By Professor John Pimanda

Preprints

Thoms JAI; Hampton HR; Boon PLS; Stonehouse O; Zou X; Chung HM; Koch FC; Yan F; Joshi S; Nguyen MNT; Hung D; Wright DC; Vafaee F; Polizzotto MN; Swarbrick A; Huang Y; Jolly CJ; Zanini F; Pimanda JE, 2026, Single cell multiomics reveal clonal and functional dynamics of MDS stem/progenitor cells during hypomethylating therapy, http://dx.doi.org/10.64898/2026.03.13.711488

Schnegg-Kaufmann A; Thoms J; Bhuyan GS; Hampton H; Vaughan L; Rutherford K; Kakadia P; Johansson E; Failes T; Arndt G; Koval J; Lindeman R; Warburton P; Rodriguez-Meira A; Mead A; Unnikrishnan A; Bohlander S; Papaemmanuil E; Faridani O; Jolly C; Zanini F; Pimanda J, 2022, Single cell genotyping of matched bone marrow and peripheral blood cells in treatment naive and AZA-treated MDS and CMML, http://dx.doi.org/10.1101/2022.01.20.476890

Putri GH; Anders S; Pyl PT; Pimanda JE; Zanini F, 2021, Analysing high-throughput sequencing data in Python with HTSeq 2.0, http://dx.doi.org/10.48550/arxiv.2112.00939

Kugler E; Madiwale S; Yong D; Birger Y; Thoms J; Sykes D; Yassin M; Aqaqe N; Rein A; Fishman H; Geron I; Chen C-W; Raught B; Liu Q; Milyavsky M; Pimanda J; Privé G; Izraeli S, A single amino acid at PNT domain of ERG mediates its leukemogenic activity through interaction with the NCoR-HDAC3 co-repressor complex, http://dx.doi.org/10.21203/rs.3.rs-1426447/v1

Hampton HR; Pan A; Carnell M; Wang B; Shinko D; Kasherman M; Slapetova I; Joshi S; Nguyen MNT; Yan F; Davidson S; Choi NFY; Wong JWH; Tedla N; Hiwase DK; Tobiasson M; Polizzotto MN; McGuire HM; Abbas HA; Javed A; Olivier J; Thoms JAI; Jolly CJ; Pimanda JE, Azacitidine Response in Myelodysplastic Syndromes is Marked by NK-like CD8 T-Cell Expansion and CXCL12+ Reticular Cell Remodeling, http://dx.doi.org/10.64898/2026.07.07.736922

Tavassoli H; Kang YC; Rorimpandey P; Pimanda JE; Chandrakanthan V; Chan PPY, Capturing Neonatal Cardiomyocyte – Endothelial interactions on-a-Chip, http://dx.doi.org/10.1101/2020.08.10.243600

Subramanian S; Thoms JAI; Huang Y; Cornejo P; Koch FC; Jacquelin S; Shen S; Song E; Joshi S; Brownlee C; Woll PS; Fajardo DC; Beck D; Curtis DJ; Yehson K; Antonenas V; Brien TO; Trickett A; Powell JA; Lewis ID; Pitson SM; Gandhi MK; Lane SW; Vafaee F; Wong ES; Göttgens B; Rokny HA; Wong JWH; Pimanda JE, Cell Type-Specific Regulation by a Heptad of Transcription Factors in Human Hematopoietic Stem and Progenitor Cells, http://dx.doi.org/10.1101/2023.04.18.537282

Bhuyan GS; Yan F; Nguyen MNT; Chung HM; Zou X; Gullapalli V; Vaughan L; Stonehouse O; Hampton HR; Shen S; Truong P; Dissanayake R; Ghodousi ES; Joshi S; Koch FC; Zanini F; Vafaee F; Huang Y; Thoms JAI; Faridani OR; Jolly CJ; Pimanda JE, Cell-state-specific mechanisms of 5-azacytidine response in myelodysplastic neoplasms, http://dx.doi.org/10.64898/2026.04.26.720516

Thoms JAI; Yan F; Hampton HR; Davidson S; Joshi S; Saw J; Sarowar CH; Lim XY; Nunez AC; Kakadia PM; Bhuyan GS; Zou X; Nguyen M; Ghodousi ES; Koch FC; Vafaee F; Pickford R; Raftery MJ; Hough S; Buckland G; Bailey M; Ghodke Y; Absar N; Vaughan L; Pasalic L; Fong CY; Kenealy M; Hiwase DK; Stoddart RI; Mohammed S; Lee L; Passam FH; Larsen SR; Spring KJ; Skarratt KK; Rebeiro P; Presgrave P; Stevenson WS; Ling S; Tiley C; Fuller SJ; Roncolato F; Enjeti AK; Hoenemann D; Lemech C; Jolly CJ; Bohlander SK; Curtis DJ; Wong JWH; Unnikrishnan A; Hertzberg M; Olivier J; Polizzotto MN; Pimanda JE, Clinical Response to Azacitidine in Myelodysplastic Neoplasms is Associated with Distinct DNA Methylation Changes in Haematopoietic Stem and Progenitor cells in vivo, http://dx.doi.org/10.1101/2024.07.19.24310679

