The Natarajan laboratory We are interested in the fundamental process of cell fate specification during mammalian development and differentiation at single-cell level. The group aims to understand general paradigms of cell state and fate specification, with a particular interest in transcriptional and epigenetic regulatory networks, and their crosstalk with cell cycle, metabolism and fundamental cellular processes.
We have a interdisciplinary foundation and combine wet-lab experiments with theoretical models and computational approaches at single-cell and bulk level to uncover principles governing cell fate decisions, and their consequences in development and disease. We leverage different developmental (ESCs/hiPSCs), differentiation (CNS, immune) models alongside molecular, cellular and computational approaches.
We study transcriptional and epigenetic crosstalk during iPSC differentiation to CNS cell types (microglia, neurons) via single-cell omics profiling and computational biology.
We develop and apply causal gene regulatory network inference to study factors, interactions, pathways driving cell-state and fate-specification from multi-modal single-cell datasets
We have a strong interest in development, extension and utilisation of new experimental and computational methods for single-cell biology.
Working closely with collaborators, we develop new computational tools that integrate measurements from several single-cell technologies.
Group Leader
Postdoctoral Fellow
Postdoctoral Fellow
PhD Student
PhD Student
Research Assistant
Masters thesis student
Shared lab technician
Irastorza-Azcarate I, Kukalev A, Kempfer R, Thieme CJ, Mastrobuoni G, Markowski J, Loof G, Sparks TM, Brookes E, Natarajan KN, Sauer S, Fisher AG, Nicodemi M, Ren B, Schwarz RF, Kempa S and Pombo A
Preprint in: BiorXiv
Vlassis A, Jensen TL, Mohr M, Jedrzejczyk DJ, Meng X, Kovacs G, Gómez MM, Barghetti A, Sergi M Abad SM, Baumgartner RF, Natarajan KN, Nielsen LK, Warnecke T, Gill RT
Published in: iScience
Petrosius V, Aragon-Fernandez P, Üresin N, Kovacs G, Phlairaharn T, Furtwängler B, Beeck JOD, Skovbakke SL, Goletz S, Thomsen SF, Keller UAD, Natarajan KN, Bo T. Porse & Schoof E
Published in: Nature Communications
Lee J, Møller AF, Chae S, Bussek A, Park TJ, Kim Y, Lee HS, Pers TH, Kwon T, Sedzinski J, Natarajan KN
Published in: Science Advances
Agrawal R and Natarajan KN
Published in: Advances in Cancer Research
Mishra S, Pandey N, Chawla S, Sharma M, Chandra O, Jha IP, SenGupta D, Natarajan KN# Kumar V#
Published in: Genome Research
G Weng, J Kim, KN Natarajan#, KJ Won#
Preprint in: bioRxiv
Madan E, Palma AM, Vudatha V, Trevino JG, Natarajan KN, Winn RA, Won KJ, Graham TA, Drapkin R, McDonald SAC, Fisher PB, Gogna R
Published in: Cancer Research
Madsen MS, Broekema MF, Madsen MR, Koppen A, Borgman A, Gräwe C, Thomsen EGK, Westland D, Kranendonk MEG, Koerkamp MG, Hamers N, Bonvin AMJJ, Pittol JMR, Natarajan KN, Kersten S, Holstege FCP, Monajemi H, van Mil SWC, Vermeulen M, Kragelund BB, Cassiman D, Mandrup S, Kalkhoven E
Published in: Nature Communication
Kim J, Jakobsen ST, Natarajan KN# and Won KJ#
Published in: Nucleic Acid Research.
Moeller AF and Natarajan KN#
Published in: Life Science Alliance.
Keating SM, Waltemath D, et al., and SBML Level 3 Community members
Published in: Molecular Systems Biology.
Terkelsen MK, Bendixen SM, Hansen D, Scott EAH, Moeller AF,
Nielsen R, Mandrup S, Schlosser A, Andersen TL, Sorensen GL, Krag A,
Natarajan KN, Detlefsen S, Dimke H, Ravnskjaer K
Published in: Hepatology.
Cuomo SE, Seaton DD, McCarthy DJ, Martinez I, Bonder MJ,
Garcia-Bernardo J, Amatya S, Madrigal P, Isaacson A, Buettner F, Knights A,
Natarajan KN, HipSci Consortium, Vallier L, Marioni JC, Chhatriwala M, Stegle O.
Published in: Nature Communications.
