E-MTAB-3037:Sample 20

text: public

characteristic: INSDC status

text: E-MTAB-3037:Sample 20

text: 66 year

text: ArrayExpress

text: Primary human fibroblasts

text: human

text: X66yr_A03__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 20


E-MTAB-3037:Sample 51

status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: SRA accession

text: E-MTAB-3037:Sample 51

tag: Namespace:Laboratory of Genetics - Gage The Salk Institute for Biological Studies

characteristic: Submitter Id

text: 1 year

characteristic: age

text: ArrayExpress

characteristic: broker name

text: Human iPSCs

characteristic: cell type

text: human

characteristic: common name

text: X1yr_G59_c2_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

characteristic: description

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: Sample 51

characteristic: title

type: has member


E-MTAB-3037:Sample 82

text: Laboratory of Genetics - Gage The Salk Institute for Biological Studies

text: public

characteristic: INSDC status

text: E-MTAB-3037:Sample 82

text: 67 year

text: ArrayExpress

text: Human post-mortem prefrontal cortex

text: human

text: X67yr_Ag10_PFC Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 82


E-MTAB-3037:Sample 55

characteristic: ENA-CHECKLIST

text: public

text: E-MTAB-3037:Sample 55

text: 29 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X29yr_E1_c1_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 55


E-MTAB-3037:Sample 38

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-3037:Sample 38

text: 50 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X50yr_SUC__iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 38


E-MTAB-3037:Sample 29

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-3037:Sample 29

text: 1 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X1yr_G59__iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 29


E-MTAB-3037:Sample 69

characteristic: External Id

text: public

text: E-MTAB-3037:Sample 69

text: 87 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X87yr_A84_c1_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 69


E-MTAB-3037:Sample 2

characteristic: INSDC center name

text: public

text: E-MTAB-3037:Sample 2

text: 1 year

text: ArrayExpress

text: iN conversion time point

text: human

text: X1yr_O6_6d Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 2


E-MTAB-3037:Sample 74

characteristic: INSDC first public

text: public

text: E-MTAB-3037:Sample 74

text: 1 year

text: ArrayExpress

text: Human post-mortem prefrontal cortex

text: human

text: X1yr_Ag2_PFC Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 74


E-MTAB-3037:Sample 49

characteristic: INSDC last update

text: public

text: E-MTAB-3037:Sample 49

text: 0 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X0yr_GM_c16_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 49


E-MTAB-3037:Sample 1

text: public

characteristic: SRA accession

text: E-MTAB-3037:Sample 1

text: 1 year

text: ArrayExpress

text: iN conversion time point

text: human

text: X1yr_O6_3d Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 1


E-MTAB-3037:Sample 27

text: public

text: E-MTAB-3037:Sample 27

characteristic: Submitter Id

text: 0 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X0yr_GM_d1_iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 27


E-MTAB-3037:Sample 19

text: public

text: E-MTAB-3037:Sample 19

text: 65 year

characteristic: age

text: ArrayExpress

text: Primary human fibroblasts

text: human

text: X65yr_PET__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 19


E-MTAB-3037:Sample 83

text: public

text: E-MTAB-3037:Sample 83

text: 73 year

text: ArrayExpress

characteristic: broker name

text: Human post-mortem prefrontal cortex

text: human

text: X73yr_Ag11_PFC Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 83


E-MTAB-3037:Sample 44

text: public

text: E-MTAB-3037:Sample 44

text: 71 year

text: ArrayExpress

text: Purified induced neurons (iN)

