cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10809110
title: Data Repository: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (line H1)

description: Data repository for publication: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (healthy line 1)
description: The blood-brain barrier (BBB) serves as an interface between the periphery and central nervous system. It limits the movement of molecules and immune cells, regulates the entry of nutrients, and removes waste products from the brain. The dysfunction of the BBB has been identified in Parkinson´s disease (PD) but the role of the BBB and endothelial cells (ECs) has not been well studied. LRRK2 G2019S mutation is the most common PD causing mutation with similar pathophysiology than in sporadic cases. How the mutation affects EC function has not been investigated previously in patient’s cells. In the study, we used iPSC-derived ECs from PD patients with the LRRK2 mutation as well as cells from healthy individuals. We report that PD ECs have higher levels of α-synuclein, altered mitochondrial respiration and response to inflammatory exposure, especially to TNFα. In addition, transcriptomic analysis showed upregulation of fatty acid synthesis related pathways in PD ECs and downregulation of lncRNA MEG3, both of which have been associated with PD. Altogether, PD ECs manifest some of the PD related hallmarks and are likely to contribute to the pathogenesis of PD.
description: RNA sequencing of human induced pluripotent stem cell (hiPSC) derived endothelial cells (ECs).

raw data files (.fastq.gz), processed data files (.txt), MD5 files for raw data (.md5)

line 1: (TS1_R1_001.fastq.gz, TS1_R2_001.fastq.gz, TS1_R1_001.fastq.gz.md5, TS1_R2_001.fastq.gz.md5, TS1.counts.txt)

line 1 TNFalpha+IL-1beta (TS7_R1_001.fastq.gz, TS7_R2_001.fastq.gz, TS7_R1_001.fastq.gz.md5, TS7_R2_001.fastq.gz.md5, TS7.counts.txt)

line 1 TNFalpha (TS13_R1_001.fastq.gz, TS13_R2_001.fastq.gz, TS13_R1_001.fastq.gz.md5, TS13_R2_001.fastq.gz.md5, TS13.counts.txt)
description: Line information



Genotype: normal

Reference: TakaraBio


Cell culturing: hiPSCs were cultured in matrigel (Corning) coated dishes in E8 (Gibco) media. EC were differentiated according to previously published protocol (Harding et al. 2017).

Treatments



Nonexposed (TS1)

4 h TNFalpha+IL-1beta exposed (TS7)

4 h TNFalpha exposed (TS13)


RNA sequencing: Cells were lysed on ice (Buffer RLT + β-mercaptoethanol 10 µl/ml), and RNA was extracted directly after lysis with the Qiagen RNeasy Mini Kit (Qiagen) with DNase I digestion (Qiagen). 1-4 µg of RNA were sent for library preparation and sequencing (performed by Azenta). Quality was evaluated with FastQC, and sequencing was done with Illumina NovaSeq, PE 2x150. Sequence reads were trimmed by using Trimmomatic v.0.36 to remove possible adaptor sequences and nucleotides of poor quality. Trimmed reads were mapped to the Homo sapiens GRCh38 reference genome available on ENSEMBL using the STAR aligner v.2.5.2b. Unique gene hit counts were calculated by using featureCounts from the Subread package v.1.5.2.
DOI: 10.14473/csda/gpgka9/ezxj6j
title: D_CSDA00181-CSDA00194.pdf

description: Dotazník_CSDA00181-CSDA00194
DOI: 10.14473/csda/gpgka9/4zvm7n
title: OM_CSDA00181-CSDA00194.pdf

description: Ostatní materiály_CSDA00181-CSDA00194
DOI: 10.14473/csda/gpgka9/zzynzb
title: 11_PRAHA kraj - volby do PS 2013_data_opr.tab

description: Data_CSDA00191
DOI: 10.14473/csda/gpgka9/1ilvdv
title: TI_CSDA00181-CSDA00194.pdf

description: Technická informace_CSDA00181-CSDA00194
DOI: 10.14473/csda/gpgka9
title: Předvolební výzkumy pro volby do PS 2013 – Praha

