Recombinant:Article Title: Autologous cell replacement therapy for Parkinson's disease
Article Snippet: .. # WB66593 H7 hESC cell line WiCell Institute iPS-DF19-9-11T WiCell Institute Human adult fibroblasts Coriell Institute Cat.# GM03529 HEK293T cells ATCC CRL-11268 Recombinant DNA pGEM-T Easy vector Promega Cat.# A1360 pCXLE-EGFP episomal vector Addgene Cat.# 27082 FUW-tetO-MCS vector Addgene Cat.# 84008 FUW-tetO-hMYC Addgene Cat.# 20723 FUW-tetO- SOX2 Addgene Cat.# 20724 FUW-tetO- KLF4 Addgene Cat.# 20725 FUW-tetO- OCT4 Addgene Cat.# 20726 STEMCCA lentiviral vector Mostoslavsky's lab psPAX2 Addgene Cat.# 12260 pMD2.G Addgene Cat.# 12259 Software and Algorithms Image J National Institutes of Health Version 2.0 Stereo Investigator MBF Biosciences Version 2017 Axion BioSystems's Neural Axion Biosystems Version 2.2 Metric Tool Axis Navigator software Axion Biosystems Version 1.5.1 C6 software BD Biosciences BWA-MEM bio-bwa.sourceforge.net/ Version 0.7.15 SAM tools samtools.github.io/ Version 1.3.1 Picard tools broadinstitute.github.io/picard/ Version 2.5.0 Genome Analysis Toolkit software.broadinstitute.org/gatk Version 3.6.0 MuTect2 Variant Effect Predictor ensembl.org/vep Version GRCh38.89 (annotation cache version 89) ngCGH github.com/seandavi/ngCGH Version 0.4.4 Integrated Genome Viewer software.broadinstitute.org/ Version 2.3.79 software/igv/ Personalis Cancer Exome Personalis, Inc., CA, USA ACE3 pipeline R The R foundation Version 3.4 Biopsy Skin biopsies from three healthy subjects and one sporadic PD patient (Table C) were taken under an IRB approved protocol (Partners IRB #2010P001100). .. TABLE C Summary of episomal plasmid-based hiPSC generation Age starting # iPS-like efficiency initial # final iPS source subtype cell ID (years) gender race Cell No. colony (/initial) P/U lines Coriell Familial PD ND29541 65 Male Caucasian 5.0E+04 130 0.260% 12 5 Coriell Familial PD ND34235 71 Male Caucasian 5.0E+04 67 0.134% 6 3 Coriell Familial PD ND34980 58 Male Caucasian 5.0E+04 131 0.262% 12 4 Coriell Sporadic PD ND29423 73 Male Caucasian 5.0E+04 187 0.374% 24 6 Coriell Sporadic PD ND31508 71 Male Caucasian 5.0E+04 92 0.184% 12 4 Coriell Sporadic PD ND35976 63 Male Caucasian 5.0E+04 118 0.236% 24 10 Coriell Healthy GM00731 96 Male Caucasian 5.0E+04 181 0.362% 24 5 Coriell Healthy GM03524 67 Female Black 5.0E+04 153 0.306% 24 7 Coriell Healthy GM23248 55 Male Caucasian 5.0E+04 84 0.168% 12 7 Biopsy Healthy MCL359 25 Male N/A 2.0E+04 32 0.160% 12 4 Biopsy Healthy MCL446 20 Male N/A 2.0E+04 37 0.185% 12 5 Biopsy Healthy MCL453 22 Female N/A 2.0E+04 20 0.100% 6 3 Biopsy Sporadic PD MCL540 68 Male Hispanic 2.0E+04 62 0.340% 36 11 Experimental Animals Strain details and number of animals in each group are as follows: 6-OHDA lesioned athymic rats (NTac:NIH-Foxn1mu, Taconic Biosciences), males, 12-14 weeks old.
Software:Article Title: Autologous cell replacement therapy for Parkinson's disease
Article Snippet: .. # WB66593 H7 hESC cell line WiCell Institute iPS-DF19-9-11T WiCell Institute Human adult fibroblasts Coriell Institute Cat.# GM03529 HEK293T cells ATCC CRL-11268 Recombinant DNA pGEM-T Easy vector Promega Cat.# A1360 pCXLE-EGFP episomal vector Addgene Cat.# 27082 FUW-tetO-MCS vector Addgene Cat.# 84008 FUW-tetO-hMYC Addgene Cat.# 20723 FUW-tetO- SOX2 Addgene Cat.# 20724 FUW-tetO- KLF4 Addgene Cat.# 20725 FUW-tetO- OCT4 Addgene Cat.# 20726 STEMCCA lentiviral vector Mostoslavsky's lab psPAX2 Addgene Cat.# 12260 pMD2.G Addgene Cat.# 12259 Software and Algorithms Image J National Institutes of Health Version 2.0 Stereo Investigator MBF Biosciences Version 2017 Axion BioSystems's Neural Axion Biosystems Version 2.2 Metric Tool Axis Navigator software Axion Biosystems Version 1.5.1 C6 software BD Biosciences BWA-MEM bio-bwa.sourceforge.net/ Version 0.7.15 SAM tools samtools.github.io/ Version 1.3.1 Picard tools broadinstitute.github.io/picard/ Version 2.5.0 Genome Analysis Toolkit software.broadinstitute.org/gatk Version 3.6.0 MuTect2 Variant Effect Predictor ensembl.org/vep Version GRCh38.89 (annotation cache version 89) ngCGH github.com/seandavi/ngCGH Version 0.4.4 Integrated Genome Viewer software.broadinstitute.org/ Version 2.3.79 software/igv/ Personalis Cancer Exome Personalis, Inc., CA, USA ACE3 pipeline R The R foundation