, Berriman M, Cotton JA. Whole-genome sequencing of Schistosoma mansoni reveals extensive diversity with limited selection despite mass drug administration. Nature Communications. 12: 4776. PMID 34362894 DOI: 10.1038/s41467-021-24958-0  0.851
2021 Haim-Vilmovsky L, Henriksson J, Walker JA, Miao Z, Natan E, Kar G, Clare S, Barlow JL, Charidemou E, Mamanova L, Chen X, Proserpio V, Pramanik J, Woodhouse S, Protasio AV, ... ... Berriman M, et al. Mapping Rora expression in resting and activated CD4+ T cells. Plos One. 16: e0251233. PMID 34003838 DOI: 10.1371/journal.pone.0251233  0.698
2021 Milne K, Ivens A, Reid AJ, Lotkowska ME, O'Toole A, Sankaranarayanan G, Munoz Sandoval D, Nahrendorf W, Regnault C, Edwards NJ, Silk SE, Payne RO, Minassian AM, Venkatraman N, Sanders MJ, ... ... Berriman M, et al. Mapping immune variation and gene switching in naive hosts infected with . Elife. 10. PMID 33648633 DOI: 10.7554/eLife.62800  0.646
2021 Takaki KK, Roca FJ, Schramm G, Wilbers RHP, Ittiprasert W, Brindley PJ, Rinaldi G, Berriman M, Ramakrishnan L, Pagán AJ. Tumor Necrosis Factor and Schistosoma mansoni egg antigen omega-1 shape distinct aspects of the early egg-induced granulomatous response. Plos Neglected Tropical Diseases. 15: e0008814. PMID 33465071 DOI: 10.1371/journal.pntd.0008814  0.622
2021 Lu Z, Sankaranarayanan G, Rawlinson KA, Offord V, Brindley PJ, Berriman M, Rinaldi G. The Transcriptome of Schistosoma mansoni Developing Eggs Reveals Key Mediators in Pathogenesis and Life Cycle Propagation Frontiers in Tropical Diseases. 2. DOI: 10.3389/fitd.2021.713123  0.35
2021 McKenna V, Archibald JM, Beinart R, Dawson MN, Hentschel U, Keeling PJ, Lopez JV, Martín-Durán JM, Petersen JM, Sigwart JD, Simakov O, Sutherland KR, Sweet M, Talbot N, Thompson AW, ... ... Berriman M, et al. The Aquatic Symbiosis Genomics Project: probing the evolution of symbiosis across the tree of life Wellcome Open Research. 6: 254. DOI: 10.12688/wellcomeopenres.17222.1  0.338
2020 Diaz Soria CL, Lee J, Chong T, Coghlan A, Tracey A, Young MD, Andrews T, Hall C, Ng BL, Rawlinson K, Doyle SR, Leonard S, Lu Z, Bennett HM, Rinaldi G, ... ... Berriman M, et al. Single-cell atlas of the first intra-mammalian developmental stage of the human parasite Schistosoma mansoni. Nature Communications. 11: 6411. PMID 33339816 DOI: 10.1038/s41467-020-20092-5  0.815
2020 Cortés A, Clare S, Costain A, Almeida A, McCarthy C, Harcourt K, Brandt C, Tolley C, Rooney J, Berriman M, Lawley T, MacDonald AS, Rinaldi G, Cantacessi C. Baseline Gut Microbiota Composition Is Associated With Infection Burden in Rodent Models. Frontiers in Immunology. 11: 593838. PMID 33329584 DOI: 10.3389/fimmu.2020.593838  0.734
2020 Ancarola ME, Lichtenstein G, Herbig J, Holroyd N, Mariconti M, Brunetti E, Berriman M, Albrecht K, Marcilla A, Rosenzvit MC, Kamenetzky L, Brehm K, Cucher M. Extracellular non-coding RNA signatures of the metacestode stage of Echinococcus multilocularis. Plos Neglected Tropical Diseases. 14: e0008890. PMID 33253209 DOI: 10.1371/journal.pntd.0008890  0.662
2020 Durrant C, Thiele EA, Holroyd N, Doyle SR, Sallé G, Tracey A, Sankaranarayanan G, Lotkowska ME, Bennett HM, Huckvale T, Abdellah Z, Tchindebet O, Wossen M, Logora MSY, Coulibaly CO, ... ... Berriman M, et al. Population genomic evidence that human and animal infections in Africa come from the same populations of Dracunculus medinensis. Plos Neglected Tropical Diseases. 14: e0008623. PMID 33253172 DOI: 10.1371/journal.pntd.0008623  0.802
2020 Doyle SR, Tracey A, Laing R, Holroyd N, Bartley D, Bazant W, Beasley H, Beech R, Britton C, Brooks K, Chaudhry U, Maitland K, Martinelli A, Noonan JD, Paulini M, ... ... Berriman M, et al. Genomic and transcriptomic variation defines the chromosome-scale assembly of Haemonchus contortus, a model gastrointestinal worm. Communications Biology. 3: 656. PMID 33168940 DOI: 10.1038/s42003-020-01377-3  0.826
2020 Olson PD, Tracey A, Baillie A, James K, Doyle SR, Buddenborg SK, Rodgers FH, Holroyd N, Berriman M. Complete representation of a tapeworm genome reveals chromosomes capped by centromeres, necessitating a dual role in segregation and protection. Bmc Biology. 18: 165. PMID 33167983 DOI: 10.1186/s12915-020-00899-w  0.814
2020 Takaki KK, Rinaldi G, Berriman M, Pagán AJ, Ramakrishnan L. Schistosoma mansoni Eggs Modulate the Timing of Granuloma Formation to Promote Transmission. Cell Host & Microbe. PMID 33120115 DOI: 10.1016/j.chom.2020.10.002  0.618
2020 Siegel SV, Chappell L, Hostetler JB, Amaratunga C, Suon S, Böhme U, Berriman M, Fairhurst RM, Rayner JC. Analysis of Plasmodium vivax schizont transcriptomes from field isolates reveals heterogeneity of expression of genes involved in host-parasite interactions. Scientific Reports. 10: 16667. PMID 33028892 DOI: 10.1038/s41598-020-73562-7  0.806
2020 Wang J, Paz C, Padalino G, Coghlan A, Lu Z, Gradinaru I, Collins JNR, Berriman M, Hoffmann KF, Collins JJ. Large-scale RNAi screening uncovers therapeutic targets in the parasite . Science (New York, N.Y.). 369: 1649-1653. PMID 32973031 DOI: 10.1126/science.abb7699  0.803
2020 Van den Broeck F, Savill NJ, Imamura H, Sanders M, Maes I, Cooper S, Mateus D, Jara M, Adaui V, Arevalo J, Llanos-Cuentas A, Garcia L, Cupolillo E, Miles M, Berriman M, et al. Ecological divergence and hybridization of Neotropical parasites. Proceedings of the National Academy of Sciences of the United States of America. PMID 32958676 DOI: 10.1073/Pnas.1920136117  0.658
2020 Imamura H, Monsieurs P, Jara M, Sanders M, Maes I, Vanaerschot M, Berriman M, Cotton JA, Dujardin JC, Domagalska MA. Evaluation of whole genome amplification and bioinformatic methods for the characterization of Leishmania genomes at a single cell level. Scientific Reports. 10: 15043. PMID 32929126 DOI: 10.1038/S41598-020-71882-2  0.579
2020 Otto TD, Gilabert A, Crellen T, Böhme U, Arnathau C, Sanders M, Oyola SO, Okouga AP, Boundenga L, Willaume E, Ngoubangoye B, Moukodoum ND, Paupy C, Durand P, Rougeron V, ... ... Berriman M, et al. Author Correction: Genomes of all known members of a Plasmodium subgenus reveal paths to virulent human malaria. Nature Microbiology. PMID 32796922 DOI: 10.1038/S41564-020-0787-9  0.639
2020 Sankaranarayanan G, Coghlan A, Driguez P, Lotkowska ME, Sanders M, Holroyd N, Tracey A, Berriman M, Rinaldi G. Large CRISPR-Cas-induced deletions in the oxamniquine resistance locus of the human parasite . Wellcome Open Research. 5: 178. PMID 32789192 DOI: 10.12688/wellcomeopenres.16031.2  0.813
2020 Aunin E, Böhme U, Sanderson T, Simons ND, Goldberg TL, Ting N, Chapman CA, Newbold CI, Berriman M, Reid AJ. Genomic and transcriptomic evidence for descent from Plasmodium and loss of blood schizogony in Hepatocystis parasites from naturally infected red colobus monkeys. Plos Pathogens. 16: e1008717. PMID 32745123 DOI: 10.1371/Journal.Ppat.1008717  0.723
2020 Duque-Correa MA, Schreiber F, Rodgers FH, Goulding D, Forrest S, White R, Buck A, Grencis RK, Berriman M. Development of caecaloids to study host-pathogen interactions: new insights into immunoregulatory functions of Trichuris muris extracellular vesicles in the caecum. International Journal For Parasitology. PMID 32659277 DOI: 10.1016/J.Ijpara.2020.06.001  0.794
2020 Tracey A, Foster JM, Paulini M, Grote A, Mattick J, Tsai YC, Chung M, Cotton JA, Clark TA, Geber A, Holroyd N, Korlach J, Libro S, Lustigman S, Michalski ML, ... ... Berriman M, et al. Nearly Complete Genome Sequence of Brugia malayi Strain FR3. Microbiology Resource Announcements. 9. PMID 32527783 DOI: 10.1128/MRA.00154-20  0.821
2020 Crosnier C, Hokke CH, Protasio AV, Brandt C, Rinaldi G, Langenberg MCC, Clare S, Janse JJ, Wilson S, Berriman M, Roestenberg M, Wright GJ. Screening of a library of recombinant Schistosoma mansoni proteins with sera from murine and human controlled infections identifies early serological markers. The Journal of Infectious Diseases. PMID 32524140 DOI: 10.1093/Infdis/Jiaa329  0.813
2020 Chappell L, Ross P, Orchard L, Russell TJ, Otto TD, Berriman M, Rayner JC, Llinás M. Refining the transcriptome of the human malaria parasite Plasmodium falciparum using amplification-free RNA-seq. Bmc Genomics. 21: 395. PMID 32513207 DOI: 10.1186/S12864-020-06787-5  0.823
2020 Wangwiwatsin A, Protasio AV, Wilson S, Owusu C, Holroyd NE, Sanders MJ, Keane J, Doenhoff MJ, Rinaldi G, Berriman M. Transcriptome of the parasitic flatworm Schistosoma mansoni during intra-mammalian development. Plos Neglected Tropical Diseases. 14: e0007743. PMID 32374726 DOI: 10.1371/Journal.Pntd.0007743  0.819
2020 Foster JM, Grote A, Mattick J, Tracey A, Tsai YC, Chung M, Cotton JA, Clark TA, Geber A, Holroyd N, Korlach J, Li Y, Libro S, Lustigman S, Michalski ML, ... ... Berriman M, et al. Sex chromosome evolution in parasitic nematodes of humans. Nature Communications. 11: 1964. PMID 32327641 DOI: 10.1038/S41467-020-15654-6  0.81
2020 Cotton JA, Durrant C, Franssen SU, Gelanew T, Hailu A, Mateus D, Sanders MJ, Berriman M, Volf P, Miles MA, Yeo M. Genomic analysis of natural intra-specific hybrids among Ethiopian isolates of Leishmania donovani. Plos Neglected Tropical Diseases. 14: e0007143. PMID 32310945 DOI: 10.1371/Journal.Pntd.0007143  0.826
2020 Franssen SU, Durrant C, Stark O, Moser B, Downing T, Imamura H, Dujardin JC, Sanders MJ, Mauricio I, Miles MA, Schnur LF, Jaffe CL, Nasereddin A, Schallig H, Yeo M, ... ... Berriman M, et al. Global genome diversity of the complex. Elife. 9. PMID 32209228 DOI: 10.7554/Elife.51243  0.823
2020 Franssen SU, Durrant C, Stark O, Moser B, Downing T, Imamura H, Dujardin J, Sanders MJ, Mauricio I, Miles MA, Schnur LF, Jaffe CL, Nasereddin A, Schallig H, Yeo M, ... ... Berriman M, et al. Author response: Global genome diversity of the Leishmania donovani complex Elife. DOI: 10.7554/Elife.51243.Sa2  0.753
2019 Otto TD, Assefa SA, Böhme U, Sanders MJ, Kwiatkowski D, Berriman M, Newbold C. Evolutionary analysis of the most polymorphic gene family in malaria. Wellcome Open Research. 4: 193. PMID 32055709 DOI: 10.12688/wellcomeopenres.15590.1  0.825