description: Předvolební výzkumy před volbami do PS 2013 ve všech krajích ČR pro Českou televizi realizovaly společnosti Median a Stem/Mark. Hlavním výstupem byl tzv. volební potenciál v kraji, jehož výsledky sloužily k nominaci hostů do předvolebních debat ČT. Součástí dotazníku bylo i několik krajsky specifických tematických otázek.
DOI: 10.14473/csda/gpgka9/oy9evl
title: D_CSDA00191_praha.pdf

description: Dotazník_CSDA00191_praha
DOI: 10.5281/zenodo.10817194
title: Data Repository: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (line H2)

description: Data repository for publication: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (healthy line 2)
description: The blood-brain barrier (BBB) serves as an interface between the periphery and central nervous system. It limits the movement of molecules and immune cells, regulates the entry of nutrients, and removes waste products from the brain. The dysfunction of the BBB has been identified in Parkinson´s disease (PD) but the role of the BBB and endothelial cells (ECs) has not been well studied. LRRK2 G2019S mutation is the most common PD causing mutation with similar pathophysiology than in sporadic cases. How the mutation affects EC function has not been investigated previously in patient’s cells. In the study, we used iPSC-derived ECs from PD patients with the LRRK2 mutation as well as cells from healthy individuals. We report that PD ECs have higher levels of α-synuclein, altered mitochondrial respiration and response to inflammatory exposure, especially to TNFα. In addition, transcriptomic analysis showed upregulation of fatty acid synthesis related pathways in PD ECs and downregulation of lncRNA MEG3, both of which have been associated with PD. Altogether, PD ECs manifest some of the PD related hallmarks and are likely to contribute to the pathogenesis of PD.
description: RNA sequencing of human induced pluripotent stem cell (hiPSC) derived endothelial cells (ECs).

raw data files (.fastq.gz), processed data files (.txt), MD5 files for raw data (.md5)

line 2: (TS2_R1_001.fastq.gz, TS2_R2_001.fastq.gz, TS2_R1_001.fastq.gz.md5, TS2_R2_001.fastq.gz.md5, TS2.counts.txt)

line 2 TNFalpha+IL-1beta (TS8_R1_001.fastq.gz, TS8_R2_001.fastq.gz, TS8_R1_001.fastq.gz.md5, TS8_R2_001.fastq.gz.md5, TS8.counts.txt)

line 2 TNFalpha (TS14_R1_001.fastq.gz, TS14_R2_001.fastq.gz, TS14_R1_001.fastq.gz.md5, TS14_R2_001.fastq.gz.md5, TS14.counts.txt)
description: Line information



Genotype: normal 

Reference: TakaraBio


Cell culturing: hiPSCs were cultured in matrigel (Corning) coated dishes in E8 (Gibco) media. EC were differentiated according to previously published protocol (Harding et al. 2017).

Treatments



Nonexposed (TS2) 

4 h TNFalpha+IL-1beta exposed (TS8)

4 h TNFalpha exposed (TS14)


RNA sequencing: Cells were lysed on ice (Buffer RLT + β-mercaptoethanol 10 µl/ml), and RNA was extracted directly after lysis with the Qiagen RNeasy Mini Kit (Qiagen) with DNase I digestion (Qiagen). 1-4 µg of RNA were sent for library preparation and sequencing (performed by Azenta). Quality was evaluated with FastQC, and sequencing was done with Illumina NovaSeq, PE 2x150. Sequence reads were trimmed by using Trimmomatic v.0.36 to remove possible adaptor sequences and nucleotides of poor quality. Trimmed reads were mapped to the Homo sapiens GRCh38 reference genome available on ENSEMBL using the STAR aligner v.2.5.2b. Unique gene hit counts were calculated by using featureCounts from the Subread package v.1.5.2.
DOI: 10.5281/zenodo.10817195
title: Data Repository: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (line H2)

description: Data repository for publication: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (healthy line 2)
description: The blood-brain barrier (BBB) serves as an interface between the periphery and central nervous system. It limits the movement of molecules and immune cells, regulates the entry of nutrients, and removes waste products from the brain. The dysfunction of the BBB has been identified in Parkinson´s disease (PD) but the role of the BBB and endothelial cells (ECs) has not been well studied. LRRK2 G2019S mutation is the most common PD causing mutation with similar pathophysiology than in sporadic cases. How the mutation affects EC function has not been investigated previously in patient’s cells. In the study, we used iPSC-derived ECs from PD patients with the LRRK2 mutation as well as cells from healthy individuals. We report that PD ECs have higher levels of α-synuclein, altered mitochondrial respiration and response to inflammatory exposure, especially to TNFα. In addition, transcriptomic analysis showed upregulation of fatty acid synthesis related pathways in PD ECs and downregulation of lncRNA MEG3, both of which have been associated with PD. Altogether, PD ECs manifest some of the PD related hallmarks and are likely to contribute to the pathogenesis of PD.
description: RNA sequencing of human induced pluripotent stem cell (hiPSC) derived endothelial cells (ECs).

