Works by Otto, Thomas D.

Results: 88

Genomics illuminates parasite biology.

Published in:

Nature Reviews Microbiology, 2014, v. 12, n. 11, p. 727, doi. 10.1038/nrmicro3368

By:

Foth, Bernardo J.;
Otto, Thomas D.

Publication type:

Article

Cereal killers.

Published in:

Nature Reviews Microbiology, 2013, v. 11, n. 11, p. 744, doi. 10.1038/nrmicro3144

By:

Otto, Thomas D.;
Reid, Adam J.

Publication type:

Article

Real-time sequencing.

Published in:

Nature Reviews Microbiology, 2011, v. 9, n. 9, p. 633, doi. 10.1038/nrmicro2638

By:

Otto, Thomas D.

Publication type:

Article

Seeking perfection.

Published in:

Nature Reviews Microbiology, 2010, v. 8, n. 10, p. 681, doi. 10.1038/nrmicro2446

By:

Otto, Thomas D.

Publication type:

Article

A novel computational pipeline for var gene expression augments the discovery of changes in the Plasmodium falciparum transcriptome during transition from in vivo to short-term in vitro culture.

Published in:

eLife, 2024, p. 1, doi. 10.7554/eLife.87726

By:

Andradi-Brown, Clare;
Wichers-Misterek, Jan Stephan;
von Thien, Heidrun;
Höppner, Yannick D.;
Scholz, Judith A. M.;
Hansson, Helle;
Hocke, Emma Filtenborg;
Gilberger, Tim Wolf;
Duffy, Michael F.;
Lavstsen, Thomas;
Baum, Jake;
Otto, Thomas D.;
Cunnington, Aubrey J.;
Bachmann, Anna

Publication type:

Article

Profiling the bloodstream form and procyclic form Trypanosoma brucei cell cycle using single-cell transcriptomics.

Published in:

eLife, 2023, p. 1, doi. 10.7554/eLife.86325

By:

Briggs, Emma M.;
Marques, Catarina A.;
Oldrieve, Guy R.;
Jihua Hu;
Otto, Thomas D.;
Matthews, Keith R.

Publication type:

Article

Double-negative-2 B cells are the major synovial plasma cell precursor in rheumatoid arthritis.

Published in:

Frontiers in Immunology, 2023, p. 1, doi. 10.3389/fimmu.2023.1241474

By:

Wing, Elinor;
Sutherland, Catherine;
Miles, Katherine;
Gray, David;
Goodyear, Carl S.;
Otto, Thomas D.;
Breusch, Stefan;
Cowan, Graeme;
Gray, Mohini

Publication type:

Article

A comprehensive evaluation of rodent malaria parasite genomes and gene expression.

Published in:

BMC Biology, 2014, v. 12, n. 1, p. 2, doi. 10.1186/s12915-014-0086-0

By:

Otto, Thomas D.;
Böhme, Ulrike;
Jackson, Andrew P.;
Hunt, Martin;
Franke-Fayard, Blandine;
Hoeijmakers, Wieteke A. M.;
Religa, Agnieszka A.;
Robertson, Lauren;
Sanders, Mandy;
Ogun, Solabomi A.;
Cunningham, Deirdre;
Erhart, Annette;
Billker, Oliver;
Khan, Shahid M.;
Stunnenberg, Hendrik G.;
Langhorne, Jean;
Holder, Anthony A.;
Waters, Andrew P.;
Newbold, Chris I.;
Pain, Arnab

Publication type:

Article

Transcriptional and genomic parallels between the monoxenous parasite Herpetomonas muscarum and Leishmania.

Published in:

PLoS Genetics, 2019, v. 15, n. 11, p. 1, doi. 10.1371/journal.pgen.1008452

By:

Sloan, Megan A.;
Brooks, Karen;
Otto, Thomas D.;
Sanders, Mandy J.;
Cotton, James A.;
Ligoxygakis, Petros

Publication type:

Article

TrAGEDy—trajectory alignment of gene expression dynamics.

Published in:

Bioinformatics, 2025, v. 41, n. 3, p. 1, doi. 10.1093/bioinformatics/btaf073

By:

Laidlaw, Ross F;
Briggs, Emma M;
Matthews, Keith R;
Mamlouk, Amir Madany;
McCulloch, Richard;
Otto, Thomas D

Publication type:

Article

peaks2utr: a robust Python tool for the annotation of 3′ UTRs.