2019 Domagalska MA, Imamura H, Sanders M, Van den Broeck F, Bhattarai NR, Vanaerschot M, Maes I, D'Haenens E, Rai K, Rijal S, Berriman M, Cotton JA, Dujardin JC. Genomes of Leishmania parasites directly sequenced from patients with visceral leishmaniasis in the Indian subcontinent. Plos Neglected Tropical Diseases. 13: e0007900. PMID 31830038 DOI: 10.1371/Journal.Pntd.0007900  0.638
2019 Duque-Correa MA, Maizels RM, Grencis RK, Berriman M. Organoids - New Models for Host-Helminth Interactions. Trends in Parasitology. PMID 31791691 DOI: 10.1016/J.Pt.2019.10.013  0.35
2019 Crosnier C, Brandt C, Rinaldi G, McCarthy C, Barker C, Clare S, Berriman M, Wright GJ. Systematic screening of 96 cell-surface and secreted antigens does not identify any strongly protective vaccine candidates in a mouse model of infection. Wellcome Open Research. 4: 159. PMID 31728414 DOI: 10.12688/wellcomeopenres.15487.1  0.618
2019 Shaw CD, Imamura H, Downing T, Blackburn G, Westrop GD, Cotton JA, Berriman M, Sanders M, Rijal S, Coombs GH, Dujardin JC, Carter KC. Genomic and metabolomic polymorphism among experimentally selected paromomycin-resistant strains. Antimicrobial Agents and Chemotherapy. PMID 31658971 DOI: 10.1128/Aac.00904-19  0.712
2019 Sallé G, Doyle SR, Cortet J, Cabaret J, Berriman M, Holroyd N, Cotton JA. The global diversity of Haemonchus contortus is shaped by human intervention and climate. Nature Communications. 10: 4811. PMID 31641125 DOI: 10.1038/S41467-019-12695-4  0.655
2019 Doyle SR, Sankaranarayanan G, Allan F, Berger D, Jimenez Castro PD, Collins JB, Crellen T, Duque-Correa MA, Ellis P, Jaleta TG, Laing R, Maitland K, McCarthy C, Moundai T, Softley B, ... ... Berriman M, et al. Evaluation of DNA Extraction Methods on Individual Helminth Egg and Larval Stages for Whole-Genome Sequencing. Frontiers in Genetics. 10: 826. PMID 31616465 DOI: 10.3389/Fgene.2019.00826  0.84
2019 Howick VM, Russell AJC, Andrews T, Heaton H, Reid AJ, Natarajan K, Butungi H, Metcalf T, Verzier LH, Rayner JC, Berriman M, Herren JK, Billker O, Hemberg M, Talman AM, et al. The Malaria Cell Atlas: Single parasite transcriptomes across the complete life cycle. Science (New York, N.Y.). 365. PMID 31439762 DOI: 10.1126/Science.Aaw2619  0.683
2019 Böhme U, Otto TD, Sanders M, Newbold CI, Berriman M. Progression of the canonical reference malaria parasite genome from 2002-2019. Wellcome Open Research. 4: 58. PMID 31080894 DOI: 10.12688/wellcomeopenres.15194.1  0.64
2019 Doyle SR, Illingworth CJR, Laing R, Bartley DJ, Redman E, Martinelli A, Holroyd N, Morrison AA, Rezansoff A, Tracey A, Devaney E, Berriman M, Sargison N, Cotton JA, Gilleard JS. Population genomic and evolutionary modelling analyses reveal a single major QTL for ivermectin drug resistance in the pathogenic nematode, Haemonchus contortus. Bmc Genomics. 20: 218. PMID 30876405 DOI: 10.1186/S12864-019-5592-6  0.819
2019 Bediako Y, Adams R, Reid AJ, Valletta JJ, Ndungu FM, Sodenkamp J, Mwacharo J, Ngoi JM, Kimani D, Kai O, Wambua J, Nyangweso G, de Villiers EP, Sanders M, Lotkowska ME, ... ... Berriman M, et al. Repeated clinical malaria episodes are associated with modification of the immune system in children. Bmc Medicine. 17: 60. PMID 30862316 DOI: 10.1186/S12916-019-1292-Y  0.587
2019 Woodford J, Collins KA, Odedra A, Wang C, Kyung JI, Domingo GJ, Watts R, Marquart L, Berriman M, Otto TD, McCarthy JS. An experimental human blood stage model for studying Plasmodium malariae infection. The Journal of Infectious Diseases. PMID 30852586 DOI: 10.1093/Infdis/Jiz102  0.607
2019 Macchiaroli N, Cucher M, Kamenetzky L, Yones C, Bugnon L, Berriman M, Olson P, Rosenzvit M. Identification and expression profiling of microRNAs in Hymenolepis. International Journal For Parasitology. PMID 30677390 DOI: 10.1016/J.Ijpara.2018.07.005  0.312
2019 Ittiprasert W, Mann VH, Karinshak SE, Coghlan A, Rinaldi G, Sankaranarayanan G, Chaidee A, Tanno T, KumKhaek C, Prangtaworn P, Mentink-Kane MM, Cochran CJ, Driguez P, Holroyd N, Tracey A, ... ... Berriman M, et al. Programmed genome editing of the omega-1 ribonuclease of the blood fluke, . Elife. 8. PMID 30644357 DOI: 10.7554/Elife.41337  0.824
2019 Duque-Correa MA, Karp NA, McCarthy C, Forman S, Goulding D, Sankaranarayanan G, Jenkins TP, Reid AJ, Cambridge EL, Ballesteros Reviriego C, Müller W, Cantacessi C, Dougan G, ... ... Berriman M, et al. Exclusive dependence of IL-10Rα signalling on intestinal microbiota homeostasis and control of whipworm infection. Plos Pathogens. 15: e1007265. PMID 30640950 DOI: 10.1371/Journal.Ppat.1007265  0.558
2019 Coghlan A, Tyagi R, Cotton JA, Holroyd N, Rosa BA, Tsai IJ, Laetsch DR, Beech RN, Day TA, Hallsworth-Pepin K, Ke H, Kuo T, Lee TJ, Martin J, Maizels RM, ... ... Berriman M, et al. Comparative genomics of the major parasitic worms Nature Genetics. 51: 163-174. PMID 30397333 DOI: 10.1038/S41588-018-0262-1  0.678
2018 Lin JW, Reid AJ, Cunningham D, Böhme U, Tumwine I, Keller-Mclaughlin S, Sanders M, Berriman M, Langhorne J. Genomic and transcriptomic comparisons of closely related malaria parasites differing in virulence and sequestration pattern. Wellcome Open Research. 3: 142. PMID 30542666 DOI: 10.12688/wellcomeopenres.14797.1  0.687
2018 Mendes AM, Reuling IJ, Andrade CM, Otto TD, Machado M, Teixeira F, Pissarra J, Gonçalves-Rosa N, Bonaparte D, Sinfrónio J, Sanders M, Janse CJ, Khan SM, Newbold CI, Berriman M, et al. Pre-clinical evaluation of a -based whole-sporozoite malaria vaccine candidate. Npj Vaccines. 3: 54. PMID 30510775 DOI: 10.1038/s41541-018-0091-3  0.576
2018 Olson PD, Zarowiecki M, James K, Baillie A, Bartl G, Burchell P, Chellappoo A, Jarero F, Tan LY, Holroyd N, Berriman M. Genome-wide transcriptome profiling and spatial expression analyses identify signals and switches of development in tapeworms. Evodevo. 9: 21. PMID 30455861 DOI: 10.1186/S13227-018-0110-5  0.823
2018 Kanzaki N, Tsai IJ, Tanaka R, Hunt VL, Liu D, Tsuyama K, Maeda Y, Namai S, Kumagai R, Tracey A, Holroyd N, Doyle SR, Woodruff GC, Murase K, Kitazume H, ... ... Berriman M, et al. Biology and genome of a newly discovered sibling species of Caenorhabditis elegans. Nature Communications. 9: 3216. PMID 30097582 DOI: 10.1038/S41467-018-05712-5  0.813
2018 Wyllie S, Thomas M, Patterson S, Crouch S, De Rycker M, Lowe R, Gresham S, Urbaniak MD, Otto TD, Stojanovski L, Simeons FRC, Manthri S, MacLean LM, Zuccotto F, Homeyer N, ... ... Berriman M, et al. Cyclin-dependent kinase 12 is a drug target for visceral leishmaniasis. Nature. PMID 30046105 DOI: 10.1038/S41586-018-0356-Z  0.688
2018 Kelner A, Tinti M, Guther MLS, Foth BJ, Chappell L, Berriman M, Cowling VH, Ferguson MAJ. The mRNA cap methyltransferase gene TbCMT1 is not essential in vitro but is a virulence factor in vivo for bloodstream form Trypanosoma brucei. Plos One. 13: e0201263. PMID 30040830 DOI: 10.1371/Journal.Pone.0201263  0.794
2018 Silva Pereira S, Casas-Sanchez A, Haines LR, Absolomon K, Ogugo M, Sanders M, Kemp S, Acosta-Serrano Á, Noyes H, Berriman M, Jackson AP. Variant antigen repertoires in Trypanosoma congolense populations and experimental infections can be profiled from deep sequence data with a set of universal protein motifs. Genome Research. PMID 30006414 DOI: 10.1101/Gr.234146.118  0.52
2018 Cotton JA, Berriman M, Dalén L, Barnes I. Eradication genomics-lessons for parasite control. Science (New York, N.Y.). 361: 130-131. PMID 30002241 DOI: 10.1126/Science.Aar6609  0.594
2018 Otto TD, Böhme U, Sanders M, Reid A, Bruske EI, Duffy CW, Bull PC, Pearson RD, Abdi A, Dimonte S, Stewart LB, Campino S, Kekre M, Hamilton WL, Claessens A, ... ... Berriman M, et al. Long read assemblies of geographically dispersed isolates reveal highly structured subtelomeres. Wellcome Open Research. 3: 52. PMID 29862326 DOI: 10.12688/wellcomeopenres.14571.1  0.746
2018 Otto TD, Gilabert A, Crellen T, Böhme U, Arnathau C, Sanders M, Oyola SO, Okouga AP, Boundenga L, Willaume E, Ngoubangoye B, Moukodoum ND, Paupy C, Durand P, Rougeron V, ... ... Berriman M, et al. Genomes of all known members of a Plasmodium subgenus reveal paths to virulent human malaria. Nature Microbiology. PMID 29784978 DOI: 10.1038/S41564-018-0162-2  0.704
2018 Roquis D, Taudt A, Geyer KK, Padalino G, Hoffmann KF, Holroyd N, Berriman M, Aliaga B, Chaparro C, Grunau C, Augusto RdC. Histone methylation changes are required for life cycle progression in the human parasite Schistosoma mansoni. Plos Pathogens. 14: 1007066. PMID 29782530 DOI: 10.1371/Journal.Ppat.1007066  0.694
2018 Bolt BJ, Rodgers FH, Shafie M, Kersey PJ, Berriman M, Howe KL. Using WormBase ParaSite: An Integrated Platform for Exploring Helminth Genomic Data. Methods in Molecular Biology (Clifton, N.J.). 1757: 471-491. PMID 29761467 DOI: 10.1007/978-1-4939-7737-6_15  0.86
2018 Reid AJ, Talman AM, Bennett HM, Gomes AR, Sanders MJ, Illingworth CJR, Billker O, Berriman M, Lawniczak MK. Single-cell RNA-seq reveals hidden transcriptional variation in malaria parasites. Elife. 7. PMID 29580379 DOI: 10.7554/Elife.33105  0.674
2018 Wendt GR, Collins JN, Pei J, Pearson MS, Bennett HM, Loukas A, Berriman M, Grishin NV, Collins JJ. Flatworm-specific transcriptional regulators promote the specification of tegumental progenitors in. Elife. 7. PMID 29557781 DOI: 10.7554/Elife.33221  0.411
2018 Sallé G, Laing R, Cotton JA, Maitland K, Martinelli A, Holroyd N, Tracey A, Berriman M, Smith WD, Newlands GFJ, Hanks E, Devaney E, Britton C. Transcriptomic profiling of nematode parasites surviving vaccine exposure. International Journal For Parasitology. PMID 29534987 DOI: 10.1016/J.Ijpara.2018.01.004  0.794
2018 Gilchrist CA, Cotton JA, Burkey C, Arju T, Gilmartin A, Lin Y, Ahmed E, Steiner K, Alam M, Ahmed S, Robinson G, Zaman SU, Kabir M, Sanders M, Chalmers RM, ... ... Berriman M, et al. Genetic diversity of Cryptosporidium hominis in a Bangladeshi community as revealed by whole genome sequencing. The Journal of Infectious Diseases. PMID 29514308 DOI: 10.1093/Infdis/Jiy121  0.629