raw data files (.fastq.gz), processed data files (.txt), MD5 files for raw data (.md5)

line 2: (TS2_R1_001.fastq.gz, TS2_R2_001.fastq.gz, TS2_R1_001.fastq.gz.md5, TS2_R2_001.fastq.gz.md5, TS2.counts.txt)

line 2 TNFalpha+IL-1beta (TS8_R1_001.fastq.gz, TS8_R2_001.fastq.gz, TS8_R1_001.fastq.gz.md5, TS8_R2_001.fastq.gz.md5, TS8.counts.txt)

line 2 TNFalpha (TS14_R1_001.fastq.gz, TS14_R2_001.fastq.gz, TS14_R1_001.fastq.gz.md5, TS14_R2_001.fastq.gz.md5, TS14.counts.txt)
description: Line information



Genotype: normal 

Reference: TakaraBio


Cell culturing: hiPSCs were cultured in matrigel (Corning) coated dishes in E8 (Gibco) media. EC were differentiated according to previously published protocol (Harding et al. 2017).

Treatments



Nonexposed (TS2) 

4 h TNFalpha+IL-1beta exposed (TS8)

4 h TNFalpha exposed (TS14)


RNA sequencing: Cells were lysed on ice (Buffer RLT + β-mercaptoethanol 10 µl/ml), and RNA was extracted directly after lysis with the Qiagen RNeasy Mini Kit (Qiagen) with DNase I digestion (Qiagen). 1-4 µg of RNA were sent for library preparation and sequencing (performed by Azenta). Quality was evaluated with FastQC, and sequencing was done with Illumina NovaSeq, PE 2x150. Sequence reads were trimmed by using Trimmomatic v.0.36 to remove possible adaptor sequences and nucleotides of poor quality. Trimmed reads were mapped to the Homo sapiens GRCh38 reference genome available on ENSEMBL using the STAR aligner v.2.5.2b. Unique gene hit counts were calculated by using featureCounts from the Subread package v.1.5.2.
DOI: 10.14473/csda/inpvws/jk3hd9
title: D_CSDA00190_ustecky.pdf

description: Dotazník_CSDA00190_ustecky
DOI: 10.14473/csda/inpvws/gtuavh
title: OM_CSDA00181-CSDA00194.pdf

description: Ostatní materiály_CSDA00181-CSDA00194
DOI: 10.14473/csda/inpvws/arpbpo
title: D_CSDA00181-CSDA00194.pdf

description: Dotazník_CSDA00181-CSDA00194
DOI: 10.14473/csda/inpvws
title: Předvolební výzkumy pro volby do PS 2013 – Ústeckýkraj

description: Předvolební výzkumy před volbami do PS 2013 ve všech krajích ČR pro Českou televizi realizovaly společnosti Median a Stem/Mark. Hlavním výstupem byl tzv. volební potenciál v kraji, jehož výsledky sloužily k nominaci hostů do předvolebních debat ČT. Součástí dotazníku bylo i několik krajsky specifických tematických otázek.
DOI: 10.14473/csda/inpvws/9dpkmh
title: TI_CSDA00181-CSDA00194.pdf

description: Technická informace_CSDA00181-CSDA00194
DOI: 10.14473/csda/inpvws/qjdhzk
title: 10_UST kraj - volby do PS 2013_data_opr.tab

description: Data_CSDA00190
DOI: 10.5281/zenodo.10821850
title: Data Repository: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (line H3)