Published in:

Bioinformatics, 2023, v. 39, n. 3, p. 1, doi. 10.1093/bioinformatics/btad112

By:

Haese-Hill, William;
Crouch, Kathryn;
Otto, Thomas D

Publication type:

Article

Sterile protection against P. vivax malaria by repeated blood stage infection in the Aotus monkey model.

Published in:

Life Science Alliance, 2024, v. 7, n. 3, p. 1, doi. 10.26508/lsa.202302524

By:

Obaldía III, Nicanor;
Da Silva Filho, Joao Luiz;
Nuñez, Marlon;
Glass, Katherine A.;
Oulton, Tate;
Achcar, Fiona;
Wirjanata, Grennady;
Duraisingh, Manoj;
Felgner, Philip;
Tetteh, Kevin K. A.;
Bozdech, Zbynek;
Otto, Thomas D.;
Marti, Matthias

Publication type:

Article

Genetic factors regulating Plasmodium falciparum gametocytogenesis identified by phenotypic screens.

Published in:

Scientific Reports, 2024, v. 14, n. 1, p. 1, doi. 10.1038/s41598-024-82133-z

By:

Pires, Camilla V.;
Chawla, Jyotsna;
Sollelis, Lauriane;
Oberstaller, Jenna;
Zhang, Min;
Wang, Chengqi;
Gibbons, Justin;
Rayner, Julian C.;
Otto, Thomas D.;
Marti, Matthias;
Adams, John H.

Publication type:

Article

RATT: Rapid Annotation Transfer Tool.

Published in:

Nucleic Acids Research, 2011, v. 39, n. 9, p. e57, doi. 10.1093/nar/gkq1268

By:

Otto, Thomas D.;
Dillon, Gary P.;
Degrave, Wim S.;
Berriman, Matthew

Publication type:

Article

Single-cell transcriptomic analysis of bloodstream Trypanosoma brucei reconstructs cell cycle progression and developmental quorum sensing.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-25607-2

By:

Briggs, Emma M.;
Rojas, Federico;
McCulloch, Richard;
Matthews, Keith R.;
Otto, Thomas D.

Publication type:

Article

The apicoplast link to fever-survival and artemisinin-resistance in the malaria parasite.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-24814-1

By:

Zhang, Min;
Wang, Chengqi;
Oberstaller, Jenna;
Thomas, Phaedra;
Otto, Thomas D.;
Casandra, Debora;
Boyapalle, Sandhya;
Adapa, Swamy R.;
Xu, Shulin;
Button-Simons, Katrina;
Mayho, Matthew;
Rayner, Julian C.;
Ferdig, Michael T.;
Jiang, Rays H. Y.;
Adams, John H.

Publication type:

Article

Identification of a conserved var gene in different Plasmodium falciparum strains.

Published in:

Malaria Journal, 2020, v. 19, n. 1, p. 1, doi. 10.1186/s12936-020-03257-x

By:

Dimonte, Sandra;
Bruske, Ellen I.;
Enderes, Corinna;
Otto, Thomas D.;
Turner, Louise;
Kremsner, Peter;
Frank, Matthias

Publication type:

Article

Varia: a tool for prediction, analysis and visualisation of variable genes.

Published in:

BMC Bioinformatics, 2022, v. 23, n. 1, p. 1, doi. 10.1186/s12859-022-04573-6

By:

Mackenzie, Gavin;
Jensen, Rasmus W.;
Lavstsen, Thomas;
Otto, Thomas D.

Publication type:

Article

Generation of Antigenic Diversity in Plasmodium falciparum by Structured Rearrangement of Var Genes During Mitosis.

Published in:

PLoS Genetics, 2014, v. 10, n. 12, p. 1, doi. 10.1371/journal.pgen.1004812

By:

Claessens, Antoine;
Hamilton, William L.;
Kekre, Mihir;
Otto, Thomas D.;
Faizullabhoy, Adnan;
Rayner, Julian C.;
Kwiatkowski, Dominic

Publication type:

Article

Protein KIC5 is a novel regulator of artemisinin stress response in the malaria parasite Plasmodium falciparum.

Published in:

Scientific Reports, 2023, v. 12, n. 1, p. 1, doi. 10.1038/s41598-023-27417-6

By:

Simmons, Caroline F.;
Gibbons, Justin;
Zhang, Min;
Oberstaller, Jenna;
Pires, Camilla Valente;
Casandra, Debora;
Wang, Chengqi;
Seyfang, Andreas;
Otto, Thomas D.;
Rayner, Julian C.;
Adams, John H.