2018 Böhme U, Otto TD, Cotton J, Steinbiss S, Sanders M, Oyola SO, Nicot A, Gandon S, Patra KP, Herd C, Bushell E, Modrzynska KK, Billker O, Vinetz JM, Rivero A, ... ... Berriman M, et al. Complete avian malaria parasite genomes reveal features associated with lineage specific evolution in birds and mammals. Genome Research. PMID 29500236 DOI: 10.1101/Gr.218123.116  0.772
2018 Hahnel S, Wheeler N, Lu Z, Wangwiwatsin A, McVeigh P, Maule A, Berriman M, Day T, Ribeiro P, Grevelding CG. Tissue-specific transcriptome analyses provide new insights into GPCR signalling in adult Schistosoma mansoni. Plos Pathogens. 14: e1006718. PMID 29346437 DOI: 10.1371/Journal.Ppat.1006718  0.83
2018 Ittiprasert W, Mann VH, Karinshak SE, Coghlan A, Rinaldi G, Sankaranarayanan G, Chaidee A, Tanno T, Kumkhaek C, Prangtaworn P, Mentink-Kane MM, Cochran CJ, Driguez P, Holroyd N, Tracey A, ... ... Berriman M, et al. Author response: Programmed genome editing of the omega-1 ribonuclease of the blood fluke, Schistosoma mansoni Elife. DOI: 10.7554/Elife.41337.025  0.342
2018 Reid AJ, Talman AM, Bennett HM, Gomes AR, Sanders MJ, Illingworth CJR, Billker O, Berriman M, Lawniczak MK. Author response: Single-cell RNA-seq reveals hidden transcriptional variation in malaria parasites Elife. DOI: 10.7554/Elife.33105.044  0.344
2018 Coghlan A, Gordon D, Berriman M. Contamination screening of parasitic worm genome assemblies Protocol Exchange. DOI: 10.1038/Protex.2018.038  0.438
2017 Doyle SR, Laing R, Bartley DJ, Britton C, Chaudhry U, Gilleard JS, Holroyd N, Mable BK, Maitland K, Morrison AA, Tait A, Tracey A, Berriman M, Devaney E, Cotton JA, et al. A genome resequencing-based genetic map reveals the recombination landscape of an outbred parasitic nematode in the presence of polyploidy and polyandry. Genome Biology and Evolution. PMID 29267942 DOI: 10.1093/Gbe/Evx269  0.831
2017 Sargison ND, Redman E, Morrison AA, Bartley DJ, Jackson F, Naghra-van Gijzel H, Holroyd N, Berriman M, Cotton JA, Gilleard JS. A method for single pair mating in an obligate parasitic nematode. International Journal For Parasitology. PMID 29111440 DOI: 10.1016/J.Ijpara.2017.08.010  0.767
2017 Lee RYN, Howe KL, Harris TW, Arnaboldi V, Cain S, Chan J, Chen WJ, Davis P, Gao S, Grove C, Kishore R, Muller HM, Nakamura C, Nuin P, Paulini M, ... ... Berriman M, et al. WormBase 2017: molting into a new stage. Nucleic Acids Research. PMID 29069413 DOI: 10.1093/Nar/Gkx998  0.828
2017 Iantorno SA, Durrant C, Khan A, Sanders MJ, Beverley SM, Warren WC, Berriman M, Sacks DL, Cotton JA, Grigg ME. Gene Expression in Leishmania Is Regulated Predominantly by Gene Dosage. Mbio. 8. PMID 28900023 DOI: 10.1128/Mbio.01393-17  0.833
2017 Lu Z, Sessler F, Holroyd N, Hahnel S, Quack T, Berriman M, Grevelding CG. A gene expression atlas of adult Schistosoma mansoni and their gonads. Scientific Data. 4: 170118. PMID 28829433 DOI: 10.1038/Sdata.2017.118  0.801
2017 Pasini EM, Böhme U, Rutledge GG, Voorberg-Van der Wel A, Sanders M, Berriman M, Kocken CH, Otto TD. An improved Plasmodium cynomolgi genome assembly reveals an unexpected methyltransferase gene expansion. Wellcome Open Research. 2: 42. PMID 28748222 DOI: 10.12688/wellcomeopenres.11864.1  0.849
2017 Charnaud SC, Dixon MWA, Nie CQ, Chappell L, Sanders PR, Nebl T, Hanssen E, Berriman M, Chan JA, Blanch AJ, Beeson JG, Rayner JC, Przyborski JM, Tilley L, Crabb BS, et al. The exported chaperone Hsp70-x supports virulence functions for Plasmodium falciparum blood stage parasites. Plos One. 12: e0181656. PMID 28732045 DOI: 10.1371/Journal.Pone.0181656  0.775
2017 Protasio AV, van Dongen S, Collins J, Quintais L, Ribeiro DM, Sessler F, Hunt M, Rinaldi G, Collins JJ, Enright AJ, Berriman M. MiR-277/4989 regulate transcriptional landscape during juvenile to adult transition in the parasitic helminth Schistosoma mansoni. Plos Neglected Tropical Diseases. 11: e0005559. PMID 28542189 DOI: 10.1371/Journal.Pntd.0005559  0.775
2017 Dumetz F, Imamura H, Sanders M, Seblova V, Myskova J, Pescher P, Vanaerschot M, Meehan CJ, Cuypers B, De Muylder G, Späth GF, Bussotti G, Vermeesch JR, Berriman M, Cotton JA, et al. Modulation of Aneuploidy in Leishmania donovani during Adaptation to Different In Vitro and In Vivo Environments and Its Impact on Gene Expression. Mbio. 8. PMID 28536289 DOI: 10.1128/Mbio.00599-17  0.637
2017 Rutledge GG, Marr I, Huang GKL, Auburn S, Marfurt J, Sanders M, White NJ, Berriman M, Newbold CI, Anstey NM, Otto TD, Price RN. Genomic Characterization of Recrudescent Plasmodium malariae after Treatment with Artemether/Lumefantrine. Emerging Infectious Diseases. 23. PMID 28430103 DOI: 10.3201/Eid2308.161582  0.835
2017 Brugat T, Reid AJ, Lin JW, Cunningham D, Tumwine I, Kushinga G, McLaughlin S, Spence P, Böhme U, Sanders M, Conteh S, Bushell E, Metcalf T, Billker O, Duffy PE, ... ... Berriman M, et al. Antibody-independent mechanisms regulate the establishment of chronic Plasmodium infection. Nature Microbiology. 2: 16276. PMID 28165471 DOI: 10.1038/Nmicrobiol.2016.276  0.653
2017 Sutherland CJ, Lansdell P, Sanders M, Muwanguzi J, van Schalkwyk DA, Kaur H, Nolder D, Tucker J, Bennett HM, Otto TD, Berriman M, Patel TA, Lynn R, Gkrania-Klotsas E, Chiodini PL. Pfk13-independent treatment failure in four imported cases of Plasmodium falciparum malaria given artemether-lumefantrine in the UK. Antimicrobial Agents and Chemotherapy. PMID 28137810 DOI: 10.1128/Aac.02382-16  0.57
2017 Rutledge GG, Böhme U, Sanders M, Reid AJ, Cotton JA, Maiga-Ascofare O, Djimdé AA, Apinjoh TO, Amenga-Etego L, Manske M, Barnwell JW, Renaud F, Ollomo B, Prugnolle F, Anstey NM, ... ... Berriman M, et al. Plasmodium malariae and P. ovale genomes provide insights into malaria parasite evolution. Nature. PMID 28117441 DOI: 10.1038/Nature21038  0.836
2016 Auburn S, Böhme U, Steinbiss S, Trimarsanto H, Hostetler J, Sanders M, Gao Q, Nosten F, Newbold CI, Berriman M, Price RN, Otto TD. A new Plasmodium vivax reference sequence with improved assembly of the subtelomeres reveals an abundance of pir genes. Wellcome Open Research. 1: 4. PMID 28008421 DOI: 10.12688/wellcomeopenres.9876.1  0.632
2016 Oyola SO, Ariani CV, Hamilton WL, Kekre M, Amenga-Etego LN, Ghansah A, Rutledge GG, Redmond S, Manske M, Jyothi D, Jacob CG, Otto TD, Rockett K, Newbold CI, Berriman M, et al. Whole genome sequencing of Plasmodium falciparum from dried blood spots using selective whole genome amplification. Malaria Journal. 15: 597. PMID 27998271 DOI: 10.1186/S12936-016-1641-7  0.83
2016 Chan JD, Zhang D, Liu X, Zarowiecki MZ, Berriman M, Marchant JS. Dataset for a Dugesia japonica de novo transcriptome assembly, utilized for defining the voltage-gated like ion channel superfamily. Data in Brief. 9: 1044-1047. PMID 27909700 DOI: 10.1016/J.Dib.2016.11.022  0.732
2016 Howe KL, Bolt BJ, Shafie M, Kersey P, Berriman M. WormBase ParaSite - a comprehensive resource for helminth genomics. Molecular and Biochemical Parasitology. PMID 27899279 DOI: 10.1016/J.Molbiopara.2016.11.005  0.519
2016 Bennuru S, Cotton JA, Ribeiro JM, Grote A, Harsha B, Holroyd N, Mhashilkar A, Molina DM, Randall AZ, Shandling AD, Unnasch TR, Ghedin E, Berriman M, Lustigman S, Nutman TB. Stage-Specific Transcriptome and Proteome Analyses of the Filarial Parasite Onchocerca volvulus and Its Wolbachia Endosymbiont. Mbio. 7. PMID 27881553 DOI: 10.1128/Mbio.02028-16  0.761
2016 Cotton JA, Bennuru S, Grote A, Harsha B, Tracey A, Beech R, Doyle SR, Dunn M, Hotopp JC, Holroyd N, Kikuchi T, Lambert O, Mhashilkar A, Mutowo P, Nursimulu N, ... ... Berriman M, et al. The genome of Onchocerca volvulus, agent of river blindness. Nature Microbiology. 2: 16216. PMID 27869790 DOI: 10.1038/Nmicrobiol.2016.216  0.816
2016 Wyllie S, Roberts AJ, Norval S, Patterson S, Foth BJ, Berriman M, Read KD, Fairlamb AH. Activation of Bicyclic Nitro-drugs by a Novel Nitroreductase (NTR2) in Leishmania. Plos Pathogens. 12: e1005971. PMID 27812217 DOI: 10.1371/Journal.Ppat.1005971  0.8
2016 Chan JD, Zhang D, Liu X, Zarowiecki MZ, Berriman M, Marchant JS. Utilizing the planarian voltage-gated ion channel transcriptome to resolve a role for a Ca(2+) channel in neuromuscular function and regeneration. Biochimica Et Biophysica Acta. PMID 27771293 DOI: 10.1016/J.Bbamcr.2016.10.010  0.718
2016 Suttiprapa S, Rinaldi G, Tsai IJ, Mann VH, Dubrovsky L, Yan HB, Holroyd N, Huckvale T, Durrant C, Protasio AV, Pushkarsky T, Iordanskiy S, Berriman M, Bukrinsky MI, Brindley PJ. HIV-1 Integrates Widely throughout the Genome of the Human Blood Fluke Schistosoma mansoni. Plos Pathogens. 12: e1005931. PMID 27764257 DOI: 10.1371/Journal.Ppat.1005931  0.803
2016 Lu Z, Sessler F, Holroyd N, Hahnel S, Quack T, Berriman M, Grevelding CG. Schistosome sex matters: a deep view into gonad-specific and pairing-dependent transcriptomes reveals a complex gender interplay. Scientific Reports. 6: 31150. PMID 27499125 DOI: 10.1038/Srep31150  0.803
2016 Steinbiss S, Silva-Franco F, Brunk B, Foth B, Hertz-Fowler C, Berriman M, Otto TD. Companion: a web server for annotation and analysis of parasite genomes. Nucleic Acids Research. PMID 27105845 DOI: 10.1093/Nar/Gkw292  0.838
2016 Imamura H, Downing T, Van den Broeck F, Sanders MJ, Rijal S, Sundar S, Mannaert A, Vanaerschot M, Berg M, De Muylder G, Dumetz F, Cuypers B, Maes I, Domagalska M, Decuypere S, ... ... Berriman M, et al. Evolutionary genomics of epidemic visceral leishmaniasis in the Indian subcontinent. Elife. 5. PMID 27003289 DOI: 10.7554/Elife.12613  0.778
2016 Crellen T, Allan F, David S, Durrant C, Huckvale T, Holroyd N, Emery AM, Rollinson D, Aanensen DM, Berriman M, Webster JP, Cotton JA. Whole genome resequencing of the human parasite Schistosoma mansoni reveals population history and effects of selection. Scientific Reports. 6: 20954. PMID 26879532 DOI: 10.1038/Srep20954  0.818
2016 Hunt VL, Tsai IJ, Coghlan A, Reid AJ, Holroyd N, Foth BJ, Tracey A, Cotton JA, Stanley EJ, Beasley H, Bennett HM, Brooks K, Harsha B, Kajitani R, Kulkarni A, ... ... Berriman M, et al. The genomic basis of parasitism in the Strongyloides clade of nematodes. Nature Genetics. PMID 26829753 DOI: 10.1038/Ng.3495  0.827