Oatley M, Bolukbasi OV, Svensson V, Shvartsman M, Ganter K,
Zirngibl K, Pavlovich PV, Milchevskaya V, Foteva V, Natarajan KN, Baying B, Benes V,
Patil KR, Teichmann SA, Lancrin C
Published in: Nature Communications.
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, Lawniczak MKN.
Published in: Science.
Natarajan KN*#, Miao Z*, Jiang M*, Huang X, Zhou H, Xie J, Wang C, Qin S,
Zhao Z, Wu L, Yang N, Li B, Hou Y, Liu S, Teichmann SA#.
Published in: Genome Biology.
Natarajan KN#.
Published in: Methods in Molecular Biology.
Chen X, Miragaia RJ, Natarajan KN, Teichmann SA.
Published in: Nature Communications.
Pramanik J, Chen X, Kar G, Henriksson J,
Gomes T, Park JE, Natarajan K, Meyer KB, Miao Z, McKenzie ANJ,
Mahata B, Teichmann SA.
Published in: Genome Medicine.
Tuck AC, Natarajan KN, Rice GM, Borawski J, Mohn F, Rankova A, Flemr M, Wenger A,
Nutiu R, Teichmann SA, Bühler M
Published in: Life Science Alliance.
Natarajan KN*#, Teichmann SA, Kolodziejczyk AA.
Published in: Current Opinion of Genetics and Development.
Kar G, Kim JK, Kolodziejczyk AA, Natarajan KN, Torlai Triglia E, Mifsud B, Elderkin S, Marioni JC, Pombo A, Teichmann SA
Published in: Nature Communications.
Kiselev VY, Kirschner K, Schaub MT, Andrews T, Yiu A, Chandra T, Natarajan KN, Reik W, Barahona M, Green AR, Hemberg M.
Published in: Nature Methods.
Natarajan KN*# and Teichmann SA (Journalistic feature)
Published in: Nature methods.
Natarajan KN*# (Special feature comment)
Published in: Cell.
Svensson V*, Natarajan KN*, Ly LH, Miragaia RJ, Labalette C, Macaulay IC, Cvejic A, Teichmann SA.
Published in: Nature Methods.
Proserpio V, Piccolo A, Haim-Vilmovsky L, Kar G, Lönnberg T, Svensson V, Pramanik J,
Natarajan KN, Zhai W, Zhang X, Donati G, Kayikci M, Kotar J, McKenzie AN, Montandon R, Billker O, Woodhouse S, Cicuta P, Nicodemi M, Teichmann SA.
Published in: Genome Biology.
Rodriguez N, Pettit JB, Dalle Pezze P, Li L, Henry A, van Iersel MP,
Jalowicki G, Kutmon M, Natarajan KN, Tolnay D, Stefan MI, Evelo CT, Le Novère N.
Published in: BMC Biology.
Kolodziejczyk AA, Kim JK, Tsang JC, Ilicic T, Henriksson J,
Natarajan KN, Tuck AC, Gao X, Bühler M, Liu P, Marioni JC, Teichmann SA
Published in: Cell Stem Cell.
Scialdone A, Natarajan KN, Saraiva LR, Proserpio V, Teichmann SA, Stegle O, Marioni JC, Buettner F
Published in: Methods.
Buettner F*, Natarajan KN*, Casale FP, Proserpio V, Scialdone A, Theis FJ, Teichmann SA, Marioni JC, Stegle O.
Published in: Nature Biotechnology.
Chelliah V, Juty N, Ajmera I, Ali R, Dumousseau M, Glont M, Hucka M, Jalowicki G,
Keating S, Knight-Schrijver V, Lloret-Villas A, Natarajan KN, Pettit JB, Rodriguez N, Schubert M,
Wimalaratne SM, Zhao Y, Hermjakob H, Le Novère N, Laibe C
Published in: Nucleic Acid Research.
Jalowicki G, Rodriguez N, Kutmon M, Pettit JB, Li L, Henry A, Natarajan KN, Laibe C, Evelo CT, Novere NL
PrePrint in: Nature Precedings.
Our research is possible due to generous support form:
Kedar Natarajan is Associate Professor at DTU Bioengineering at Technical University, Denmark.
The group (Transcriptional regulation and Single-cell systems genomics) is a part of DTU Bioengineering
at Technical University of Denmark.
Transcriptional regulation and Single-cell systems genomics,
DTU Bioengineering
Technical University of Denmark
Søltofts Plads, DK-2800 Kgs. Lyngby
reachknn@gmail.com