Publication type:

Article

Using topic modeling to detect cellular crosstalk in scRNA-seq.

Published in:

PLoS Computational Biology, 2022, v. 18, n. 4, p. 1, doi. 10.1371/journal.pcbi.1009975

By:

Pancheva, Alexandrina;
Wheadon, Helen;
Rogers, Simon;
Otto, Thomas D.

Publication type:

Article

Low sulfated heparins target multiple proteins for central nervous system repair.

Published in:

Glia (0894-1491), 2019, v. 67, n. 4, p. 668, doi. 10.1002/glia.23562

By:

McCanney, George A.;
McGrath, Michael A.;
Otto, Thomas D.;
Burchmore, Richard;
Yates, Edwin A.;
Bavington, Charles D.;
Willison, Hugh J.;
Turnbull, Jeremy E.;
Barnett, Susan C.

Publication type:

Article

From contigs towards chromosomes: automatic improvement of long read assemblies (ILRA).

Published in:

Briefings in Bioinformatics, 2023, v. 24, n. 4, p. 1, doi. 10.1093/bib/bbad248

By:

Ruiz, José Luis;
Reimering, Susanne;
Escobar-Prieto, Juan David;
Brancucci, Nicolas M B;
Echeverry, Diego F;
Abdi, Abdirahman I;
Marti, Matthias;
Gómez-Díaz, Elena;
Otto, Thomas D

Publication type:

Article

BamView: visualizing and interpretation of next-generation sequencing read alignments.

Published in:

Briefings in Bioinformatics, 2013, v. 14, n. 2, p. 203, doi. 10.1093/bib/bbr073

By:

Carver, Tim;
Harris, Simon R.;
Otto, Thomas D.;
Berriman, Matthew;
Parkhill, Julian;
McQuillan, Jacqueline A.

Publication type:

Article

Common virulence gene expression in adult first-time infected malaria patients and severe cases.

Published in:

eLife, 2021, p. 1, doi. 10.7554/eLife.69040

By:

Wichers, J. Stephan;
Tonkin-Hill, Gerry;
Thye, Thorsten;
Krumkamp, Ralf;
Kreuels, Benno;
Strauss, Jan;
von Thien, Heidrun;
Scholz, Judith A.M.;
Hansson, Helle Smedegaard;
Jensen, Rasmus Weisel;
Turner, Louise;
Lorenz, Freia-Raphaella;
Schöllhorn, Anna;
Bruchhaus, Iris;
Tannich, Egbert;
Fendel, Rolf;
Otto, Thomas D.;
Lavstsen, Thomas;
Gilberger, Tim W.;
Duffy, Michael F.

Publication type:

Article

Single cell and spatial transcriptomic analyses reveal microglia-plasma cell crosstalk in the brain during Trypanosoma brucei infection.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-33542-z

By:

Quintana, Juan F.;
Chandrasegaran, Praveena;
Sinton, Matthew C.;
Briggs, Emma M.;
Otto, Thomas D.;
Heslop, Rhiannon;
Bentley-Abbot, Calum;
Loney, Colin;
de Lecea, Luis;
Mabbott, Neil A.;
MacLeod, Annette

Publication type:

Article

Integrated pathogen load and dual transcriptome analysis of systemic host-pathogen interactions in severe malaria.

Published in:

Science Translational Medicine, 2018, v. 10, n. 447, p. 1, doi. 10.1126/scitranslmed.aar3619

By:

Lee, Hyun Jae;
Georgiadou, Athina;
Walther, Michael;
Nwakanma, Davis;
Stewart, Lindsay B.;
Levin, Michael;
Otto, Thomas D.;
Conway, David J.;
Coin, Lachlan J.;
Cunnington, Aubrey J.

Publication type:

Article

Whole genome sequencing of Plasmodium falciparum from dried blood spots using selective whole genome amplification.

Published in:

Malaria Journal, 2016, v. 15, p. 1, doi. 10.1186/s12936-016-1641-7

By:

Oyola, Samuel O.;
Ariani, Cristina V.;
Hamilton, William L.;
Kekre, Mihir;
Amenga-Etego, Lucas N.;
Ghansah, Anita;
Rutledge, Gavin G.;
Redmond, Seth;
Manske, Magnus;
Jyothi, Dushyanth;
Jacob, Chris G.;
Otto, Thomas D.;
Rockett, Kirk;
Newbold, Chris I.;
Berriman, Matthew;
Kwiatkowski, Dominic P.