2016 Weir W, Capewell P, Foth B, Clucas C, Pountain A, Steketee P, Veitch N, Koffi M, De Meeûs T, Kaboré J, Camara M, Cooper A, Tait A, Jamonneau V, Bucheton B, ... Berriman M, et al. Population genomics reveals the origin and asexual evolution of human infective trypanosomes. Elife. 5. PMID 26809473 DOI: 10.7554/Elife.11473  0.775
2016 Wyllie S, Foth BJ, Kelner A, Sokolova AY, Berriman M, Fairlamb AH. Nitroheterocyclic drug resistance mechanisms in Trypanosoma brucei. The Journal of Antimicrobial Chemotherapy. 71: 625-34. PMID 26581221 DOI: 10.1093/Jac/Dkv376  0.766
2016 Kensche PR, Hoeijmakers WA, Toenhake CG, Bras M, Chappell L, Berriman M, Bártfai R. The nucleosome landscape of Plasmodium falciparum reveals chromatin architecture and dynamics of regulatory sequences. Nucleic Acids Research. 44: 2110-24. PMID 26578577 DOI: 10.1093/Nar/Gkv1214  0.762
2016 Howe KL, Bolt BJ, Cain S, Chan J, Chen WJ, Davis P, Done J, Down T, Gao S, Grove C, Harris TW, Kishore R, Lee R, Lomax J, Li Y, ... ... Berriman M, et al. WormBase 2016: expanding to enable helminth genomic research. Nucleic Acids Research. 44: D774-80. PMID 26578572 DOI: 10.1093/Nar/Gkv1217  0.846
2016 Imamura H, Downing T, Broeck FVd, Sanders MJ, Rijal S, Sundar S, Mannaert A, Vanaerschot M, Berg M, Muylder GD, Dumetz F, Cuypers B, Maes I, Domagalska M, Decuypere S, ... ... Berriman M, et al. Author response: Evolutionary genomics of epidemic visceral leishmaniasis in the Indian subcontinent Elife. DOI: 10.7554/Elife.12613.031  0.763
2016 Weir W, Capewell P, Foth B, Clucas C, Pountain A, Steketee P, Veitch N, Koffi M, de Meeûs T, Kaboré J, Camara M, Cooper A, Tait A, Jamonneau V, Bucheton B, ... Berriman M, et al. Population genomics reveals the origin and asexual evolution of human infective trypanosomes Elife. 5. DOI: 10.7554/eLife.11473  0.323
2015 Jackson AP, Otto TD, Aslett M, Armstrong SD, Bringaud F, Schlacht A, Hartley C, Sanders M, Wastling JM, Dacks JB, Acosta-Serrano A, Field MC, Ginger ML, Berriman M. Kinetoplastid Phylogenomics Reveals the Evolutionary Innovations Associated with the Origins of Parasitism. Current Biology : Cb. PMID 26725202 DOI: 10.1016/J.Cub.2015.11.055  0.859
2015 Jones DC, Foth BJ, Urbaniak MD, Patterson S, Ong HB, Berriman M, Fairlamb AH. Genomic and Proteomic Studies on the Mode of Action of Oxaboroles against the African Trypanosome. Plos Neglected Tropical Diseases. 9: e0004299. PMID 26684831 DOI: 10.1371/journal.pntd.0004299  0.799
2015 Jackson AP, Goyard S, Xia D, Foth BJ, Sanders M, Wastling JM, Minoprio P, Berriman M. Global Gene Expression Profiling through the Complete Life Cycle of Trypanosoma vivax. Plos Neglected Tropical Diseases. 9: e0003975. PMID 26266535 DOI: 10.1371/Journal.Pntd.0003975  0.764
2015 Winter AD, Gillan V, Maitland K, Emes RD, Roberts B, McCormack G, Weir W, Protasio AV, Holroyd N, Berriman M, Britton C, Devaney E. A novel member of the let-7 microRNA family is associated with developmental transitions in filarial nematode parasites. Bmc Genomics. 16: 331. PMID 25896062 DOI: 10.1186/S12864-015-1536-Y  0.813
2015 Glover L, Alsford S, Baker N, Turner DJ, Sanchez-Flores A, Hutchinson S, Hertz-Fowler C, Berriman M, Horn D. Genome-scale RNAi screens for high-throughput phenotyping in bloodstream-form African trypanosomes. Nature Protocols. 10: 106-33. PMID 25502887 DOI: 10.1038/Nprot.2015.005  0.686
2015 Zarowiecki M, Berriman M. What helminth genomes have taught us about parasite evolution Parasitology. 142. PMID 25482650 DOI: 10.1017/S0031182014001449  0.83
2015 Shameer S, Logan-Klumpler FJ, Vinson F, Cottret L, Merlet B, Achcar F, Boshart M, Berriman M, Breitling R, Bringaud F, Bütikofer P, Cattanach AM, Bannerman-Chukualim B, Creek DJ, Crouch K, et al. TrypanoCyc: a community-led biochemical pathways database for Trypanosoma brucei. Nucleic Acids Research. 43: D637-44. PMID 25300491 DOI: 10.1093/Nar/Gku944  0.666
2015 Weir W, Capewell P, Foth B, Clucas C, Pountain A, Steketee P, Veitch N, Koffi M, Meeûs TD, Kaboré J, Camara M, Cooper A, Tait A, Jamonneau V, Bucheton B, ... Berriman M, et al. Author response: Population genomics reveals the origin and asexual evolution of human infective trypanosomes Elife. DOI: 10.7554/Elife.11473.025  0.412
2014 Tembo DL, Nyoni B, Murikoli RV, Mukaka M, Milner DA, Berriman M, Rogerson SJ, Taylor TE, Molyneux ME, Mandala WL, Craig AG, Montgomery J. Differential PfEMP1 expression is associated with cerebral malaria pathology. Plos Pathogens. 10: e1004537. PMID 25473835 DOI: 10.1371/Journal.Ppat.1004537  0.412
2014 Vaidya AB, Morrisey JM, Zhang Z, Das S, Daly TM, Otto TD, Spillman NJ, Wyvratt M, Siegl P, Marfurt J, Wirjanata G, Sebayang BF, Price RN, Chatterjee A, Nagle A, ... ... Berriman M, et al. Pyrazoleamide compounds are potent antimalarials that target Na+ homeostasis in intraerythrocytic Plasmodium falciparum. Nature Communications. 5: 5521. PMID 25422853 DOI: 10.1038/Ncomms6521  0.629
2014 Bennett HM, Mok HP, Gkrania-Klotsas E, Tsai IJ, Stanley EJ, Antoun NM, Coghlan A, Harsha B, Traini A, Ribeiro DM, Steinbiss S, Lucas SB, Allinson KS, Price SJ, Santarius TS, ... ... Berriman M, et al. The genome of the sparganosis tapeworm Spirometra erinaceieuropaei isolated from the biopsy of a migrating brain lesion. Genome Biology. 15: 510. PMID 25413302 DOI: 10.1186/S13059-014-0510-3  0.841
2014 Otto TD, Böhme U, Jackson AP, Hunt M, Franke-Fayard B, Hoeijmakers WA, Religa AA, Robertson L, Sanders M, Ogun SA, Cunningham D, Erhart A, Billker O, Khan SM, Stunnenberg HG, ... ... Berriman M, et al. A comprehensive evaluation of rodent malaria parasite genomes and gene expression. Bmc Biology. 12: 86. PMID 25359557 DOI: 10.1186/S12915-014-0086-0  0.833
2014 Hoffmann KF, Brindley PJ, Berriman M. Medicine. Halting harmful helminths. Science (New York, N.Y.). 346: 168-9. PMID 25301604 DOI: 10.1126/Science.1261139  0.303
2014 Oyola SO, Manske M, Campino S, Claessens A, Hamilton WL, Kekre M, Drury E, Mead D, Gu Y, Miles A, MacInnis B, Newbold C, Berriman M, Kwiatkowski DP. Optimized whole-genome amplification strategy for extremely AT-biased template. Dna Research : An International Journal For Rapid Publication of Reports On Genes and Genomes. 21: 661-71. PMID 25240466 DOI: 10.1093/Dnares/Dsu028  0.468
2014 Otto TD, Rayner JC, Böhme U, Pain A, Spottiswoode N, Sanders M, Quail M, Ollomo B, Renaud F, Thomas AW, Prugnolle F, Conway DJ, Newbold C, Berriman M. Genome sequencing of chimpanzee malaria parasites reveals possible pathways of adaptation to human hosts. Nature Communications. 5: 4754. PMID 25203297 DOI: 10.1038/Ncomms5754  0.708
2014 Christoffels A, Masiga D, Berriman M, Lehane M, Touré Y, Aksoy S. International glossina genome initiative 2004-2014: a driver for post-genomic era research on the African continent. Plos Neglected Tropical Diseases. 8: e3024. PMID 25144472 DOI: 10.1371/Journal.Pntd.0003024  0.483
2014 Reid AJ, Blake DP, Ansari HR, Billington K, Browne HP, Bryant J, Dunn M, Hung SS, Kawahara F, Miranda-Saavedra D, Malas TB, Mourier T, Naghra H, Nair M, Otto TD, ... ... Berriman M, et al. Genomic analysis of the causative agents of coccidiosis in domestic chickens. Genome Research. 24: 1676-85. PMID 25015382 DOI: 10.1101/Gr.168955.113  0.849
2014 Sotillo J, Sanchez-Flores A, Cantacessi C, Harcus Y, Pickering D, Bouchery T, Camberis M, Tang SC, Giacomin P, Mulvenna J, Mitreva M, Berriman M, LeGros G, Maizels RM, Loukas A. Secreted proteomes of different developmental stages of the gastrointestinal nematode Nippostrongylus brasiliensis. Molecular & Cellular Proteomics : McP. 13: 2736-51. PMID 24994561 DOI: 10.1074/Mcp.M114.038950  0.69
2014 Foth BJ, Tsai IJ, Reid AJ, Bancroft AJ, Nichol S, Tracey A, Holroyd N, Cotton JA, Stanley EJ, Zarowiecki M, Liu JZ, Huckvale T, Cooper PJ, Grencis RK, Berriman M. Whipworm genome and dual-species transcriptome analyses provide molecular insights into an intimate host-parasite interaction. Nature Genetics. 46: 693-700. PMID 24929830 DOI: 10.1038/Ng.3010  0.838
2014 Jackson AP, Otto TD, Darby A, Ramaprasad A, Xia D, Echaide IE, Farber M, Gahlot S, Gamble J, Gupta D, Gupta Y, Jackson L, Malandrin L, Malas TB, Moussa E, ... ... Berriman M, et al. The evolutionary dynamics of variant antigen genes in Babesia reveal a history of genomic innovation underlying host-parasite interaction. Nucleic Acids Research. 42: 7113-31. PMID 24799432 DOI: 10.1093/Nar/Gku322  0.844
2014 Watanabe J, Hattori M, Berriman M, Lehane MJ, Hall N, Solano P, Aksoy S, Hide W, Touré Y, Attardo GM, Darby AC, Toyoda A, Hertz-Fowler C, Larkin DM, Cotton JA, et al. Genome sequence of the tsetse fly (Glossina morsitans ): Vector of African trypanosomiasis Science. 344: 380-386. PMID 24763584 DOI: 10.1126/Science.1249656  0.677
2014 Aksoy S, Attardo G, Berriman M, Christoffels A, Lehane M, Masiga D, Toure Y. Human African trypanosomiasis research gets a boost: unraveling the tsetse genome. Plos Neglected Tropical Diseases. 8: e2624. PMID 24762859 DOI: 10.1371/Journal.Pntd.0002624  0.42
2014 Brochet M, Collins MO, Smith TK, Thompson E, Sebastian S, Volkmann K, Schwach F, Chappell L, Gomes AR, Berriman M, Rayner JC, Baker DA, Choudhary J, Billker O. Phosphoinositide metabolism links cGMP-dependent protein kinase G to essential Ca²⁺ signals at key decision points in the life cycle of malaria parasites. Plos Biology. 12: e1001806. PMID 24594931 DOI: 10.1371/Journal.Pbio.1001806  0.757
2014 Hunt M, Newbold C, Berriman M, Otto TD. A comprehensive evaluation of assembly scaffolding tools. Genome Biology. 15: R42. PMID 24581555 DOI: 10.1186/Gb-2014-15-3-R42  0.773
2014 Cotton JA, Lilley CJ, Jones LM, Kikuchi T, Reid AJ, Thorpe P, Tsai IJ, Beasley H, Blok V, Cock PJ, Eves-van den Akker S, Holroyd N, Hunt M, Mantelin S, Naghra H, ... ... Berriman M, et al. The genome and life-stage specific transcriptomes of Globodera pallida elucidate key aspects of plant parasitism by a cyst nematode. Genome Biology. 15: R43. PMID 24580726 DOI: 10.1186/Gb-2014-15-3-R43  0.833