characteristic: cell type

text: human

text: X71yr_E30_d2_iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 44


E-MTAB-3037:Sample 68

text: public

text: E-MTAB-3037:Sample 68

text: 74 year

text: ArrayExpress

text: Human iPSCs

text: human

characteristic: common name

text: X74yr_E3_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 68


E-MTAB-3037:Sample 10

text: public

text: E-MTAB-3037:Sample 10

text: 29 year

text: ArrayExpress

text: Primary human fibroblasts

text: human

text: X29yr_A54__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 10


E-MTAB-3037:Sample 4

text: public

text: E-MTAB-3037:Sample 4

text: 1 year

text: ArrayExpress

text: iN conversion time point

text: human

text: X1yr_O6_18d Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: Sample 4


E-MTAB-3037:Sample 81

text: Laboratory of Genetics - Gage The Salk Institute for Biological Studies

text: public

text: E-MTAB-3037:Sample 81

text: 67 year

text: ArrayExpress

text: Human post-mortem prefrontal cortex

text: human

text: X67yr_Ag9_PFC Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 81

characteristic: title


E-MTAB-3037:Sample 13

text: public

characteristic: INSDC status

text: E-MTAB-3037:Sample 13

text: 36 year

text: ArrayExpress

text: Primary human fibroblasts

text: human

text: X36yr_BEN2__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 13


E-MTAB-3037:Sample 12

characteristic: ENA-CHECKLIST

text: public

text: E-MTAB-3037:Sample 12

text: 30 year

text: ArrayExpress

text: Primary human fibroblasts

text: human

text: X30yr_A53__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 12


E-MTAB-3037:Sample 71

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-3037:Sample 71

text: 89 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X89yr_A29_c3_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 71


E-MTAB-3037:Sample 64

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-3037:Sample 64

text: 66 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X66yr_A03_c1_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 64


E-MTAB-3037:Sample 65

characteristic: External Id

text: public

text: E-MTAB-3037:Sample 65

text: 66 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X66yr_A03_c3_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 65


E-MTAB-3037:Sample 54

characteristic: INSDC center name

text: public

text: E-MTAB-3037:Sample 54

text: 1 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X1yr_O6_c5_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 54


E-MTAB-3037:Sample 56

characteristic: INSDC first public

text: public

text: E-MTAB-3037:Sample 56

text: 29 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X29yr_E1_c2_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 56


E-MTAB-3037:Sample 32

characteristic: INSDC last update

text: public

text: E-MTAB-3037:Sample 32

text: 29 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X29yr_A54__iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 32


E-MTAB-3037:Sample 30

text: public

characteristic: SRA accession

text: E-MTAB-3037:Sample 30

text: 1 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X1yr_O6_d1_iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 30


E-MTAB-3037:Sample 72

text: public

text: E-MTAB-3037:Sample 72

characteristic: Submitter Id

text: 89 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X89yr_A29_c5_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 72


E-MTAB-3037:Sample 33

text: public

text: E-MTAB-3037:Sample 33

text: 29 year

characteristic: age

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X29yr_E1__iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 33


E-MTAB-3037:Sample 6

text: public

text: E-MTAB-3037:Sample 6

text: 1 year

text: ArrayExpress

characteristic: broker name

text: Primary human fibroblasts

text: human

text: X1yr_O6__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 6


E-MTAB-3037:Sample 84

text: public

text: E-MTAB-3037:Sample 84

text: 78 year

text: ArrayExpress

text: Human post-mortem prefrontal cortex

characteristic: cell type

text: human

text: X78yr_Ag12_PFC Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 84


E-MTAB-3037:Sample 57

text: public

text: E-MTAB-3037:Sample 57

text: 30 year

text: ArrayExpress

text: Human iPSCs

text: human

characteristic: common name

text: X30yr_A53_c2_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 57


E-MTAB-3037:Sample 66

text: public

text: E-MTAB-3037:Sample 66

text: 69 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X69yr_E7_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 66


E-MTAB-3037:Sample 52

text: Laboratory of Genetics - Gage The Salk Institute for Biological Studies

text: public

text: E-MTAB-3037:Sample 52

text: 1 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X1yr_G59_c3_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: Sample 52