Publication type:

Article

A forward genetic screen reveals a primary role for Plasmodium falciparum Reticulocyte Binding Protein Homologue 2a and 2b in determining alternative erythrocyte invasion pathways.

Published in:

PLoS Pathogens, 2018, v. 14, n. 11, p. 1, doi. 10.1371/journal.ppat.1007436

By:

Campino, Susana;
Marin-Menendez, Alejandro;
Kemp, Alison;
Cross, Nadia;
Drought, Laura;
Otto, Thomas D.;
Benavente, Ernest Diez;
Ravenhall, Matt;
Schwach, Frank;
Girling, Gareth;
Manske, Magnus;
Theron, Michel;
Gould, Kelda;
Drury, Eleanor;
Clark, Taane G.;
Kwiatkowski, Dominic P.;
Pance, Alena;
Rayner, Julian C.

Publication type:

Article

Divergent Mitochondrial Respiratory Chains in Phototrophic Relatives of Apicomplexan Parasites.

Published in:

Molecular Biology & Evolution, 2015, v. 32, n. 5, p. 1115, doi. 10.1093/molbev/msv021

By:

Flegontov, Pavel;
Michálek, Jan;
Janouškovec, Jan;
De-Hua Lai;
Jirků, Milan;
Hajdušková, Eva;
Tomčala, Aleš;
Otto, Thomas D.;
Keeling, Patrick J.;
Pain, Arnab;
Oborník, Miroslav;
Lukeš, Julius

Publication type:

Article

IVA: accurate de novo assembly of RNA virus genomes.

Published in:

Bioinformatics, 2015, v. 31, n. 14, p. 2374, doi. 10.1093/bioinformatics/btv120

By:

Hunt, Martin;
Gall, Astrid;
Swee Hoe Ong;
Brener, Jacqui;
Ferns, Bridget;
Goulder, Philip;
Nastouli, Eleni;
Keane, Jacqueline A.;
Kellam, Paul;
Otto, Thomas D.

Publication type:

Article

Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology.

Published in:

Bioinformatics, 2010, v. 26, n. 14, p. 1704, doi. 10.1093/bioinformatics/btq269

By:

Otto, Thomas D.;
Sanders, Mandy;
Berriman, Matthew;
Newbold, Chris

Publication type:

Article

BamView: viewing mapped read alignment data in the context of the reference sequence.

Published in:

Bioinformatics, 2010, v. 26, n. 5, p. 676, doi. 10.1093/bioinformatics/btq010

By:

Carver, Tim;
Böhme, Ulrike;
Otto, Thomas D.;
Parkhill, Julian;
Berriman, Matthew

Publication type:

Article

ABACAS: algorithm-based automatic contiguation of assembled sequences.

Published in:

Bioinformatics, 2009, v. 25, n. 15, p. 1968, doi. 10.1093/bioinformatics/btp347

By:

Samuel Assefa;
Thomas M. Keane;
Thomas D. Otto;
Chris Newbold;
Matthew Berriman

Publication type:

Article

A Systematically Improved High Quality Genome and Transcriptome of the Human Blood Fluke Schistosoma mansoni.

Published in:

PLoS Neglected Tropical Diseases, 2012, v. 6, n. 1, p. 1, doi. 10.1371/journal.pntd.0001455

By:

Protasio, Anna V.;
Tsai, Isheng J.;
Babbage, Anne;
Nichol, Sarah;
Hunt, Martin;
Aslett, Martin A.;
De Silva, Nishadi;
Velarde, Giles S.;
Anderson, Tim J. C.;
Clark, Richard C.;
Davidson, Claire;
Dillon, Gary P.;
Holroyd, Nancy E.;
LoVerde, Philip T.;
Lloyd, Christine;
McQuillan, Jacquelline;
Oliveira, Guilherme;
Otto, Thomas D.;
Parker-Manuel, Sophia J.;
Quail, Michael A.

Publication type:

Article

A Systematically Improved High Quality Genome and Transcriptome of the Human Blood Fluke Schistosoma mansoni.

Published in:

PLoS Neglected Tropical Diseases, 2012, v. 6, n. 1, p. 1, doi. 10.1371/journal.pntd.0001455

By:

Protasio, Anna V.;
Tsai, Isheng J.;
Babbage, Anne;
Nichol, Sarah;
Hunt, Martin;
Aslett, Martin A.;
De Silva, Nishadi;
Velarde, Giles S.;
Anderson, Tim J. C.;
Clark, Richard C.;
Davidson, Claire;
Dillon, Gary P.;
Holroyd, Nancy E.;
LoVerde, Philip T.;
Lloyd, Christine;
McQuillan, Jacquelline;
Oliveira, Guilherme;
Otto, Thomas D.;
Parker-Manuel, Sophia J.;
Quail, Michael A.