2014 Sinha A, Hughes KR, Modrzynska KK, Otto TD, Pfander C, Dickens NJ, Religa AA, Bushell E, Graham AL, Cameron R, Kafsack BF, Williams AE, Llinás M, Berriman M, Billker O, et al. A cascade of DNA-binding proteins for sexual commitment and development in Plasmodium. Nature. 507: 253-7. PMID 24572359 DOI: 10.1038/Nature12970  0.597
2014 Rogers MB, Downing T, Smith BA, Imamura H, Sanders M, Svobodova M, Volf P, Berriman M, Cotton JA, Smith DF. Genomic confirmation of hybridisation and recent inbreeding in a vector-isolated Leishmania population. Plos Genetics. 10: e1004092. PMID 24453988 DOI: 10.1371/Journal.Pgen.1004092  0.782
2014 Tsai IJ, Hunt M, Holroyd N, Huckvale T, Berriman M, Kikuchi T. Summarizing specific profiles in illumina sequencing from whole-genome amplified DNA Dna Research. 21: 243-254. PMID 24353264 DOI: 10.1093/Dnares/Dst054  0.807
2014 Harris TW, Baran J, Bieri T, Cabunoc A, Chan J, Chen WJ, Davis P, Done J, Grove C, Howe K, Kishore R, Lee R, Li Y, Muller HM, Nakamura C, ... ... Berriman M, et al. WormBase 2014: new views of curated biology. Nucleic Acids Research. 42: D789-93. PMID 24194605 DOI: 10.1093/Nar/Gkt1063  0.403
2014 Rogers MB, Downing T, Smith BA, Imamura H, Sanders M, Svobodová M, Volf P, Berriman M, Cotton JA, Smith DF. Changes in SNP coverage depth pinpoint recombination breakpoints. Plos Genetics. DOI: 10.1371/Journal.Pgen.1004092.G005  0.691
2013 Valentim CL, Cioli D, Chevalier FD, Cao X, Taylor AB, Holloway SP, Pica-Mattoccia L, Guidi A, Basso A, Tsai IJ, Berriman M, Carvalho-Queiroz C, Almeida M, Aguilar H, Frantz DE, et al. Genetic and molecular basis of drug resistance and species-specific drug action in schistosome parasites. Science (New York, N.Y.). 342: 1385-9. PMID 24263136 DOI: 10.1126/Science.1243106  0.702
2013 Laing R, Kikuchi T, Martinelli A, Tsai IJ, Beech RN, Redman E, Holroyd N, Bartley DJ, Beasley H, Britton C, Curran D, Devaney E, Gilabert A, Hunt M, Jackson F, ... ... Berriman M, et al. The genome and transcriptome of Haemonchus contortus, a key model parasite for drug and vaccine discovery. Genome Biology. 14: R88. PMID 23985316 DOI: 10.1186/Gb-2013-14-8-R88  0.848
2013 Lemieux JE, Kyes SA, Otto TD, Feller AI, Eastman RT, Pinches RA, Berriman M, Su XZ, Newbold CI. Genome-wide profiling of chromosome interactions in Plasmodium falciparum characterizes nuclear architecture and reconfigurations associated with antigenic variation. Molecular Microbiology. 90: 519-37. PMID 23980881 DOI: 10.1111/Mmi.12381  0.603
2013 Spence PJ, Jarra W, Lévy P, Reid AJ, Chappell L, Brugat T, Sanders M, Berriman M, Langhorne J. Vector transmission regulates immune control of Plasmodium virulence Nature. 498: 228-231. PMID 23719378 DOI: 10.1038/Nature12231  0.821
2013 Hunt M, Kikuchi T, Sanders M, Newbold C, Berriman M, Otto TD. REAPR: a universal tool for genome assembly evaluation. Genome Biology. 14: R47. PMID 23710727 DOI: 10.1186/Gb-2013-14-5-R47  0.791
2013 Miotto O, Almagro-Garcia J, Manske M, Macinnis B, Campino S, Rockett KA, Amaratunga C, Lim P, Suon S, Sreng S, Anderson JM, Duong S, Nguon C, Chuor CM, Saunders D, ... ... Berriman M, et al. Multiple populations of artemisinin-resistant Plasmodium falciparum in Cambodia. Nature Genetics. 45: 648-55. PMID 23624527 DOI: 10.1038/Ng.2624  0.351
2013 Jackson AP, Allison HC, Barry JD, Field MC, Hertz-Fowler C, Berriman M. A cell-surface phylome for African trypanosomes. Plos Neglected Tropical Diseases. 7: e2121. PMID 23556014 DOI: 10.1371/Journal.Pntd.0002121  0.358
2013 Protasio AV, Dunne DW, Berriman M. Comparative study of transcriptome profiles of mechanical- and skin-transformed Schistosoma mansoni schistosomula. Plos Neglected Tropical Diseases. 7: e2091. PMID 23516644 DOI: 10.1371/Journal.Pntd.0002091  0.765
2013 Tsai IJ, Zarowiecki M, Holroyd N, Garciarrubio A, Sanchez-Flores A, Brooks KL, Tracey A, Bobes RJ, Fragoso G, Sciutto E, Aslett M, Beasley H, Bennett HM, Cai J, Camicia F, ... ... Berriman M, et al. The genomes of four tapeworm species reveal adaptations to parasitism. Nature. 496: 57-63. PMID 23485966 DOI: 10.1038/Nature12031  0.835
2013 Saunders GI, Wasmuth JD, Beech R, Laing R, Hunt M, Naghra H, Cotton JA, Berriman M, Britton C, Gilleard JS. Characterization and comparative analysis of the complete Haemonchus contortus β-tubulin gene family and implications for benzimidazole resistance in strongylid nematodes. International Journal For Parasitology. 43: 465-75. PMID 23416426 DOI: 10.1016/J.Ijpara.2012.12.011  0.762
2013 Reid AJ, Berriman M. Genes involved in host-parasite interactions can be revealed by their correlated expression. Nucleic Acids Research. 41: 1508-18. PMID 23275547 DOI: 10.1093/Nar/Gks1340  0.665
2013 Oyola SO, Gu Y, Manske M, Otto TD, O'Brien J, Alcock D, Macinnis B, Berriman M, Newbold CI, Kwiatkowski DP, Swerdlow HP, Quail MA. Efficient depletion of host DNA contamination in malaria clinical sequencing. Journal of Clinical Microbiology. 51: 745-51. PMID 23224084 DOI: 10.1128/Jcm.02507-12  0.616
2013 Pasini EM, Braks JA, Fonager J, Klop O, Aime E, Spaccapelo R, Otto TD, Berriman M, Hiss JA, Thomas AW, Mann M, Janse CJ, Kocken CH, Franke-Fayard B. Proteomic and genetic analyses demonstrate that Plasmodium berghei blood stages export a large and diverse repertoire of proteins. Molecular & Cellular Proteomics : McP. 12: 426-48. PMID 23197789 DOI: 10.1074/Mcp.M112.021238  0.596
2013 Zerlotini A, Aguiar ER, Yu F, Xu H, Li Y, Young ND, Gasser RB, Protasio AV, Berriman M, Roos DS, Kissinger JC, Oliveira G. SchistoDB: an updated genome resource for the three key schistosomes of humans. Nucleic Acids Research. 41: D728-31. PMID 23161692 DOI: 10.1093/Nar/Gks1087  0.786
2013 Carver T, Harris SR, Otto TD, Berriman M, Parkhill J, McQuillan JA. BamView: visualizing and interpretation of next-generation sequencing read alignments. Briefings in Bioinformatics. 14: 203-12. PMID 22253280 DOI: 10.1093/Bib/Bbr073  0.611
2012 Parkinson J, Wasmuth JD, Salinas G, Bizarro CV, Sanford C, Berriman M, Ferreira HB, Zaha A, Blaxter ML, Maizels RM, Fernández C. A transcriptomic analysis of Echinococcus granulosus larval stages: implications for parasite biology and host adaptation. Plos Neglected Tropical Diseases. 6: e1897. PMID 23209850 DOI: 10.1371/Journal.Pntd.0001897  0.433
2012 Stoltzfus JD, Minot S, Berriman M, Nolan TJ, Lok JB. RNAseq analysis of the parasitic nematode Strongyloides stercoralis reveals divergent regulation of canonical dauer pathways. Plos Neglected Tropical Diseases. 6: e1854. PMID 23145190 DOI: 10.1371/Journal.Pntd.0001854  0.441
2012 Wang J, Mitreva M, Berriman M, Thorne A, Magrini V, Koutsovoulos G, Kumar S, Blaxter ML, Davis RE. Silencing of germline-expressed genes by DNA elimination in somatic cells. Developmental Cell. 23: 1072-80. PMID 23123092 DOI: 10.1016/J.Devcel.2012.09.020  0.461
2012 Rinaldi G, Eckert SE, Tsai IJ, Suttiprapa S, Kines KJ, Tort JF, Mann VH, Turner DJ, Berriman M, Brindley PJ. Germline transgenesis and insertional mutagenesis in Schistosoma mansoni mediated by murine leukemia virus. Plos Pathogens. 8: e1002820. PMID 22911241 DOI: 10.1371/Journal.Ppat.1002820  0.819
2012 Vanaerschot M, Decuypere S, Downing T, Imamura H, Stark O, De Doncker S, Roy S, Ostyn B, Maes L, Khanal B, Boelaert M, Schönian G, Berriman M, Chappuis F, Dujardin JC, et al. Genetic markers for SSG resistance in Leishmania donovani and SSG treatment failure in visceral leishmaniasis patients of the Indian subcontinent. The Journal of Infectious Diseases. 206: 752-5. PMID 22753945 DOI: 10.1093/Infdis/Jis424  0.707
2012 Manske M, Miotto O, Campino S, Auburn S, Almagro-Garcia J, Maslen G, O'Brien J, Djimde A, Doumbo O, Zongo I, Ouedraogo JB, Michon P, Mueller I, Siba P, Nzila A, ... ... Berriman M, et al. Analysis of Plasmodium falciparum diversity in natural infections by deep sequencing. Nature. 487: 375-9. PMID 22722859 DOI: 10.1038/Nature11174  0.459
2012 Swain MT, Tsai IJ, Assefa SA, Newbold C, Berriman M, Otto TD. A post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs. Nature Protocols. 7: 1260-84. PMID 22678431 DOI: 10.1038/Nprot.2012.068  0.791
2012 Parikh PP, Zheng J, Logan-Klumpler F, Stoeckert CJ, Louis C, Topalis P, Protasio AV, Sheth AP, Carrington M, Berriman M, Sahoo SS. The Ontology for Parasite Lifecycle (OPL): towards a consistent vocabulary of lifecycle stages in parasitic organisms. Journal of Biomedical Semantics. 3: 5. PMID 22621763 DOI: 10.1186/2041-1480-3-5  0.787
2012 Lawton J, Brugat T, Yan YX, Reid AJ, Böhme U, Otto TD, Pain A, Jackson A, Berriman M, Cunningham D, Preiser P, Langhorne J. Characterization and gene expression analysis of the cir multi-gene family of Plasmodium chabaudi chabaudi (AS). Bmc Genomics. 13: 125. PMID 22458863 DOI: 10.1186/1471-2164-13-125  0.756
2012 Reid AJ, Vermont SJ, Cotton JA, Harris D, Hill-Cawthorne GA, Könen-Waisman S, Latham SM, Mourier T, Norton R, Quail MA, Sanders M, Shanmugam D, Sohal A, Wasmuth JD, Brunk B, ... ... Berriman M, et al. Comparative genomics of the apicomplexan parasites Toxoplasma gondii and Neospora caninum: Coccidia differing in host range and transmission strategy. Plos Pathogens. 8: e1002567. PMID 22457617 DOI: 10.1371/Journal.Ppat.1002567  0.781
2012 Jackson AP, Berry A, Aslett M, Allison HC, Burton P, Vavrova-Anderson J, Brown R, Browne H, Corton N, Hauser H, Gamble J, Gilderthorp R, Marcello L, McQuillan J, Otto TD, ... ... Berriman M, et al. Antigenic diversity is generated by distinct evolutionary mechanisms in African trypanosome species. Proceedings of the National Academy of Sciences of the United States of America. 109: 3416-21. PMID 22331916 DOI: 10.1073/Pnas.1117313109  0.819
2012 Alsford S, Eckert S, Baker N, Glover L, Sanchez-Flores A, Leung KF, Turner DJ, Field MC, Berriman M, Horn D. High-throughput decoding of antitrypanosomal drug efficacy and resistance. Nature. 482: 232-6. PMID 22278056 DOI: 10.1038/Nature10771  0.655
2012 Protasio AV, Tsai IJ, Babbage A, Nichol S, Hunt M, Aslett MA, De Silva N, Velarde GS, Anderson TJ, Clark RC, Davidson C, Dillon GP, Holroyd NE, LoVerde PT, Lloyd C, ... ... Berriman M, et al. A systematically improved high quality genome and transcriptome of the human blood fluke Schistosoma mansoni. Plos Neglected Tropical Diseases. 6: e1455. PMID 22253936 DOI: 10.1371/Journal.Pntd.0001455  0.85