Version 3.4 Biopsy Skin biopsies from three healthy subjects and one sporadic PD patient (Table C) were taken under an IRB approved protocol (Partners IRB #2010P001100). .. TABLE C Summary of episomal plasmid-based hiPSC generation Age starting # iPS-like efficiency initial # final iPS source subtype cell ID (years) gender race Cell No. colony (/initial) P/U lines Coriell Familial PD ND29541 65 Male Caucasian 5.0E+04 130 0.260% 12 5 Coriell Familial PD ND34235 71 Male Caucasian 5.0E+04 67 0.134% 6 3 Coriell Familial PD ND34980 58 Male Caucasian 5.0E+04 131 0.262% 12 4 Coriell Sporadic PD ND29423 73 Male Caucasian 5.0E+04 187 0.374% 24 6 Coriell Sporadic PD ND31508 71 Male Caucasian 5.0E+04 92 0.184% 12 4 Coriell Sporadic PD ND35976 63 Male Caucasian 5.0E+04 118 0.236% 24 10 Coriell Healthy GM00731 96 Male Caucasian 5.0E+04 181 0.362% 24 5 Coriell Healthy GM03524 67 Female Black 5.0E+04 153 0.306% 24 7 Coriell Healthy GM23248 55 Male Caucasian 5.0E+04 84 0.168% 12 7 Biopsy Healthy MCL359 25 Male N/A 2.0E+04 32 0.160% 12 4 Biopsy Healthy MCL446 20 Male N/A 2.0E+04 37 0.185% 12 5 Biopsy Healthy MCL453 22 Female N/A 2.0E+04 20 0.100% 6 3 Biopsy Sporadic PD MCL540 68 Male Hispanic 2.0E+04 62 0.340% 36 11 Experimental Animals Strain details and number of animals in each group are as follows: 6-OHDA lesioned athymic rats (NTac:NIH-Foxn1mu, Taconic Biosciences), males, 12-14 weeks old.
Variant Assay:Article Title: Autologous cell replacement therapy for Parkinson's disease
Article Snippet: .. # WB66593 H7 hESC cell line WiCell Institute iPS-DF19-9-11T WiCell Institute Human adult fibroblasts Coriell Institute Cat.# GM03529 HEK293T cells ATCC CRL-11268 Recombinant DNA pGEM-T Easy vector Promega Cat.# A1360 pCXLE-EGFP episomal vector Addgene Cat.# 27082 FUW-tetO-MCS vector Addgene Cat.# 84008 FUW-tetO-hMYC Addgene Cat.# 20723 FUW-tetO- SOX2 Addgene Cat.# 20724 FUW-tetO- KLF4 Addgene Cat.# 20725 FUW-tetO- OCT4 Addgene Cat.# 20726 STEMCCA lentiviral vector Mostoslavsky's lab psPAX2 Addgene Cat.# 12260 pMD2.G Addgene Cat.# 12259 Software and Algorithms Image J National Institutes of Health Version 2.0 Stereo Investigator MBF Biosciences Version 2017 Axion BioSystems's Neural Axion Biosystems Version 2.2 Metric Tool Axis Navigator software Axion Biosystems Version 1.5.1 C6 software BD Biosciences BWA-MEM bio-bwa.sourceforge.net/ Version 0.7.15 SAM tools samtools.github.io/ Version 1.3.1 Picard tools broadinstitute.github.io/picard/ Version 2.5.0 Genome Analysis Toolkit software.broadinstitute.org/gatk Version 3.6.0 MuTect2 Variant Effect Predictor ensembl.org/vep Version GRCh38.89 (annotation cache version 89) ngCGH github.com/seandavi/ngCGH Version 0.4.4 Integrated Genome Viewer software.broadinstitute.org/ Version 2.3.79 software/igv/ Personalis Cancer Exome Personalis, Inc., CA, USA ACE3 pipeline R The R foundation Version 3.4 Biopsy Skin biopsies from three healthy subjects and one sporadic PD patient (Table C) were taken under an IRB approved protocol (Partners IRB #2010P001100). .. TABLE C Summary of episomal plasmid-based hiPSC generation Age starting # iPS-like efficiency initial # final iPS source subtype cell ID (years) gender race Cell No. colony (/initial) P/U lines Coriell Familial PD ND29541 65 Male Caucasian 5.0E+04 130 0.260% 12 5 Coriell Familial PD ND34235 71 Male Caucasian 5.0E+04 67 0.134% 6 3 Coriell Familial PD ND34980 58 Male Caucasian 5.0E+04 131 0.262% 12 4 Coriell Sporadic PD ND29423 73 Male Caucasian 5.0E+04 187 0.374% 24 6 Coriell Sporadic PD ND31508 71 Male Caucasian 5.0E+04 92 0.184% 12 4 Coriell Sporadic PD ND35976 63 Male Caucasian 5.0E+04 118 0.236% 24 10 Coriell Healthy GM00731 96 Male Caucasian 5.0E+04 181 0.362% 24 5 Coriell Healthy GM03524 67 Female Black 5.0E+04 153 0.306% 24 7 Coriell Healthy GM23248 55 Male Caucasian 5.0E+04 84 0.168% 12 7 Biopsy Healthy MCL359 25 Male N/A 2.0E+04 32 0.160% 12 4 Biopsy Healthy MCL446 20 Male N/A 2.0E+04 37 0.185% 12 5 Biopsy Healthy MCL453 22 Female N/A 2.0E+04 20 0.100% 6 3 Biopsy Sporadic PD MCL540 68 Male Hispanic 2.0E+04 62 0.340% 36 11 Experimental Animals Strain details and number of animals in each group are as follows: 6-OHDA lesioned athymic rats (NTac:NIH-Foxn1mu, Taconic Biosciences), males, 12-14 weeks old.
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