Publication type:

Article

Tolerance induction in memory CD4 T cells is partial and reversible.

Published in:

Immunology, 2021, v. 162, n. 1, p. 68, doi. 10.1111/imm.13263

By:

Gray, Joshua I.;
Al‐Khabouri, Shaima;
Morton, Fraser;
Clambey, Eric T.;
Gapin, Laurent;
Matsuda, Jennifer L.;
Kappler, John W.;
Marrack, Philippa;
Garside, Paul;
Otto, Thomas D.;
MacLeod, Megan K.L.

Publication type:

Article

Comparative genome-wide analysis and evolutionary history of haemoglobin-processing and haem detoxification enzymes in malarial parasites.

Published in:

Malaria Journal, 2016, v. 15, p. 1, doi. 10.1186/s12936-016-1097-9

By:

Ponsuwanna, Patrath;
Kochakarn, Theerarat;
Bunditvorapoom, Duangkamon;
Kümpornsin, Krittikorn;
Otto, Thomas D.;
Ridenour, Chase;
Chotivanich, Kesinee;
Wilairat, Prapon;
White, Nicholas J.;
Miotto, Olivo;
Chookajorn, Thanat

Publication type:

Article

A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers.

Published in:

BMC Genomics, 2012, v. 13, n. 1, p. 341, doi. 10.1186/1471-2164-13-341

By:

Quail, Michael A.;
Smith, Miriam;
Coupland, Paul;
Otto, Thomas D.;
Harris, Simon R.;
Connor, Thomas R.;
Bertoni, Anna;
Swerdlow, Harold P.;
Yong Gu

Publication type:

Article

Targeted Disruption of py235ebp-1: Invasion of Erythrocytes by Plasmodium yoelii Using an Alternative Py235 Erythrocyte Binding Protein.

Published in:

PLoS Pathogens, 2011, v. 7, n. 2, p. 1, doi. 10.1371/journal.ppat.1001288

By:

Ogun, Solabomi A.;
Tewari, Rita;
Otto, Thomas D.;
Howell, Steven A.;
Knuepfer, Ellen;
Cunningham, Deirdre A.;
Zhengyao Xu;
Pain, Arnab;
Holder, Anthony A.

Publication type:

Article

Multi-population genomic analysis of malaria parasites indicates local selection and differentiation at the gdv1 locus regulating sexual development.

Published in:

Scientific Reports, 2018, v. 8, n. 1, p. 1, doi. 10.1038/s41598-018-34078-3

By:

Duffy, Craig W.;
Amambua-Ngwa, Alfred;
Ahouidi, Ambroise D.;
Diakite, Mahamadou;
Awandare, Gordon A.;
Ba, Hampate;
Tarr, Sarah J.;
Murray, Lee;
Stewart, Lindsay B.;
D’Alessandro, Umberto;
Otto, Thomas D.;
Kwiatkowski, Dominic P.;
Conway, David J.

Publication type:

Article

Genome-wide profiling of chromosome interactions in Plasmodium falciparum characterizes nuclear architecture and reconfigurations associated with antigenic variation.

Published in:

Molecular Microbiology, 2013, v. 90, n. 3, p. 519, doi. 10.1111/mmi.12381

By:

Lemieux, Jacob E.;
Kyes, Sue A.;
Otto, Thomas D.;
Feller, Avi I.;
Eastman, Richard T.;
Pinches, Robert A.;
Berriman, Matthew;
Su, Xin‐zhuan;
Newbold, Chris I.

Publication type:

Article

New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.

Published in:

Molecular Microbiology, 2010, v. 76, n. 1, p. 12, doi. 10.1111/j.1365-2958.2009.07026.x

By:

Otto, Thomas D.;
Wilinski, Daniel;
Assefa, Sammy;
Keane, Thomas M.;
Sarry, Louis R.;
Böhme, Ulrike;
Lemieux, Jacob;
Barrell, Bart;
Pain, Arnab;
Berriman, Matthew;
Newbold, Chris;
Llinás, Manuel

Publication type:

Article

Erratum: SC83288 is a clinical development candidate for the treatment of severe malaria.