description: Data repository for publication: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (healthy line 3)
description: The blood-brain barrier (BBB) serves as an interface between the periphery and central nervous system. It limits the movement of molecules and immune cells, regulates the entry of nutrients, and removes waste products from the brain. The dysfunction of the BBB has been identified in Parkinson´s disease (PD) but the role of the BBB and endothelial cells (ECs) has not been well studied. LRRK2 G2019S mutation is the most common PD causing mutation with similar pathophysiology than in sporadic cases. How the mutation affects EC function has not been investigated previously in patient’s cells. In the study, we used iPSC-derived ECs from PD patients with the LRRK2 mutation as well as cells from healthy individuals. We report that PD ECs have higher levels of α-synuclein, altered mitochondrial respiration and response to inflammatory exposure, especially to TNFα. In addition, transcriptomic analysis showed upregulation of fatty acid synthesis related pathways in PD ECs and downregulation of lncRNA MEG3, both of which have been associated with PD. Altogether, PD ECs manifest some of the PD related hallmarks and are likely to contribute to the pathogenesis of PD.
description: RNA sequencing of human induced pluripotent stem cell (hiPSC) derived endothelial cells (ECs).

raw data files (.fastq.gz), processed data files (.txt), MD5 files for raw data (.md5)

line 3: (TS3_R1_001.fastq.gz, TS3_R2_001.fastq.gz, TS3_R1_001.fastq.gz.md5, TS3_R2_001.fastq.gz.md5, TS3.counts.txt)

line 3 TNFalpha+IL-1beta (TS9_R1_001.fastq.gz, TS9_R2_001.fastq.gz, TS9_R1_001.fastq.gz.md5, TS9_R2_001.fastq.gz.md5, TS9.counts.txt)

line 3 TNFalpha (TS15_R1_001.fastq.gz, TS15_R2_001.fastq.gz, TS15_R1_001.fastq.gz.md5, TS15_R2_001.fastq.gz.md5, TS15.counts.txt)
description: Line information



Genotype: normal

Reference: TakaraBio


Cell culturing: hiPSCs were cultured in matrigel (Corning) coated dishes in E8 (Gibco) media. EC were differentiated according to previously published protocol (Harding et al. 2017).

Treatments



Nonexposed (TS3)

4 h TNFalpha+IL-1beta exposed (TS9)

4 h TNFalpha exposed (TS15)


RNA sequencing: Cells were lysed on ice (Buffer RLT + β-mercaptoethanol 10 µl/ml), and RNA was extracted directly after lysis with the Qiagen RNeasy Mini Kit (Qiagen) with DNase I digestion (Qiagen). 1-4 µg of RNA were sent for library preparation and sequencing (performed by Azenta). Quality was evaluated with FastQC, and sequencing was done with Illumina NovaSeq, PE 2x150. Sequence reads were trimmed by using Trimmomatic v.0.36 to remove possible adaptor sequences and nucleotides of poor quality. Trimmed reads were mapped to the Homo sapiens GRCh38 reference genome available on ENSEMBL using the STAR aligner v.2.5.2b. Unique gene hit counts were calculated by using featureCounts from the Subread package v.1.5.2.
DOI: 10.5281/zenodo.10821851
title: Data Repository: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (line H3)

description: Data repository for publication: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (healthy line 3)
description: The blood-brain barrier (BBB) serves as an interface between the periphery and central nervous system. It limits the movement of molecules and immune cells, regulates the entry of nutrients, and removes waste products from the brain. The dysfunction of the BBB has been identified in Parkinson´s disease (PD) but the role of the BBB and endothelial cells (ECs) has not been well studied. LRRK2 G2019S mutation is the most common PD causing mutation with similar pathophysiology than in sporadic cases. How the mutation affects EC function has not been investigated previously in patient’s cells. In the study, we used iPSC-derived ECs from PD patients with the LRRK2 mutation as well as cells from healthy individuals. We report that PD ECs have higher levels of α-synuclein, altered mitochondrial respiration and response to inflammatory exposure, especially to TNFα. In addition, transcriptomic analysis showed upregulation of fatty acid synthesis related pathways in PD ECs and downregulation of lncRNA MEG3, both of which have been associated with PD. Altogether, PD ECs manifest some of the PD related hallmarks and are likely to contribute to the pathogenesis of PD.
description: RNA sequencing of human induced pluripotent stem cell (hiPSC) derived endothelial cells (ECs).