2012 Winter AD, Weir W, Hunt M, Berriman M, Gilleard JS, Devaney E, Britton C. Diversity in parasitic nematode genomes: the microRNAs of Brugia pahangi and Haemonchus contortus are largely novel. Bmc Genomics. 13: 4. PMID 22216965 DOI: 10.1186/1471-2164-13-4  0.709
2012 Carver T, Harris SR, Berriman M, Parkhill J, McQuillan JA. Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data. Bioinformatics (Oxford, England). 28: 464-9. PMID 22199388 DOI: 10.1093/Bioinformatics/Btr703  0.401
2012 Downing T, Stark O, Vanaerschot M, Imamura H, Sanders M, Decuypere S, de Doncker S, Maes I, Rijal S, Sundar S, Dujardin JC, Berriman M, Schönian G. Genome-wide SNP and microsatellite variation illuminate population-level epidemiology in the Leishmania donovani species complex. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 12: 149-59. PMID 22119748 DOI: 10.1016/J.Meegid.2011.11.005  0.704
2012 Logan-Klumpler FJ, De Silva N, Boehme U, Rogers MB, Velarde G, McQuillan JA, Carver T, Aslett M, Olsen C, Subramanian S, Phan I, Farris C, Mitra S, Ramasamy G, Wang H, ... ... Berriman M, et al. GeneDB--an annotation database for pathogens. Nucleic Acids Research. 40: D98-108. PMID 22116062 DOI: 10.1093/Nar/Gkr1032  0.82
2012 Liu R, He X, Lehane S, Lehane M, Hertz-Fowler C, Berriman M, Field LM, Zhou JJ. Expression of chemosensory proteins in the tsetse fly Glossina morsitans morsitans is related to female host-seeking behaviour. Insect Molecular Biology. 21: 41-8. PMID 22074189 DOI: 10.1111/J.1365-2583.2011.01114.X  0.361
2012 Yook K, Harris TW, Bieri T, Cabunoc A, Chan J, Chen WJ, Davis P, de la Cruz N, Duong A, Fang R, Ganesan U, Grove C, Howe K, Kadam S, Kishore R, ... ... Berriman M, et al. WormBase 2012: more genomes, more data, new website. Nucleic Acids Research. 40: D735-41. PMID 22067452 DOI: 10.1093/Nar/Gkr954  0.311
2012 Reid AJ, Berriman M. Genes involved in malarial host-parasite interactions can be revealed by their correlated expression F1000research. 3. DOI: 10.7490/F1000Research.1092068.1  0.403
2012 Imamura H, Mannaert A, Downing T, Berriman M, Dujardin J. In the Shadow of the Genome: A Challenging Journey to Diversity in Leishmania donovani Embnet.Journal. 17: 37. DOI: 10.14806/Ej.17.B.271  0.754
2011 Guida A, Lindstädt C, Maguire SL, Ding C, Higgins DG, Corton NJ, Berriman M, Butler G. Using RNA-seq to determine the transcriptional landscape and the hypoxic response of the pathogenic yeast Candida parapsilosis. Bmc Genomics. 12: 628. PMID 22192698 DOI: 10.1186/1471-2164-12-628  0.421
2011 Choi YJ, Ghedin E, Berriman M, McQuillan J, Holroyd N, Mayhew GF, Christensen BM, Michalski ML. A deep sequencing approach to comparatively analyze the transcriptome of lifecycle stages of the filarial worm, brugia malayi Plos Neglected Tropical Diseases. 5. PMID 22180794 DOI: 10.1371/Journal.Pntd.0001409  0.764
2011 Rogers MB, Hilley JD, Dickens NJ, Wilkes J, Bates PA, Depledge DP, Harris D, Her Y, Herzyk P, Imamura H, Otto TD, Sanders M, Seeger K, Dujardin JC, Berriman M, et al. Chromosome and gene copy number variation allow major structural change between species and strains of Leishmania. Genome Research. 21: 2129-42. PMID 22038252 DOI: 10.1101/Gr.122945.111  0.609
2011 Downing T, Imamura H, Decuypere S, Clark TG, Coombs GH, Cotton JA, Hilley JD, de Doncker S, Maes I, Mottram JC, Quail MA, Rijal S, Sanders M, Schönian G, Stark O, ... ... Berriman M, et al. Whole genome sequencing of multiple Leishmania donovani clinical isolates provides insights into population structure and mechanisms of drug resistance. Genome Research. 21: 2143-56. PMID 22038251 DOI: 10.1101/Gr.123430.111  0.786
2011 Kikuchi T, Cotton JA, Dalzell JJ, Hasegawa K, Kanzaki N, McVeigh P, Takanashi T, Tsai IJ, Assefa SA, Cock PJ, Otto TD, Hunt M, Reid AJ, Sanchez-Flores A, Tsuchihara K, ... ... Berriman M, et al. Genomic insights into the origin of parasitism in the emerging plant pathogen Bursaphelenchus xylophilus. Plos Pathogens. 7: e1002219. PMID 21909270 DOI: 10.1371/Journal.Ppat.1002219  0.843
2011 Laing R, Hunt M, Protasio AV, Saunders G, Mungall K, Laing S, Jackson F, Quail M, Beech R, Berriman M, Gilleard JS. Annotation of two large contiguous regions from the Haemonchus contortus genome using RNA-seq and comparative analysis with Caenorhabditis elegans. Plos One. 6: e23216. PMID 21858033 DOI: 10.1371/Journal.Pone.0023216  0.847
2011 Bringaud F, Berriman M, Hertz-Fowler C. TSIDER1, a short and non-autonomous Salivarian trypanosome-specific retroposon related to the ingi6 subclade. Molecular and Biochemical Parasitology. 179: 30-6. PMID 21664383 DOI: 10.1016/J.Molbiopara.2011.05.007  0.413
2011 Parsons M, Myler PJ, Berriman M, Roos DS, Stuart KD. Identity crisis? The need for systematic gene IDs. Trends in Parasitology. 27: 183-4. PMID 21474380 DOI: 10.1016/J.Pt.2011.02.007  0.485
2011 Alsford S, Turner DJ, Obado SO, Sanchez-Flores A, Glover L, Berriman M, Hertz-Fowler C, Horn D. High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome. Genome Research. 21: 915-24. PMID 21363968 DOI: 10.1101/Gr.115089.110  0.744
2011 Otto TD, Dillon GP, Degrave WS, Berriman M. RATT: Rapid Annotation Transfer Tool. Nucleic Acids Research. 39: e57. PMID 21306991 DOI: 10.1093/Nar/Gkq1268  0.84
2010 Nygaard S, Braunstein A, Malsen G, Van Dongen S, Gardner PP, Krogh A, Otto TD, Pain A, Berriman M, McAuliffe J, Dermitzakis ET, Jeffares DC. Long- and short-term selective forces on malaria parasite genomes. Plos Genetics. 6: e1001099. PMID 20838588 DOI: 10.1371/Journal.Pgen.1001099  0.663
2010 Crowther GJ, Shanmugam D, Carmona SJ, Doyle MA, Hertz-Fowler C, Berriman M, Nwaka S, Ralph SA, Roos DS, Van Voorhis WC, Agüero F. Identification of attractive drug targets in neglected-disease pathogens using an in silico approach. Plos Neglected Tropical Diseases. 4: e804. PMID 20808766 DOI: 10.1371/Journal.Pntd.0000804  0.454
2010 DeMarco R, Mathieson W, Manuel SJ, Dillon GP, Curwen RS, Ashton PD, Ivens AC, Berriman M, Verjovski-Almeida S, Wilson RA. Protein variation in blood-dwelling schistosome worms generated by differential splicing of micro-exon gene transcripts. Genome Research. 20: 1112-21. PMID 20606017 DOI: 10.1101/Gr.100099.109  0.831
2010 Otto TD, Sanders M, Berriman M, Newbold C. Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology. Bioinformatics (Oxford, England). 26: 1704-7. PMID 20562415 DOI: 10.1093/Bioinformatics/Btq269  0.609
2010 Jackson AP, Sanders M, Berry A, McQuillan J, Aslett MA, Quail MA, Chukualim B, Capewell P, MacLeod A, Melville SE, Gibson W, Barry JD, Berriman M, Hertz-Fowler C. The genome sequence of Trypanosoma brucei gambiense, causative agent of chronic human african trypanosomiasis. Plos Neglected Tropical Diseases. 4: e658. PMID 20404998 DOI: 10.1371/Journal.Pntd.0000658  0.776
2010 Tsai IJ, Otto TD, Berriman M. Improving draft assemblies by iterative mapping and assembly of short reads to eliminate gaps. Genome Biology. 11: R41. PMID 20388197 DOI: 10.1186/Gb-2010-11-4-R41  0.766
2010 Alves-Silva J, Ribeiro JM, Van Den Abbeele J, Attardo G, Hao Z, Haines LR, Soares MB, Berriman M, Aksoy S, Lehane MJ. An insight into the sialome of Glossina morsitans morsitans. Bmc Genomics. 11: 213. PMID 20353571 DOI: 10.1186/1471-2164-11-213  0.344
2010 Attardo GM, Ribeiro JM, Wu Y, Berriman M, Aksoy S. Transcriptome analysis of reproductive tissue and intrauterine developmental stages of the tsetse fly (Glossina morsitans morsitans). Bmc Genomics. 11: 160. PMID 20214793 DOI: 10.1186/1471-2164-11-160  0.341
2010 Otto TD, Wilinski D, Assefa S, Keane TM, Sarry LR, Böhme U, Lemieux J, Barrell B, Pain A, Berriman M, Newbold C, Llinás M. New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq. Molecular Microbiology. 76: 12-24. PMID 20141604 DOI: 10.1111/J.1365-2958.2009.07026.X  0.826
2010 Carver T, Böhme U, Otto TD, Parkhill J, Berriman M. BamView: viewing mapped read alignment data in the context of the reference sequence. Bioinformatics (Oxford, England). 26: 676-7. PMID 20071372 DOI: 10.1093/Bioinformatics/Btq010  0.615
2010 Liu R, Lehane S, He X, Lehane M, Hertz-Fowler C, Berriman M, Pickett JA, Field LM, Zhou JJ. Characterisations of odorant-binding proteins in the tsetse fly Glossina morsitans morsitans. Cellular and Molecular Life Sciences : Cmls. 67: 919-29. PMID 20012146 DOI: 10.1007/S00018-009-0221-1  0.313
2010 Aslett M, Aurrecoechea C, Berriman M, Brestelli J, Brunk BP, Carrington M, Depledge DP, Fischer S, Gajria B, Gao X, Gardner MJ, Gingle A, Grant G, Harb OS, Heiges M, et al. TriTrypDB: a functional genomic resource for the Trypanosomatidae. Nucleic Acids Research. 38: D457-62. PMID 19843604 DOI: 10.1093/Nar/Gkp851  0.779
2010 Magariños MP, Overington J, Carmona S, Shanmugam D, Doyle M, Ralph S, Crowther G, Hertz-Fowler C, Nwaka S, Berriman M, Roos D, Van Voorhis W, Agüero F. Designing and implementing chemoinformatic approaches in TDR Targets Database: linking genes to chemical compounds in tropical disease causing pathogens Bmc Bioinformatics. 11. DOI: 10.1186/1471-2105-11-S10-O10  0.38
2009 Warimwe GM, Keane TM, Fegan G, Musyoki JN, Newton CR, Pain A, Berriman M, Marsh K, Bull PC. Plasmodium falciparum var gene expression is modified by host immunity. Proceedings of the National Academy of Sciences of the United States of America. 106: 21801-6. PMID 20018734 DOI: 10.1073/Pnas.0907590106  0.49
2009 Jackson AP, Gamble JA, Yeomans T, Moran GP, Saunders D, Harris D, Aslett M, Barrell JF, Butler G, Citiulo F, Coleman DC, de Groot PW, Goodwin TJ, Quail MA, McQuillan J, ... ... Berriman M, et al. Comparative genomics of the fungal pathogens Candida dubliniensis and Candida albicans. Genome Research. 19: 2231-44. PMID 19745113 DOI: 10.1101/Gr.097501.109  0.784
2009 Bringaud F, Berriman M, Hertz-Fowler C. Trypanosomatid genomes contain several subfamilies of ingi-related retroposons. Eukaryotic Cell. 8: 1532-42. PMID 19666780 DOI: 10.1128/Ec.00183-09  0.391