E-MTAB-3037:Sample 41

text: public

text: E-MTAB-3037:Sample 41

text: 66 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X66yr_A03_d1_iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 41

characteristic: title


E-MTAB-3037:Sample 86

text: public

characteristic: INSDC status

text: E-MTAB-3037:Sample 86

text: 89 year

text: ArrayExpress

text: Human post-mortem prefrontal cortex

text: human

text: X89yr_Ag14_PFC Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 86


E-MTAB-3037:Sample 36

characteristic: ENA-CHECKLIST

text: public

text: E-MTAB-3037:Sample 36

text: 45 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X45yr_E5__iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 36


E-MTAB-3037:Sample 63

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-3037:Sample 63

text: 65 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X65yr_PET_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 63


E-MTAB-3037:Sample 46

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-3037:Sample 46

text: 87 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X87yr_A84__iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 46


E-MTAB-3037:Sample 53

characteristic: External Id

text: public

text: E-MTAB-3037:Sample 53

text: 1 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X1yr_O6_c2_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 53


E-MTAB-3037:Sample 75

characteristic: INSDC center name

text: public

text: E-MTAB-3037:Sample 75

text: 13 year

text: ArrayExpress

text: Human post-mortem prefrontal cortex

text: human

text: X13yr_Ag3_PFC Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 75


E-MTAB-3037:Sample 42

characteristic: INSDC first public

text: public

text: E-MTAB-3037:Sample 42

text: 66 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X66yr_A03_d2_iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 42


E-MTAB-3037:Sample 23

characteristic: INSDC last update

text: public

text: E-MTAB-3037:Sample 23

text: 74 year

text: ArrayExpress

text: Primary human fibroblasts

text: human

text: X74yr_E3__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 23


E-MTAB-3037:Sample 43

text: public

characteristic: SRA accession

text: E-MTAB-3037:Sample 43

text: 71 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X71yr_E30_d1_iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 43


E-MTAB-3037:Sample 9

text: public

text: E-MTAB-3037:Sample 9

characteristic: Submitter Id

text: 1 year

text: ArrayExpress

text: Primary human fibroblasts

text: human

text: X1yr_G59__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 9


E-MTAB-3037:Sample 31

text: public

text: E-MTAB-3037:Sample 31

text: 1 year

characteristic: age

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X1yr_O6_d2_iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 31


E-MTAB-3037:Sample 78

text: public

text: E-MTAB-3037:Sample 78

text: 25 year

text: ArrayExpress

characteristic: broker name

text: Human post-mortem prefrontal cortex

text: human

text: X25yr_Ag6_PFC Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 78


E-MTAB-3037:Sample 37

text: public

text: E-MTAB-3037:Sample 37

text: 45 year

text: ArrayExpress

text: Purified induced neurons (iN)

characteristic: cell type

text: human

text: X45yr_ZER__iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 37


E-MTAB-3037:Sample 73

text: public

text: E-MTAB-3037:Sample 73

text: 0 year

text: ArrayExpress

text: Human post-mortem prefrontal cortex

text: human

characteristic: common name

text: X0yr_Ag1_PFC Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 73


E-MTAB-3037:Sample 58

text: Laboratory of Genetics - Gage The Salk Institute for Biological Studies

text: public

text: E-MTAB-3037:Sample 58

text: 30 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X30yr_A53_c6_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

characteristic: description

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 58


E-MTAB-3037:Sample 67

text: public

text: E-MTAB-3037:Sample 67

text: 71 year

text: ArrayExpress

text: Human iPSCs

text: human

text: X71yr_E30_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Homo sapiens

text: Sample 67


E-MTAB-3037:Sample 16

text: public

text: E-MTAB-3037:Sample 16

text: 45 year

text: ArrayExpress

text: Primary human fibroblasts

text: human

text: X45yr_ZER__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 16

characteristic: title


E-MTAB-3037:Sample 79

text: public

characteristic: INSDC status

text: E-MTAB-3037:Sample 79

text: 35 year

text: ArrayExpress

text: Human post-mortem prefrontal cortex

text: human

text: X35yr_Ag7_PFC Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 79


E-MTAB-3037:Sample 47

characteristic: ENA-CHECKLIST

text: public

text: E-MTAB-3037:Sample 47

text: 89 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X89yr_A29__iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 47


