A probabilistic framework for cellular lineage reconstruction using integrated single-cell 5-hydroxymethylcytosine and genomic DNA sequencing by Chatarin Wangsanuwat, Alex Chialastri, Javier F. Aldeguer, Nicolas C. Rivron, Siddharth S. Dey

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Efficient and cost-effective bacterial mRNA sequencing from low input samples through ribosomal RNA depletion by Chatarin Wangsanuwat, Kellie A. Heom, Estella Liu, Michelle A. O’Malley, Siddharth S. Dey

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Orthogonal control of expression mean and variance by epigenetic features at different genomic loci by Siddharth S Dey, Jonathan E Foley, Prajit Limsirichai, David V Schaffer, Adam P Arkin

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Targeted rRNA depletion enables efficient mRNA sequencing in diverse bacterial species and complex co-cultures by Kellie A. Heom, Chatarin Wangsanuwat, Lazarina V. Butkovich, Scott C. Tam, Annette R. Rowe, Michelle A. O'Malley, Siddharth S. Dey

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An Extended Culture System that Supports Human Primordial Germ Cell-like Cell Survival and Initiation of DNA Methylation Erasure by Joanna J. Gell, Wanlu Liu, Enrique Sosa, Alex Chialastri, Grace Hancock, Yu Tao, Sissy E. Wamaitha, Grace Bower, Siddharth S. Dey, Amander T. Clark

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Control over single-cell distribution of G1 lengths by WNT governs pluripotency. by Jiwon Jang, Dasol Han, Mahdi Golkaram, Morgane Audouard, Guojing Liu, Daniel Bridges, Stefan Hellander, Alex Chialastri, Siddharth S Dey, Linda R Petzold, Kenneth S Kosik

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Strand-specific single-cell methylomics reveals distinct modes of DNA demethylation dynamics during early mammalian development by Maya Sen, Dylan Mooijman, Alex Chialastri, Jean-Charles Boisset, Mina Popovic, Björn Heindryckx, Susana M. Chuva de Sousa Lopes, Siddharth S. Dey, Alexander van Oudenaarden

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