2009 Berriman M, Haas BJ, LoVerde PT, Wilson RA, Dillon GP, Cerqueira GC, Mashiyama ST, Al-Lazikani B, Andrade LF, Ashton PD, Aslett MA, Bartholomeu DC, Blandin G, Caffrey CR, Coghlan A, et al. The genome of the blood fluke Schistosoma mansoni. Nature. 460: 352-8. PMID 19606141 DOI: 10.1038/Nature08160  0.827
2009 Helm JR, Hertz-Fowler C, Aslett M, Berriman M, Sanders M, Quail MA, Soares MB, Bonaldo MF, Sakurai T, Inoue N, Donelson JE. Analysis of expressed sequence tags from the four main developmental stages of Trypanosoma congolense. Molecular and Biochemical Parasitology. 168: 34-42. PMID 19559733 DOI: 10.1016/J.Molbiopara.2009.06.004  0.763
2009 Assefa S, Keane TM, Otto TD, Newbold C, Berriman M. ABACAS: algorithm-based automatic contiguation of assembled sequences. Bioinformatics (Oxford, England). 25: 1968-9. PMID 19497936 DOI: 10.1093/Bioinformatics/Btp347  0.619
2009 Butler G, Rasmussen MD, Lin MF, Santos MA, Sakthikumar S, Munro CA, Rheinbay E, Grabherr M, Forche A, Reedy JL, Agrafioti I, Arnaud MB, Bates S, Brown AJ, Brunke S, ... ... Berriman M, et al. Evolution of pathogenicity and sexual reproduction in eight Candida genomes. Nature. 459: 657-62. PMID 19465905 DOI: 10.1038/Nature08064  0.474
2009 Kozarewa I, Ning Z, Quail MA, Sanders MJ, Berriman M, Turner DJ. Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of (G+C)-biased genomes. Nature Methods. 6: 291-5. PMID 19287394 DOI: 10.1038/Nmeth.1311  0.408
2009 Carver T, Thomson N, Bleasby A, Berriman M, Parkhill J. DNAPlotter: circular and linear interactive genome visualization. Bioinformatics (Oxford, England). 25: 119-20. PMID 18990721 DOI: 10.1093/Bioinformatics/Btn578  0.337
2008 Jackson AP, Quail MA, Berriman M. Insights into the genome sequence of a free-living Kinetoplastid: Bodo saltans (Kinetoplastida: Euglenozoa). Bmc Genomics. 9: 594. PMID 19068121 DOI: 10.1186/1471-2164-9-594  0.486
2008 Hertz-Fowler C, Figueiredo LM, Quail MA, Becker M, Jackson A, Bason N, Brooks K, Churcher C, Fahkro S, Goodhead I, Heath P, Kartvelishvili M, Mungall K, Harris D, Hauser H, ... ... Berriman M, et al. Telomeric expression sites are highly conserved in Trypanosoma brucei. Plos One. 3: e3527. PMID 18953401 DOI: 10.1371/Journal.Pone.0003527  0.837
2008 Agüero F, Al-Lazikani B, Aslett M, Berriman M, Buckner FS, Campbell RK, Carmona S, Carruthers IM, Chan AW, Chen F, Crowther GJ, Doyle MA, Hertz-Fowler C, Hopkins AL, McAllister G, et al. Genomic-scale prioritization of drug targets: the TDR Targets database. Nature Reviews. Drug Discovery. 7: 900-7. PMID 18927591 DOI: 10.1038/Nrd2684  0.764
2008 Redman E, Grillo V, Saunders G, Packard E, Jackson F, Berriman M, Gilleard JS. Genetics of mating and sex determination in the parasitic nematode Haemonchus contortus Genetics. 180: 1877-1887. PMID 18854587 DOI: 10.1534/Genetics.108.094623  0.381
2008 Carver T, Berriman M, Tivey A, Patel C, Böhme U, Barrell BG, Parkhill J, Rajandream MA. Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database. Bioinformatics (Oxford, England). 24: 2672-6. PMID 18845581 DOI: 10.1093/Bioinformatics/Btn529  0.411
2008 Pain A, Böhme U, Berry AE, Mungall K, Finn RD, Jackson AP, Mourier T, Mistry J, Pasini EM, Aslett MA, Balasubrammaniam S, Borgwardt K, Brooks K, Carret C, Carver TJ, ... ... Berriman M, et al. The genome of the simian and human malaria parasite Plasmodium knowlesi. Nature. 455: 799-803. PMID 18843368 DOI: 10.1038/Nature07306  0.545
2008 Wang J, Hu C, Wu Y, Stuart A, Amemiya C, Berriman M, Toyoda A, Hattori M, Aksoy S. Characterization of the antimicrobial peptide attacin loci from Glossina morsitans. Insect Molecular Biology. 17: 293-302. PMID 18477243 DOI: 10.1111/J.1365-2583.2008.00805.X  0.427
2008 Mourier T, Carret C, Kyes S, Christodoulou Z, Gardner PP, Jeffares DC, Pinches R, Barrell B, Berriman M, Griffiths-Jones S, Ivens A, Newbold C, Pain A. Genome-wide discovery and verification of novel structured RNAs in Plasmodium falciparum. Genome Research. 18: 281-92. PMID 18096748 DOI: 10.1101/Gr.6836108  0.48
2008 Harris MA, Deegan JI, Ireland A, Lomax J, Ashburner M, Tweedie S, Carbon S, Lewis S, Mungall C, Day-Richter J, Eilbeck K, Blake JA, Bult C, Diehl AD, Dolan M, ... ... Berriman M, et al. The Gene Ontology project in 2008 Nucleic Acids Research. 36. PMID 17984083 DOI: 10.1093/Nar/Gkm883  0.393
2008 Tawari B, Ali IK, Scott C, Quail MA, Berriman M, Hall N, Clark CG. Patterns of evolution in the unique tRNA gene arrays of the genus Entamoeba. Molecular Biology and Evolution. 25: 187-98. PMID 17974548 DOI: 10.1093/Molbev/Msm238  0.416
2008 Magee BB, Sanchez MD, Saunders D, Harris D, Berriman M, Magee PT. Extensive chromosome rearrangements distinguish the karyotype of the hypovirulent species Candida dubliniensis from the virulent Candida albicans Fungal Genetics and Biology. 45: 338-350. PMID 17719250 DOI: 10.1016/J.Fgb.2007.07.004  0.34
2008 Chukualim B, Peters N, Fowler CH, Berriman M. TrypanoCyc – a metabolic pathway database for Trypanosoma brucei Bmc Bioinformatics. 9: 5. DOI: 10.1186/1471-2105-9-S10-P5  0.307
2007 Berriman M, Lustigman S, McCarter JP. Genomics and emerging drug discovery technologies. Expert Opinion On Drug Discovery. 2: S83-9. PMID 23489036 DOI: 10.1517/17460441.2.S1.S83  0.497
2007 Haas BJ, Berriman M, Hirai H, Cerqueira GG, Loverde PT, El-Sayed NM. Schistosoma mansoni genome: closing in on a final gene set. Experimental Parasitology. 117: 225-8. PMID 17643433 DOI: 10.1016/J.Exppara.2007.06.005  0.494
2007 Montgomery J, Mphande FA, Berriman M, Pain A, Rogerson SJ, Taylor TE, Molyneux ME, Craig A. Differential var gene expression in the organs of patients dying of falciparum malaria. Molecular Microbiology. 65: 959-67. PMID 17617167 DOI: 10.1111/J.1365-2958.2007.05837.X  0.406
2007 Peacock CS, Seeger K, Harris D, Murphy L, Ruiz JC, Quail MA, Peters N, Adlem E, Tivey A, Aslett M, Kerhornou A, Ivens A, Fraser A, Rajandream MA, Carver T, ... ... Berriman M, et al. Comparative genomic analysis of three Leishmania species that cause diverse human disease. Nature Genetics. 39: 839-47. PMID 17572675 DOI: 10.1038/Ng2053  0.812
2007 van het Hoog M, Rast TJ, Martchenko M, Grindle S, Dignard D, Hogues H, Cuomo C, Berriman M, Scherer S, Magee BB, Whiteway M, Chibana H, Nantel A, Magee PT. Assembly of the Candida albicans genome into sixteen supercontigs aligned on the eight chromosomes. Genome Biology. 8: R52. PMID 17419877 DOI: 10.1186/Gb-2007-8-4-R52  0.44
2007 Ling KH, Rajandream MA, Rivailler P, Ivens A, Yap SJ, Madeira AM, Mungall K, Billington K, Yee WY, Bankier AT, Carroll F, Durham AM, Peters N, Loo SS, Isa MN, ... ... Berriman M, et al. Sequencing and analysis of chromosome 1 of Eimeria tenella reveals a unique segmental organization. Genome Research. 17: 311-9. PMID 17284678 DOI: 10.1101/Gr.5823007  0.431
2007 Geldhof P, Visser A, Clark D, Saunders G, Britton C, Gilleard J, Berriman M, Knox D. RNA interference in parasitic helminths: current situation, potential pitfalls and future prospects. Parasitology. 134: 609-19. PMID 17201997 DOI: 10.1017/S0031182006002071  0.46
2007 Jeffares DC, Pain A, Berry A, Cox AV, Stalker J, Ingle CE, Thomas A, Quail MA, Siebenthall K, Uhlemann AC, Kyes S, Krishna S, Newbold C, Dermitzakis ET, Berriman M. Genome variation and evolution of the malaria parasite Plasmodium falciparum. Nature Genetics. 39: 120-5. PMID 17159978 DOI: 10.1038/Ng1931  0.499
2007 Wilson RA, Ashton PD, Braschi S, Dillon GP, Berriman M, Ivens A. 'Oming in on schistosomes: prospects and limitations for post-genomics. Trends in Parasitology. 23: 14-20. PMID 17097923 DOI: 10.1016/J.Pt.2006.10.002  0.829
2007 Jeffares DC, Pain A, Berry A, Cox AV, Stalker J, Ingle CE, Thomas A, Quail MA, Siebenthall K, Uhlemann A, Kyes S, Krishna S, Newbold C, Dermitzakis ET, Berriman M. Correction: Corrigendum: Genome variation and evolution of the malaria parasite Plasmodium falciparum Nature Genetics. 39: 422-422. DOI: 10.1038/Ng0407-567D  0.431
2007 Jeffares DC, Pain A, Berry A, Cox AV, Stalker J, Ingle CE, Thomas A, Quail MA, Siebenthall K, Uhlemann A, Kyes S, Krishna S, Newbold C, Dermitzakis ET, Berriman M. CORRIGENDUM: Genome variation and evolution of the malaria parasite Plasmodium falciparum Nature Genetics. 39: 422. DOI: 10.1038/Ng0307-422  0.497
2006 Khan A, Böhme U, Kelly KA, Adlem E, Brooks K, Simmonds M, Mungall K, Quail MA, Arrowsmith C, Chillingworth T, Churcher C, Harris D, Collins M, Fosker N, Fraser A, ... ... Berriman M, et al. Common inheritance of chromosome Ia associated with clonal expansion of Toxoplasma gondii. Genome Research. 16: 1119-25. PMID 16902086 DOI: 10.1101/Gr.5318106  0.794
2006 Boyle JP, Rajasekar B, Saeij JP, Ajioka JW, Berriman M, Paulsen I, Roos DS, Sibley LD, White MW, Boothroyd JC. Just one cross appears capable of dramatically altering the population biology of a eukaryotic pathogen like Toxoplasma gondii. Proceedings of the National Academy of Sciences of the United States of America. 103: 10514-9. PMID 16801557 DOI: 10.1073/Pnas.0510319103  0.579
2006 Pain A, Böhme U, Berriman M. Hot and sexy moulds Nature Reviews Microbiology. 4: 244-245. PMID 16602146 DOI: 10.1038/Nrmicro1388  0.385
2006 de Vries E, Corton C, Harris B, Cornelissen AW, Berriman M. Expressed sequence tag (EST) analysis of the erythrocytic stages of Babesia bovis. Veterinary Parasitology. 138: 61-74. PMID 16530971 DOI: 10.1016/J.Vetpar.2006.01.040  0.389
2006 Wu W, Niles EG, El-Sayed N, Berriman M, LoVerde PT. Schistosoma mansoni (Platyhelminthes, Trematoda) nuclear receptors: sixteen new members and a novel subfamily. Gene. 366: 303-15. PMID 16406405 DOI: 10.1016/J.Gene.2005.09.013  0.348
2006 Nierman WC, Pain A, Anderson MJ, Wortman JR, Kim HS, Arroyo J, Berriman M, Abe K, Archer DB, Bermejo C, Bennett J, Bowyer P, Chen D, Collins M, Coulsen R, et al. Erratum: Corrigendum: Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus Nature. 439: 502-502. DOI: 10.1038/Nature04572  0.458
2005 Nierman WC, Pain A, Anderson MJ, Wortman JR, Kim HS, Arroyo J, Berriman M, Abe K, Archer DB, Bermejo C, Bennett J, Bowyer P, Chen D, Collins M, Coulsen R, et al. Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus. Nature. 438: 1151-6. PMID 16372009 DOI: 10.1038/Nature04332  0.498
