Sami Kilpinen, Heidi Heliölä, Kaia Achim. 2023. Neuron types in the developing mouse CNS can be divided into several epigenomic and transcriptomic classes. Preprint. bioRxiv 2022.12.29.522188.
Anna Kirjavainen, Parul Singh, Laura Lahti, Patricia Seja, Zoltan Lelkes, Aki Makkonen, Sami Kilpinen, Yuichi Ono, Marjo Salminen, Teemu Aitta-Aho, Tarja Stenberg, Svetlana Molchanova, Kaia Achim, Juha Partanen. 2022. Gata2, Nkx2-2 and Skor2 form a transcription factor network regulating development of a midbrain GABAergic neuron subtype with characteristics of REM sleep regulatory neurons. Development 149, dev200937.
Musser JM, Schippers KJ, Nickel M, Mizzon G, Kohn AB, Pape C, Ronchi P, Papadopoulos N, Tarashansky AJ, Hammel JU, Wolf F, Liang C, Hernández-Plaza A, Cantalapiedra CP, Achim K, Schieber NL, Pan L, Ruperti F, Francis WR, Vargas S, Kling S, Renkert M, Polikarpov M, Bourenkov G, Feuda R, Gaspar I, Burkhardt P, Wang B, Bork P, Beck M, Schneider TR, Kreshuk A, Wörheide G, Huerta-Cepas J, Schwab Y, Moroz LL, Arendt D. 2021. Profiling cellular diversity in sponges informs animal cell type and nervous system evolution. Science 374(6568):717-723.
Francesca Morello, Daniel Borshagovski, Mantas Survila, Laura Tikker, Samir Sadik-Ogli, Anna Kirjavainen, Nuri Estartús, Laura Knaapi, Laura Lahti, Petri Törönen, Linas Mazutis, Alessio Delogu, Marjo Salminen, Kaia Achim, Juha Partanen. 2020. Molecular fingerprint and developmental regulation of the tegmental GABAergic and glutamatergic neurons derived from the anterior hindbrain. Cell Reports 33: 108268.
Kaia Achim, Jean-Baptiste Pettit, Luis R Saraiva, Daria Gavriouchkina, Tomas Larsson, Detlev Arendt, and John C Marioni. 2015. High-throughput spatial mapping of single-cell RNA-seq data to tissue of origin. Nat Biotechnology 33:503-509.
Jean-Baptiste Pettit, Raju Tomer, Kaia Achim, Sylvia Richardson, Lamiae Azizi, John C Marioni. 2014. Identifying cell types from spatially referenced single-cell expression datasets. PLoS Comput Biol 10: e1003824.
Kaia Achim, Paula Peltopuro, Laura Lahti, Hui-Hsin Tsai, Alyssa Zachariah, Mia Astrand, Marjo Salminen, David Rowitch, Juha Partanen. 2013. The role of Tal2 and Tal1 in the differentiation of midbrain GABAergic neuron precursors. Biol Open 2: 990-997.
2012
Sini-Maarja Virolainen, Kaia Achim, Paula Peltopuro, Marjo Salminen, Juha Partanen. 2012. Transcriptional regulatory mechanisms underlying the GABAergic neuron fate in different diencephalic prosomeres. Development 139: 3795-805.
Kaia Achim, Paula Peltopuro, Laura Lahti, James Li, Marjo Salminen, Juha Partanen. 2012. Distinct developmental origins and regulatory mechanisms for GABAergic neurons associated with dopaminergic nuclei in the ventral mesodiencephalic region. Development 139: 2360-70.
Kaia Kala, Maarja Haugas, Kersti Lilleväli, Jordi Guimera, Wolfgang Wurst, Marjo Salminen and Juha Partanen. 2009. Gata2 is a tissue-specific post-mitotic selector gene for midbrain GABAergic neurons. Development 136: 253-62.
Juha Partanen, Kaia Achim. Neurons gating behavior – developmental, molecular and functional features of neurons in the Substantia Nigra pars reticulata. 2022. Frontiers of Neuroscience 16: 976209.
Detlev Arendt, Paola Bertucci, Kaia Achim, Jacob Musser. 2019. Evolution of neuronal types and families. Current Opinion in Neurobiology 56: 144-152.
Kaia Achim, Detlev Arendt. 2014. Structural evolution of cell types by step-wise assembly of cellular modules. Curr Opin Genet Dev. 27: 102-108.
Kaia Achim, Marjo Salminen, Juha Partanen. 2014. Mechanisms regulating GABAergic neuron development. Cell Mol Life Sci. 71: 1395-415.