raw data files (.fastq.gz), processed data files (.txt), MD5 files for raw data (.md5)

line 3: (TS3_R1_001.fastq.gz, TS3_R2_001.fastq.gz, TS3_R1_001.fastq.gz.md5, TS3_R2_001.fastq.gz.md5, TS3.counts.txt)

line 3 TNFalpha+IL-1beta (TS9_R1_001.fastq.gz, TS9_R2_001.fastq.gz, TS9_R1_001.fastq.gz.md5, TS9_R2_001.fastq.gz.md5, TS9.counts.txt)

line 3 TNFalpha (TS15_R1_001.fastq.gz, TS15_R2_001.fastq.gz, TS15_R1_001.fastq.gz.md5, TS15_R2_001.fastq.gz.md5, TS15.counts.txt)
description: Line information



Genotype: normal

Reference: TakaraBio


Cell culturing: hiPSCs were cultured in matrigel (Corning) coated dishes in E8 (Gibco) media. EC were differentiated according to previously published protocol (Harding et al. 2017).

Treatments



Nonexposed (TS3)

4 h TNFalpha+IL-1beta exposed (TS9)

4 h TNFalpha exposed (TS15)


RNA sequencing: Cells were lysed on ice (Buffer RLT + β-mercaptoethanol 10 µl/ml), and RNA was extracted directly after lysis with the Qiagen RNeasy Mini Kit (Qiagen) with DNase I digestion (Qiagen). 1-4 µg of RNA were sent for library preparation and sequencing (performed by Azenta). Quality was evaluated with FastQC, and sequencing was done with Illumina NovaSeq, PE 2x150. Sequence reads were trimmed by using Trimmomatic v.0.36 to remove possible adaptor sequences and nucleotides of poor quality. Trimmed reads were mapped to the Homo sapiens GRCh38 reference genome available on ENSEMBL using the STAR aligner v.2.5.2b. Unique gene hit counts were calculated by using featureCounts from the Subread package v.1.5.2.
DOI: 10.5281/zenodo.10829886
title: Data Repository: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (line PD1)

description: Data repository for publication: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (PD line 1)
description: The blood-brain barrier (BBB) serves as an interface between the periphery and central nervous system. It limits the movement of molecules and immune cells, regulates the entry of nutrients, and removes waste products from the brain. The dysfunction of the BBB has been identified in Parkinson´s disease (PD) but the role of the BBB and endothelial cells (ECs) has not been well studied. LRRK2 G2019S mutation is the most common PD causing mutation with similar pathophysiology than in sporadic cases. How the mutation affects EC function has not been investigated previously in patient’s cells. In the study, we used iPSC-derived ECs from PD patients with the LRRK2 mutation as well as cells from healthy individuals. We report that PD ECs have higher levels of α-synuclein, altered mitochondrial respiration and response to inflammatory exposure, especially to TNFα. In addition, transcriptomic analysis showed upregulation of fatty acid synthesis related pathways in PD ECs and downregulation of lncRNA MEG3, both of which have been associated with PD. Altogether, PD ECs manifest some of the PD related hallmarks and are likely to contribute to the pathogenesis of PD.
description: RNA sequencing of human induced pluripotent stem cell (hiPSC) derived endothelial cells (ECs).

raw data files (.fastq.gz), processed data files (.txt), MD5 files for raw data (.md5)

PD line 1: (TS4_R1_001.fastq.gz, TS4_R2_001.fastq.gz, TS4_R1_001.fastq.gz.md5, TS4_R2_001.fastq.gz.md5, TS4.counts.txt)

PD line 1 TNFalpha+IL-1beta (TS10_R1_001.fastq.gz, TS10_R2_001.fastq.gz, TS10_R1_001.fastq.gz.md5, TS10_R2_001.fastq.gz.md5, TS10.counts.txt)

PD line 1 TNFalpha (TS16_R1_001.fastq.gz, TS16_R2_001.fastq.gz, TS16_R1_001.fastq.gz.md5, TS16_R2_001.fastq.gz.md5, TS16.counts.txt)
description: Line information



Genotype: LRRK2 G2019S

Reference: Holmqvist et al. 2016


Cell culturing: hiPSCs were cultured in matrigel (Corning) coated dishes in E8 (Gibco) media. EC were differentiated according to previously published protocol (Harding et al. 2017).