2005 MacLeod A, Tweedie A, McLellan S, Taylor S, Hall N, Berriman M, El-Sayed NM, Hope M, Turner CM, Tait A. The genetic map and comparative analysis with the physical map of Trypanosoma brucei. Nucleic Acids Research. 33: 6688-93. PMID 16314301 DOI: 10.1093/Nar/Gki980  0.434
2005 Bull PC, Berriman M, Kyes S, Quail MA, Hall N, Kortok MM, Marsh K, Newbold CI. Plasmodium falciparum variant surface antigen expression patterns during malaria. Plos Pathogens. 1: 202-213. PMID 16304608 DOI: 10.1371/Journal.Ppat.0010026  0.487
2005 Barry JD, Marcello L, Morrison LJ, Read AF, Lythgoe K, Jones N, Carrington M, Blandin G, Böhme U, Caler E, Hertz-Fowler C, Renauld H, El-Sayed N, Berriman M. What the genome sequence is revealing about trypanosome antigenic variation Biochemical Society Transactions. 33: 986-989. PMID 16246028 DOI: 10.1042/Bst20050986  0.46
2005 Hertz-Fowler C, Berriman M, Pain A. A feast of protozoan genomes. Nature Reviews Microbiology. 3: 670-671. PMID 16145753 DOI: 10.1038/Nrmicro1237  0.477
2005 Braun BR, van Het Hoog M, d'Enfert C, Martchenko M, Dungan J, Kuo A, Inglis DO, Uhl MA, Hogues H, Berriman M, Lorenz M, Levitin A, Oberholzer U, Bachewich C, Harcus D, et al. A human-curated annotation of the Candida albicans genome. Plos Genetics. 1: 36-57. PMID 16103911 DOI: 10.1371/Journal.Pgen.0010001  0.486
2005 Ivens AC, Peacock CS, Worthey EA, Murphy L, Aggarwal G, Berriman M, Sisk E, Rajandream MA, Adlem E, Aert R, Anupama A, Apostolou Z, Attipoe P, Bason N, Bauser C, et al. The genome of the kinetoplastid parasite, Leishmania major. Science (New York, N.Y.). 309: 436-42. PMID 16020728 DOI: 10.1126/Science.1112680  0.486
2005 Berriman M, Ghedin E, Hertz-Fowler C, Blandin G, Renauld H, Bartholomeu DC, Lennard NJ, Caler E, Hamlin NE, Haas B, Böhme U, Hannick L, Aslett MA, Shallom J, Marcello L, et al. The genome of the African trypanosome Trypanosoma brucei. Science (New York, N.Y.). 309: 416-22. PMID 16020726 DOI: 10.1126/Science.1112642  0.836
2005 El-Sayed NM, Myler PJ, Blandin G, Berriman M, Crabtree J, Aggarwal G, Caler E, Renauld H, Worthey EA, Hertz-Fowler C, Ghedin E, Peacock C, Bartholomeu DC, Haas BJ, Tran AN, et al. Comparative genomics of trypanosomatid parasitic protozoa. Science (New York, N.Y.). 309: 404-9. PMID 16020724 DOI: 10.1126/Science.1112181  0.504
2005 Gardner MJ, Bishop R, Shah T, de Villiers EP, Carlton JM, Hall N, Ren Q, Paulsen IT, Pain A, Berriman M, Wilson RJ, Sato S, Ralph SA, Mann DJ, Xiong Z, et al. Genome sequence of Theileria parva, a bovine pathogen that transforms lymphocytes. Science (New York, N.Y.). 309: 134-7. PMID 15994558 DOI: 10.1126/Science.1110439  0.548
2005 Pain A, Renauld H, Berriman M, Murphy L, Yeats CA, Weir W, Kerhornou A, Aslett M, Bishop R, Bouchier C, Cochet M, Coulson RM, Cronin A, de Villiers EP, Fraser A, et al. Genome of the host-cell transforming parasite Theileria annulata compared with T. parva. Science (New York, N.Y.). 309: 131-3. PMID 15994557 DOI: 10.1126/Science.1110418  0.795
2005 Carver TJ, Rutherford KM, Berriman M, Rajandream MA, Barrell BG, Parkhill J. ACT: the Artemis Comparison Tool. Bioinformatics (Oxford, England). 21: 3422-3. PMID 15976072 DOI: 10.1093/Bioinformatics/Bti553  0.432
2005 Khan A, Taylor S, Su C, Mackey AJ, Boyle J, Cole R, Glover D, Tang K, Paulsen IT, Berriman M, Boothroyd JC, Pfefferkorn ER, Dubey JP, Ajioka JW, Roos DS, et al. Composite genome map and recombination parameters derived from three archetypal lineages of Toxoplasma gondii. Nucleic Acids Research. 33: 2980-92. PMID 15911631 DOI: 10.1093/Nar/Gki604  0.612
2005 Armstrong MR, Whisson SC, Pritchard L, Bos JI, Venter E, Avrova AO, Rehmany AP, Böhme U, Brooks K, Cherevach I, Hamlin N, White B, Fraser A, Lord A, Quail MA, ... ... Berriman M, et al. An ancestral oomycete locus contains late blight avirulence gene Avr3a, encoding a protein that is recognized in the host cytoplasm. Proceedings of the National Academy of Sciences of the United States of America. 102: 7766-71. PMID 15894622 DOI: 10.1073/Pnas.0500113102  0.801
2005 Eichinger L, Pachebat JA, Glöckner G, Rajandream MA, Sucgang R, Berriman M, Song J, Olsen R, Szafranski K, Xu Q, Tunggal B, Kummerfeld S, Madera M, Konfortov BA, Rivero F, et al. The genome of the social amoeba Dictyostelium discoideum. Nature. 435: 43-57. PMID 15875012 DOI: 10.1038/Nature03481  0.431
2005 Neafsey DE, Hartl DL, Berriman M. Evolution of noncoding and silent coding sites in the Plasmodium falciparum and Plasmodium reichenowi genomes. Molecular Biology and Evolution. 22: 1621-6. PMID 15858207 DOI: 10.1093/Molbev/Msi154  0.378
2005 Aslett M, Mooney P, Adlem E, Berriman M, Berry A, Hertz-Fowler C, Ivens AC, Kerhornou A, Parkhill J, Peacock CS, Wood V, Rajandream MA, Barrell B, Tivey A. Integration of tools and resources for display and analysis of genomic data for protozoan parasites. International Journal For Parasitology. 35: 481-93. PMID 15826641 DOI: 10.1016/J.Ijpara.2005.01.011  0.769
2005 Aksoy S, Berriman M, Hall N, Hattori M, Hide W, Lehane MJ. A case for a Glossina genome project. Trends in Parasitology. 21: 107-11. PMID 15734656 DOI: 10.1016/J.Pt.2005.01.006  0.459
2005 Loftus B, Anderson I, Davies R, Alsmark UC, Samuelson J, Amedeo P, Roncaglia P, Berriman M, Hirt RP, Mann BJ, Nozaki T, Suh B, Pop M, Duchene M, Ackers J, et al. The genome of the protist parasite Entamoeba histolytica. Nature. 433: 865-8. PMID 15729342 DOI: 10.1038/Nature03291  0.492
2005 Hall N, Karras M, Raine JD, Carlton JM, Kooij TW, Berriman M, Florens L, Janssen CS, Pain A, Christophides GK, James K, Rutherford K, Harris B, Harris D, Churcher C, et al. A comprehensive survey of the Plasmodium life cycle by genomic, transcriptomic, and proteomic analyses. Science (New York, N.Y.). 307: 82-6. PMID 15637271 DOI: 10.1126/Science.1103717  0.515
2004 Berriman M. Data mining parasite genomes. Parasitology. 128. PMID 16454895 DOI: 10.1017/S0031182004006857  0.422
2004 Martin DM, Berriman M, Barton GJ. GOtcha: a new method for prediction of protein function assessed by the annotation of seven genomes. Bmc Bioinformatics. 5: 178. PMID 15550167 DOI: 10.1186/1471-2105-5-178  0.351
2004 Berry AE, Gardner MJ, Caspers GJ, Roos DS, Berriman M. Curation of the Plasmodium falciparum genome Trends in Parasitology. 20: 548-552. PMID 15522662 DOI: 10.1016/J.Pt.2004.09.003  0.51
2004 Hertz-Fowler C, Berriman M. Continuing tsetse and Trypanosoma genome sequencing projects. Trends in Parasitology. 20: 308-309. PMID 15193559 DOI: 10.1016/J.Pt.2004.04.013  0.403
2004 Berriman M, Harris M. Annotation of parasite genomes. Methods of Molecular Biology. 270: 17-43. PMID 15153621 DOI: 10.1385/1-59259-793-9:017  0.478
2004 Ghedin E, Bringaud F, Peterson J, Myler P, Berriman M, Ivens A, Andersson B, Bontempi E, Eisen J, Angiuoli S, Wanless D, Von Arx A, Murphy L, Lennard N, Salzberg S, et al. Gene synteny and evolution of genome architecture in trypanosomatids. Molecular and Biochemical Parasitology. 134: 183-91. PMID 15003838 DOI: 10.1016/J.Molbiopara.2003.11.012  0.496
2004 Bringaud F, Biteau N, Zuiderwijk E, Berriman M, El-Sayed NM, Ghedin E, Melville SE, Hall N, Baltz T. The ingi and RIME non-LTR retrotransposons are not randomly distributed in the genome of Trypanosoma brucei. Molecular Biology and Evolution. 21: 520-8. PMID 14694076 DOI: 10.1093/Molbev/Msh045  0.431
2004 Hertz-Fowler C, Peacock CS, Wood V, Aslett M, Kerhornou A, Mooney P, Tivey A, Berriman M, Hall N, Rutherford K, Parkhill J, Ivens AC, Rajandream MA, Barrell B. GeneDB: a resource for prokaryotic and eukaryotic organisms. Nucleic Acids Research. 32: D339-43. PMID 14681429 DOI: 10.1093/Nar/Gkh007  0.773
2003 Lehane MJ, Aksoy S, Gibson W, Kerhornou A, Berriman M, Hamilton J, Soares MB, Bonaldo MF, Lehane S, Hall N. Adult midgut expressed sequence tags from the tsetse fly Glossina morsitans morsitans and expression analysis of putative immune response genes Genome Biology. 4: 1-10. PMID 14519198 DOI: 10.1186/Gb-2003-4-10-R63  0.404
2003 Hall N, Berriman M, Lennard NJ, Harris BR, Hertz-Fowler C, Bart-Delabesse EN, Gerrard CS, Atkin RJ, Barron AJ, Bowman S, Bray-Allen SP, Bringaud F, Clark LN, Corton CH, Cronin A, et al. The DNA sequence of chromosome I of an African trypanosome: gene content, chromosome organisation, recombination and polymorphism. Nucleic Acids Research. 31: 4864-73. PMID 12907729 DOI: 10.1093/Nar/Gkg674  0.381
2003 Berriman M, Rutherford K. Viewing and annotating sequence data with Artemis Briefings in Bioinformatics. 4: 124-132. PMID 12846394 DOI: 10.1093/Bib/4.2.124  0.481
2002 Bringaud F, Biteau N, Melville SE, Hez S, El-Sayed NM, Leech V, Berriman M, Hall N, Donelson JE, Baltz T. A new, expressed multigene family containing a hot spot for insertion of retroelements is associated with polymorphic subtelomeric regions of Trypanosoma brucei. Eukaryotic Cell. 1: 137-51. PMID 12455980 DOI: 10.1128/Ec.1.1.137-151.2002  0.448
2002 Hall N, Pain A, Berriman M, Churcher C, Harris B, Harris D, Mungall K, Bowman S, Atkin R, Baker S, Barron A, Brooks K, Buckee CO, Burrows C, Cherevach I, et al. Sequence of Plasmodium falciparum chromosomes 1, 3-9 and 13. Nature. 419: 527-31. PMID 12368867 DOI: 10.1038/Nature01095  0.446
2002 Gardner MJ, Hall N, Fung E, White O, Berriman M, Hyman RW, Carlton JM, Pain A, Nelson KE, Bowman S, Paulsen IT, James K, Eisen JA, Rutherford K, Salzberg SL, et al. Genome sequence of the human malaria parasite Plasmodium falciparum. Nature. 419: 498-511. PMID 12368864 DOI: 10.1038/Nature01097  0.742
2002 Berriman M, Hall N, Sheader K, Bringaud F, Tiwari B, Isobe T, Bowman S, Corton C, Clark L, Cross GA, Hoek M, Zanders T, Berberof M, Borst P, Rudenko G. The architecture of variant surface glycoprotein gene expression sites in Trypanosoma brucei. Molecular and Biochemical Parasitology. 122: 131-40. PMID 12106867 DOI: 10.1016/S0166-6851(02)00092-0  0.755
2001 Berriman M, Aslett M, Hall N, Ivens A. Parasites are GO. Trends in Parasitology. 17: 463-464. PMID 11642257 DOI: 10.1016/S1471-4922(01)02083-9  0.494
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