E-MTAB-3037:Sample 35

characteristic: ENA-FIRST-PUBLIC

text: public

text: E-MTAB-3037:Sample 35

text: 43 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X43yr_E4__iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 35


E-MTAB-3037:Sample 80

characteristic: ENA-LAST-UPDATE

text: public

text: E-MTAB-3037:Sample 80

text: 49 year

text: ArrayExpress

text: Human post-mortem prefrontal cortex

text: human

text: X49yr_Ag8_PFC Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 80


E-MTAB-3037:Sample 17

characteristic: External Id

text: public

text: E-MTAB-3037:Sample 17

text: 50 year

text: ArrayExpress

text: Primary human fibroblasts

text: human

text: X50yr_SUC__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 17


E-MTAB-3037:Sample 34

characteristic: INSDC center name

text: public

text: E-MTAB-3037:Sample 34

text: 30 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X30yr_A53__iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 34


E-MTAB-3037:Sample 8

characteristic: INSDC first public

text: public

text: E-MTAB-3037:Sample 8

text: 0 year

text: ArrayExpress

text: Primary human fibroblasts

text: human

text: X0yr_GM__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 8


E-MTAB-3037:Sample 25

characteristic: INSDC last update

text: public

text: E-MTAB-3037:Sample 25

text: 89 year

text: ArrayExpress

text: Primary human fibroblasts

text: human

text: X89yr_A29__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 25


E-MTAB-3037:Sample 45

text: public

characteristic: SRA accession

text: E-MTAB-3037:Sample 45

text: 74 year

text: ArrayExpress

text: Purified induced neurons (iN)

text: human

text: X74yr_E3__iN Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 45


E-MTAB-3037:Sample 14

text: public

text: E-MTAB-3037:Sample 14

characteristic: Submitter Id

text: 43 year

text: ArrayExpress

text: Primary human fibroblasts

text: human

text: X43yr_E4__F Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 14


E-MTAB-3037:Sample 59

text: public

text: E-MTAB-3037:Sample 59

text: 43 year

characteristic: age

text: ArrayExpress

text: Human iPSCs

text: human

text: X43yr_E4_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 59


E-MTAB-3037:Sample 48

text: public

text: E-MTAB-3037:Sample 48

text: 0 year

text: ArrayExpress

characteristic: broker name

text: Human iPSCs

text: human

text: X0yr_BJ_iPS Protocols: For the direct conversion of human fibroblasts into induced neurons (iN), cells were lentivirally transduced to express rtTA and a 2A-peptide-linked transcript coding for the pro-neuronal transcription factors Ngn2 and Ascl1, resulting in transgenic, but silent and expandable, AN fibroblasts. For iN conversion, cells were transferred to conversion media containing doxycycline and small molecular enhancers (also see Ladewig et al., Nat Methods 2012). Under these conditions, fibroblasts underwent marked morphological changes into neuronal cells, with typical neuronal morphologies appearing around week 2 of conversion. RNA was collected for RNA-Seq on various time points during the iN conversion process. To analyze the transcriptome of iNs via RNA-Seq, neuronal RNA needs to be pure, with minimal fibroblast contamination that might confound analysis. As live iNs express PSA-NCAM on the cell surface, we established a FACS-based protocol for purification of neurons using a PSA-NCAM antibody. Pure iN RNA for RNA-Seq was isolated by sorting directly into Trizol-LS reagent. All other fibroblast and iPSC RNA samples were directly collected from adherent mono-cultures. Trizol-LS and RNeasy mini TruSeq stranded mRNA (Illumina)

text: Homo sapiens

text: Homo sapiens

text: Homo sapiens

text: Sample 48


text: Lama glama

characteristic: ArrayExpress-Species

text: SC

text: public

text: llama

text: Lama glama

text: Lama glama