Srivastava P; Romanazzo S; Ireland J; Nemec S; Molley TG; Jayathilaka P; Pandzic E; Yeola A; Chandrakanthan V; Pimanda J; Kilian K, Defined microenvironments trigger in vitro gastrulation in human pluripotent stem cells, http://dx.doi.org/10.1101/2021.10.28.466327

Liu Y-C; Fabiani E; Kwon J; Gao C; Falconi G; Valentini L; Gurnari C; Liu YV; Jones AI; Yang J; Yang H; Thoms JAI; Unnikrishnan A; Pimanda JE; Pan R; Voso MT; Tenen DG; Chai L, Demethylation and upregulation of an oncogene post hypomethylating treatment, http://dx.doi.org/10.1101/2020.07.21.20157776

Thoms JAI; Knezevic K; Harvey G; Huang Y; Seneviratne JA; Carter DR; Subramanian S; Skhinas J; Chacon D; Shah A; de Jong I; Beck D; Göttgens B; Larsson J; Wong JWH; Zanini F; Pimanda JE, Disruption of a GATA2, TAL1, ERG regulatory circuit promotes erythroid transition in healthy and leukemic stem cells, http://dx.doi.org/10.1101/2020.10.26.353797

Tan S; Joseph C; Sobah ML; Chalk AM; Schleibs K; Lee SC; Tjin G; Chugh S; Mo X; Grace CS; Truong JQ; Smeets MF; Rice KL; Parker MW; Unnikrishnan A; Kulasekararaj AG; Mufti GJ; Tobiasson M; Hellstrom-Lindberg E; Pimanda JE; Gudas LJ; McCarthy DJ; Holien JK; Walkley CR; Wall M; Purton LE, Dysregulated expression of Hoxa1 isoforms in hematopoietic stem and progenitor cells causes myelodysplastic syndromes, http://dx.doi.org/10.1101/2023.04.24.538176

Truong P; Shen S; Joshi S; Islam I; Zhong L; Raftery MJ; Afrasiabi A; Alinejad-Rokny H; Nguyen M; Zou X; Bhuyan GS; Sarowar CH; Ghodousi ES; Stonehouse O; Mohamed S; Toscan CE; Connerty P; Kakadia PM; Bohlander SK; Michie KA; Larsson J; Lock RB; Walkley CR; Thoms JAI; Jolly CJ; Pimanda JE, Genome-Wide CRISPR-Cas9 Screening Identifies a Synergy between Hypomethylating Agents and SUMOylation Blockade in MDS/AML, http://dx.doi.org/10.1101/2024.04.17.589858

Poulos RC; Perera D; Packham D; Shah A; Janitz C; Pimanda JE; Hawkins N; Ward RL; Hesson LB; Wong JW, In search of non-coding driver mutations by deep sequencing of regulatory elements in colorectal cancer, http://dx.doi.org/10.1101/249300

Yang J; Gao C; Liu M; Chen Z; Liu Y-C; Kwon J; Qi J; Tian X; Stein A; Liu Y; Kong NR; Wu Y; Yin S; Xi JJ; Luo H; Silberstein LE; Thoms JAI; Unnikrishnan A; Pimanda JE; Tenen DG; Chai L, Induction of a SALL4-dependency for targeted cancer therapy, http://dx.doi.org/10.1101/2020.07.10.197434

Yeola A; Subramanian S; Oliver RA; Lucas CA; Thoms JAI; Yan F; Olivier J; Chacon D; Tursky ML; Hung T; Power C; Hardy P; D. D; McCarroll J; Kavallaris M; Hesson LB; Beck D; Curtis DJ; Wong JWH; Hardeman EC; Walsh WR; Mobbs R; Chandrakanthan V; Pimanda JE, Induction of Muscle Regenerative Multipotent Stem Cells from Human Adipocytes by PDGF-AB and 5-Azacytidine, http://dx.doi.org/10.1101/2020.06.04.130872

Tavassoli H; Rorimpandey P; Kang YC; Carnell M; Brownlee C; Pimanda JE; Chan PPY; Chandrakanthan V, Label-free Isolation and Single Cell Biophysical Phenotyping Analysis of Primary Cardiomyocytes Using Inertial Microfluidics, http://dx.doi.org/10.1101/2020.08.31.243592

Chandrakanthan V; Rorimpandey P; Zanini F; Chacon D; Kang YC; Knezevic K; Huang Y; Qiao Q; Oliver RA; Unnikrishnan A; Carter DR; Lee B; Brownlee C; Power C; Mendez-Ferrer S; Enikolopov G; Walsh W; Göttgens B; Taoudi S; Beck D; Pimanda JE, Mesoderm-Derived PDGFRA+ Cells Regulate the Emergence of Hematopoietic Stem Cells in the Dorsal Aorta, http://dx.doi.org/10.1101/2021.08.08.455592

Anande G; Deshpande NP; Mareschal S; Batcha AMN; Hampton HR; Herold T; Lehmann S; Wilkins MR; Wong JWH; Unnikrishnan A; Pimanda JE, RNA splicing alterations induce a cellular stress response associated with poor prognosis in AML, http://dx.doi.org/10.1101/2020.01.10.895714

Back to profile page