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A Next-Generation Sequencing Core Facility DNA and RNA sequencing capabilities of
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Denny Porter, Director Steven Coon, Staff Scientist Alan Pang, Lab Supervisor James Iben, Bioinformatics
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ABI SOLiD 5500xl
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Whole exome (PDEGEN) Targeted exome (PRAE) RNA-Seq (PDEGEN, PGD) Microbiome (PDEGEN, PRAE) Methylome (PGD) microRNA-Seq (PDEGEN) Ribosomal profiling (PGD) ChIP-Seq (PGD)
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2 FlowChips, 6 lanes each Up to 1.8 billion fragments per run Up to 200 Gigabases per run
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For example: Target 150 genes covering 500,000 bases Barcode and run 96 samples on one lane Expected average coverage is >150-fold For example: RNA-Seq Barcode and run 3 samples on one lane Average >40 million read pairs per sample
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Fee for service – pay per sample & per lane Reagent costs only Includes significant bioinformatics support
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All MGL sequencing projects Maraia (PGD) – RNA-Seq, WGS, codon bias Clark (PGD) – ChIP-Seq Crouch (PGD) – WGS & assembly Kino (PRAE) - WES Levin (PCRM) - Integration analysis Ozato (PGD) - ChIP-seq Weinstein (PGD) – Methylome, WGS, WES Hinnebusch (PCRM) - Ribosome profiling, ChIP- Seq Porter (PDEGEN) – RNA-Seq, WES, microbiome Stratakis (PDEGEN) – WES, WGS Bailey-Wilson [NHGRI] - Recalling & mining of variant data
![ All MGL sequencing projects Maraia (PGD) – RNA-Seq, WGS, codon bias Clark (PGD) – ChIP-Seq Crouch (PGD) – WGS & assembly Kino (PRAE) - WES Levin (PCRM) - Integration analysis Ozato (PGD) - ChIP-seq Weinstein (PGD) – Methylome, WGS, WES Hinnebusch (PCRM) - Ribosome profiling, ChIP- Seq Porter (PDEGEN) – RNA-Seq, WES, microbiome Stratakis (PDEGEN) – WES, WGS Bailey-Wilson [NHGRI] - Recalling & mining of variant data](http://images.slideplayer.com./15/4706748/slides/slide_8.jpg " All MGL sequencing projects Maraia (PGD) – RNA-Seq, WGS, codon bias Clark (PGD) – ChIP-Seq Crouch (PGD) – WGS & assembly Kino (PRAE) - WES Levin (PCRM) - Integration analysis Ozato (PGD) - ChIP-seq Weinstein (PGD) – Methylome, WGS, WES Hinnebusch (PCRM) - Ribosome profiling, ChIP- Seq Porter (PDEGEN) – RNA-Seq, WES, microbiome Stratakis (PDEGEN) – WES, WGS Bailey-Wilson [NHGRI] - Recalling & mining of variant data")
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Application process (8-member committee) * Number of Applications: 18 (18 PIs) * Number of Programs: 7 (PDEGEN[5], PGD[5], OSD[3], PRAE[1], MMP[1], PDN[1], PPD[1]) * Sequencing types: 7 (RNA-Seq alone[8], microRNA-Seq[3], whole exome[3], RNA-Seq + ribosomal profiling[1], RNA-Seq + ChIP-Seq[1], bisulfite sequencing (RRBS)[1], microbiome[1] * Total funding requested: $346,000 * Number of Applications Funded: 9 (9 PIs; 4 Programs) * Sequencing types: 6 * Total subsidized: $150,000
![Application process (8-member committee) * Number of Applications: 18 (18 PIs) * Number of Programs: 7 (PDEGEN[5], PGD[5], OSD[3], PRAE[1], MMP[1], PDN[1], PPD[1]) * Sequencing types: 7 (RNA-Seq alone[8], microRNA-Seq[3], whole exome[3], RNA-Seq + ribosomal profiling[1], RNA-Seq + ChIP-Seq[1], bisulfite sequencing (RRBS)[1], microbiome[1] * Total funding requested: $346,000 * Number of Applications Funded: 9 (9 PIs; 4 Programs) * Sequencing types: 6 * Total subsidized: $150,000](http://images.slideplayer.com./15/4706748/slides/slide_9.jpg "Application process (8-member committee) * Number of Applications: 18 (18 PIs) * Number of Programs: 7 (PDEGEN[5], PGD[5], OSD[3], PRAE[1], MMP[1], PDN[1], PPD[1]) * Sequencing types: 7 (RNA-Seq alone[8], microRNA-Seq[3], whole exome[3], RNA-Seq + ribosomal profiling[1], RNA-Seq + ChIP-Seq[1], bisulfite sequencing (RRBS)[1], microbiome[1] * Total funding requested: $346,000 * Number of Applications Funded: 9 (9 PIs; 4 Programs) * Sequencing types: 6 * Total subsidized: $150,000")
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Meetings: 3 rd Wednesday of the month from 12:00-1:00 in Bldg 10/Rm 5-2550
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Website: mgl.nichd.nih.gov List serv: MGL-USERS-L Email: NICHDDIRMolGenomicsLab@mail.nih.govMolGenomicsLab@mail.nih.gov Phone: 301-402-4563 Walk-in: Bldg 10/Rm 9D41
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