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Core Bioinformatics group

 

Methods papers

2022

ClustAssess: tools for assessing the robustness of single-cell clustering
Arash Shahsavari, Andi Munteanu, Irina Mohorianu
doi: https://doi.org/10.1101/2022.01.31.478592

bulkAnalyseR: An accessible, interactive pipeline for analysing and sharing bulk sequencing results
Ilias Moutsopoulos*, Eleanor C Williams*, Irina Mohorianu

doi: https://doi.org/10.1101/2021.12.23.473982

2021

The sum of two halves may be different from the whole. Effects of splitting sequencing samples across lanes.
Eleanor C Williams*, Ruben Chazarra-Gil*, Arash Shahsavari*, Irina Mohorianu

https://www.biorxiv.org/content/10.1101/2021.05.10.443429v1

noisyR: Enhancing biological signal in sequencing datasets by characterising random technical noise
I. Moutsopoulos, L. Maischak, E. Lauzikaite, S. A. Vasquez Urbina, E. C. Williams, H. G. Drost, I. Mohorianu
https://doi.org/10.1101/2021.01.17.427026
https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkab433/629...

2020

feamiR: Feature selection based on Genetic Algorithms for predicting miRNA-mRNA interactions
Eleanor C. Williams, Anisoara Calinescu, Irina Mohorianu
https://doi.org/10.1101/2020.12.23.424130

Publications in collaboration with CSCI PIs

2021

Mapping the biogenesis of forward programmed megakaryocytes from induced pluripotent stem cells
Moyra Lawrence, Arash Shahsavari, Susanne Bornelöv, Thomas Moreau, Katarzyna Kania, Maike Paramor, Rebecca McDonald, James Baye, Marion Perrin, Maike Steindel, Paula Jimenez-Gomez, Christopher Penfold, Irina Mohorianu, Cedric Ghevaert
https://www.biorxiv.org/content/10.1101/2021.04.21.440767v1

NOTCH1 drives immune-escape mechanisms in B cell malignancies
Maurizio Mangolini, Alba Maiques-Diaz, Stella Charalampopoulou, Elena Gerhard-Hartmann, Johannes Bloehdorn, Andrew Moore, Junyan Lu, Valar Nila Roamio Franklin, Chandra Sekkar Reddy Chilamakuri, Ilias Moutsoupoulos, Andreas Rosenwald, Stephan Stilgenbauer, Thorsten Zenz, Irina Mohorianu, Clive D’Santos, Silvia Deaglio, Jose I. Martin-Subero, Ingo Ringshausen
https://www.biorxiv.org/content/10.1101/2021.04.10.439192v1

ZAP-70 constitutively regulates gene expression and protein synthesis in chronic lymphocytic leukemia
Jingyu Chen, Vijitha Sathiaseelan, Andrew Moore, Shengjiang Tan, Chandra Sekkar Reddy Chilamakuri, Valar Nila Roamio Franklin, Arash Shahsavari, Constanze Jakwerth, Sandra B. Hake, Alan J. Warren, Irina Mohorianu, Clive D’Santos, Ingo Ringshausen
https://www.sciencedirect.com/science/article/pii/S000649712100416X

Defining the transcriptional signature of esophageal-to-skin lineage conversion
Maria T. Bejar, Paula Jimenez-Gomez, Ilias Moutsopoulos, Bartomeu Colom, Seungmin Han, Fernando J Calero-Nieto, Berthold Göttgens, Irina Mohorianu, Benjamin D. Simons, Maria P. Alcolea
https://www.biorxiv.org/content/10.1101/2021.02.19.431899v1

2020

Integrative Single-Cell RNA-Seq and ATAC-Seq Analysis of Human Developmental Hematopoiesis
Anna Maria Ranzoni, Andrea Tangherloni, Ivan Berest, Simone G Riva, Brynelle Myers, Paulina M. Strzelecka, Jiarui Xu, Elisa Panada, Irina Mohorianu, Judith B. Zaugg, Ana Cvejic
https://doi.org/10.1016/j.stem.2020.11.015

Live-cell 3D single-molecule tracking reveals how NuRD modulates enhancer dynamics
S Basu, O Shukron,  A Ponjavic, P Parruto, W Boucher, W Zhang, N Reynolds, D Lando, D Shah, LH Sober, A Jartseva,  R Ragheb, J Cramard, R Floyd, G Brown, K Gor, J Balmer, TA Drury, AR Carr,  L-M Needham, A Aubert, G Communie, L Morey,  E Blanco, MA Barber, I Mohorianu, T Bartke,  L Di Croce,  I Berger,  C Schaffitzel,  SF Lee, TJ Stevens,  D Klenerman,  BD Hendrich,  D Holcman,  ED Laue
https://doi.org/10.1101/2020.04.03.003178

 

The truth is rarely pure and never simple. Oscar Wilde, The Importance of Being Earnest