Published in:

Nature Communications, 2017, v. 8, n. 4, p. 15273, doi. 10.1038/ncomms15273

By:

Pegoraro, Stefano;
Duffey, Maëlle;
Otto, Thomas D.;
Wang, Yulin;
Rösemann, Roman;
Baumgartner, Roland;
Fehler, Stefanie K.;
Lucantoni, Leonardo;
Avery, Vicky M.;
Moreno-Sabater, Alicia;
Mazier, Dominique;
Vial, Henri J.;
Strobl, Stefan;
Sanchez, Cecilia P.;
Lanzer, Michael

Publication type:

Article

SC83288 is a clinical development candidate for the treatment of severe malaria.

Published in:

Nature Communications, 2017, v. 8, n. 1, p. 14193, doi. 10.1038/ncomms14193

By:

Pegoraro, Stefano;
Duffey, Maëlle;
Otto, Thomas D;
Wang, Yulin;
Rösemann, Roman;
Baumgartner, Roland;
Fehler, Stefanie K;
Lucantoni, Leonardo;
Avery, Vicky M;
Moreno-Sabater, Alicia;
Mazier, Dominique;
Vial, Henri J;
Strobl, Stefan;
Sanchez, Cecilia P;
Lanzer, Michael

Publication type:

Article

Pyrazoleamide compounds are potent antimalarials that target Na<sup>+</sup> homeostasis in intraerythrocytic Plasmodium falciparum.

Published in:

Nature Communications, 2014, v. 5, n. 11, p. 5521, doi. 10.1038/ncomms6521

By:

Vaidya, Akhil B.;
Morrisey, Joanne M.;
Zhang, Zhongsheng;
Das, Sudipta;
Daly, Thomas M.;
Otto, Thomas D.;
Spillman, Natalie J.;
Wyvratt, Matthew;
Siegl, Peter;
Marfurt, Jutta;
Wirjanata, Grennady;
Sebayang, Boni F.;
Price, Ric N.;
Chatterjee, Arnab;
Nagle, Advait;
Stasiak, Marcin;
Charman, Susan A.;
Angulo-Barturen, Iñigo;
Ferrer, Santiago;
Belén Jiménez-Díaz, María

Publication type:

Article

Genome sequencing of chimpanzee malaria parasites reveals possible pathways of adaptation to human hosts.

Published in:

Nature Communications, 2014, v. 5, n. 9, p. 4754, doi. 10.1038/ncomms5754

By:

Otto, Thomas D.;
Rayner, Julian C.;
Böhme, Ulrike;
Pain, Arnab;
Spottiswoode, Natasha;
Sanders, Mandy;
Quail, Michael;
Ollomo, Benjamin;
Renaud, François;
Thomas, Alan W.;
Prugnolle, Franck;
Conway, David J.;
Newbold, Chris;
Berriman, Matthew

Publication type:

Article

Integrated transcriptomic and proteomic analysis of pathogenic mycobacteria and their esx-1 mutants reveal secretion-dependent regulation of ESX-1 substrates and WhiB6 as a transcriptional regulator.

Published in:

PLoS ONE, 2019, v. 14, n. 1, p. 1, doi. 10.1371/journal.pone.0211003

By:

Abdallah, Abdallah M.;
Weerdenburg, Eveline M.;
Guan, Qingtian;
Ummels, Roy;
Borggreve, Stephanie;
Adroub, Sabir A.;
Malas, Tareq B.;
Naeem, Raeece;
Zhang, Huoming;
Otto, Thomas D.;
Bitter, Wilbert;
Pain, Arnab

Publication type:

Article

Schizont transcriptome variation among clinical isolates and laboratory-adapted clones of the malaria parasite Plasmodium falciparum.

Published in:

BMC Genomics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12864-018-5257-x

By:

Tarr, Sarah J.;
Díaz-Ingelmo, Ofelia;
Stewart, Lindsay B.;
Hocking, Suzanne E.;
Murray, Lee;
Duffy, Craig W.;
Otto, Thomas D.;
Chappell, Lia;
Rayner, Julian C.;
Awandare, Gordon A.;
Conway, David J.

Publication type:

Article

ReRep: Computational detection of repetitive sequences in genome survey sequences (GSS).

Published in:

BMC Bioinformatics, 2008, v. 9, p. 1, doi. 10.1186/1471-2105-9-366

By:

Otto, Thomas D.;
Gomes, Leonardo H. F.;
Alves-Ferreira, Marcelo;
de Miranda, Antonio B.;
Degrave, Wim M.

Publication type:

Article