RNA velocity of single cells
RNA abundance is a powerful indicator of the state of individual cells. Single-cell RNA
sequencing can reveal RNA abundance with high quantitative accuracy, sensitivity and …
sequencing can reveal RNA abundance with high quantitative accuracy, sensitivity and …
[HTML][HTML] Sequence determinants of human gene regulatory elements
…, F Zhu, E Kaasinen, K Lidschreiber, M Lidschreiber… - Nature Genetics, 2022 - nature.com
DNA can determine where and when genes are expressed, but the full set of sequence
determinants that control gene expression is unknown. Here, we measured the transcriptional …
determinants that control gene expression is unknown. Here, we measured the transcriptional …
[HTML][HTML] NASC-seq monitors RNA synthesis in single cells
…, LA Jung, AJM Larsson, M Lidschreiber… - Nature …, 2019 - nature.com
Sequencing of newly synthesised RNA can monitor transcriptional dynamics with great
sensitivity and high temporal resolution, but is currently restricted to populations of cells. Here, …
sensitivity and high temporal resolution, but is currently restricted to populations of cells. Here, …
Transcriptionally active enhancers in human cancer cells
K Lidschreiber, LA Jung, H von der Emde… - Molecular systems …, 2021 - embopress.org
The growth of human cancer cells is driven by aberrant enhancer and gene transcription
activity. Here, we use transient transcriptome sequencing (TT‐seq) to map thousands of …
activity. Here, we use transient transcriptome sequencing (TT‐seq) to map thousands of …
Distinct transcription kinetics of pluripotent cell states
…, B Kumar, K Lidschreiber, M Lidschreiber… - Molecular Systems …, 2022 - embopress.org
Mouse embryonic stem cells (mESCs) can adopt naïve, ground, and paused pluripotent states
that give rise to unique transcriptomes. Here, we use transient transcriptome sequencing (…
that give rise to unique transcriptomes. Here, we use transient transcriptome sequencing (…
[HTML][HTML] Perturbed epigenetic transcriptional regulation in AML with IDH mutations causes increased susceptibility to NK cells
A Palau, F Segerberg, M Lidschreiber, K Lidschreiber… - Leukemia, 2023 - nature.com
Isocitrate dehydrogenase (IDH) mutations are found in 20% of acute myeloid leukemia (AML)
patients. However, only 30–40% of the patients respond to IDH inhibitors (IDHi). We aimed …
patients. However, only 30–40% of the patients respond to IDH inhibitors (IDHi). We aimed …
[HTML][HTML] Transient transcriptome sequencing: experimental protocol to monitor genome-wide RNA synthesis including enhancer transcription
S Gressel, K Lidschreiber, P Cramer - 2019 - protocols.io
Transcriptome analysis by RNA sequencing (RNA-seq) measures the steady-state abundance
of cellular RNA, which is a result of the interplay of RNA synthesis and RNA degradation. …
of cellular RNA, which is a result of the interplay of RNA synthesis and RNA degradation. …
Newly synthesized RNA sequencing characterizes transcription dynamics in three pluripotent states
R Shao, B Kumar, K Lidschreiber, M Lidschreiber… - bioRxiv, 2021 - biorxiv.org
Unique transcriptomes define naïve, primed and paused pluripotent states in mouse embryonic
stem cells. Here we perform transient transcriptome sequencing (TT-seq) to de novo …
stem cells. Here we perform transient transcriptome sequencing (TT-seq) to de novo …
[PDF][PDF] SHeS UNIVERSITY OF HELSINKI
K Lidschreiber - Mol Syst Biol, 2021 - helda.helsinki.fi
The growth of human cancer cells is driven by aberrant enhancer and gene transcription
activity. Here, we use transient transcriptome sequencing (TT-seq) to map thousands of …
activity. Here, we use transient transcriptome sequencing (TT-seq) to map thousands of …
[PDF][PDF] Transcriptionally active enhancers in human
The growth of human cancer cells is driven by aberrant enhancer and gene transcription
activity. Here, we use transient transcriptome sequencing (TT-seq) to map thousands of …
activity. Here, we use transient transcriptome sequencing (TT-seq) to map thousands of …