Treatments



Nonexposed (TS4)

4 h TNFalpha+IL-1beta exposed (TS10)

4 h TNFalpha exposed (TS16)


RNA sequencing: Cells were lysed on ice (Buffer RLT + β-mercaptoethanol 10 µl/ml), and RNA was extracted directly after lysis with the Qiagen RNeasy Mini Kit (Qiagen) with DNase I digestion (Qiagen). 1-4 µg of RNA were sent for library preparation and sequencing (performed by Azenta). Quality was evaluated with FastQC, and sequencing was done with Illumina NovaSeq, PE 2x150. Sequence reads were trimmed by using Trimmomatic v.0.36 to remove possible adaptor sequences and nucleotides of poor quality. Trimmed reads were mapped to the Homo sapiens GRCh38 reference genome available on ENSEMBL using the STAR aligner v.2.5.2b. Unique gene hit counts were calculated by using featureCounts from the Subread package v.1.5.2.
DOI: 10.5281/zenodo.10829887
title: Data Repository: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (line PD1)

description: Data repository for publication: LRRK2 G2019S mutation affects human iPSC-derived endothelial cells (PD line 1)
description: The blood-brain barrier (BBB) serves as an interface between the periphery and central nervous system. It limits the movement of molecules and immune cells, regulates the entry of nutrients, and removes waste products from the brain. The dysfunction of the BBB has been identified in Parkinson´s disease (PD) but the role of the BBB and endothelial cells (ECs) has not been well studied. LRRK2 G2019S mutation is the most common PD causing mutation with similar pathophysiology than in sporadic cases. How the mutation affects EC function has not been investigated previously in patient’s cells. In the study, we used iPSC-derived ECs from PD patients with the LRRK2 mutation as well as cells from healthy individuals. We report that PD ECs have higher levels of α-synuclein, altered mitochondrial respiration and response to inflammatory exposure, especially to TNFα. In addition, transcriptomic analysis showed upregulation of fatty acid synthesis related pathways in PD ECs and downregulation of lncRNA MEG3, both of which have been associated with PD. Altogether, PD ECs manifest some of the PD related hallmarks and are likely to contribute to the pathogenesis of PD.
description: RNA sequencing of human induced pluripotent stem cell (hiPSC) derived endothelial cells (ECs).

raw data files (.fastq.gz), processed data files (.txt), MD5 files for raw data (.md5)

PD line 1: (TS4_R1_001.fastq.gz, TS4_R2_001.fastq.gz, TS4_R1_001.fastq.gz.md5, TS4_R2_001.fastq.gz.md5, TS4.counts.txt)

PD line 1 TNFalpha+IL-1beta (TS10_R1_001.fastq.gz, TS10_R2_001.fastq.gz, TS10_R1_001.fastq.gz.md5, TS10_R2_001.fastq.gz.md5, TS10.counts.txt)

PD line 1 TNFalpha (TS16_R1_001.fastq.gz, TS16_R2_001.fastq.gz, TS16_R1_001.fastq.gz.md5, TS16_R2_001.fastq.gz.md5, TS16.counts.txt)
description: Line information



Genotype: LRRK2 G2019S

Reference: Holmqvist et al. 2016


Cell culturing: hiPSCs were cultured in matrigel (Corning) coated dishes in E8 (Gibco) media. EC were differentiated according to previously published protocol (Harding et al. 2017).

Treatments



Nonexposed (TS4)

4 h TNFalpha+IL-1beta exposed (TS10)

4 h TNFalpha exposed (TS16)


RNA sequencing: Cells were lysed on ice (Buffer RLT + β-mercaptoethanol 10 µl/ml), and RNA was extracted directly after lysis with the Qiagen RNeasy Mini Kit (Qiagen) with DNase I digestion (Qiagen). 1-4 µg of RNA were sent for library preparation and sequencing (performed by Azenta). Quality was evaluated with FastQC, and sequencing was done with Illumina NovaSeq, PE 2x150. Sequence reads were trimmed by using Trimmomatic v.0.36 to remove possible adaptor sequences and nucleotides of poor quality. Trimmed reads were mapped to the Homo sapiens GRCh38 reference genome available on ENSEMBL using the STAR aligner v.2.5.2b. Unique gene hit counts were calculated by using featureCounts from the Subread package v.1.5.2.