BioMicroCenter:Illumina Library Preparation - Revision history

Hilo1: /* Short Read Library Prep Services */

2026-04-30T14:31:57Z

Short Read Library Prep Services

← Older revision		Revision as of 14:31, 30 April 2026
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	* Tagmentation Methods		* Tagmentation Methods
	** Nextera XT		** Nextera XT
	** Nextera Flex		** Illumina DNA Prep (Nextera Flex)

	\| '''[[BioMicroCenter:RNA_LIB\|Standard RNA Methods include]]'''		\| '''[[BioMicroCenter:RNA_LIB\|Standard RNA Methods include]]'''
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	* Clontech SMARTseq <br> Low input polyA based		* Clontech SMARTseq <br> Low input polyA based
	* Clontech ZapR <br> Low input rRNA depletion based		* Clontech ZapR <br> Low input rRNA depletion based
	* ~~Small~~ RNA prep		* NEB small RNA prep
	\|-		\|-
	\| '''[[BioMicroCenter:DNA_HTL\|High Throughput DNA Methods include]]'''		\| '''[[BioMicroCenter:DNA_HTL\|High Throughput DNA Methods include]]'''
	* Amplicon / 16S		* Amplicon / 16S
	* NexteraXT		* NexteraXT
	* Nextera Flex		* Illumina DNA Prep (Nextera Flex)
	* NEB UltraII		* NEB UltraII
	\| '''[[BioMicroCenter:RNA_HTL\|High Throughput RNA Methods include]]'''		\| '''[[BioMicroCenter:RNA_HTL\|High Throughput RNA Methods include]]'''

Slevine at 22:55, 23 April 2026

2026-04-23T22:55:36Z

← Older revision		Revision as of 22:55, 23 April 2026
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	{{BioMicroCenter}}		{{BioMicroCenter}}

	Generating high-quality data on any short read sequencing platform requires high-quality libraries. The BMC currently offers library preparation services for a variety of starting materials. Prior to sequencing, all libraries must pass the BioMicro ~~Center’s~~ Sequencing Quality Control process, which verifies selection of inserts of a desired size and correct ligation of short read sequencing adapters.		Generating high-quality data on any short read sequencing platform requires high-quality libraries. The BMC currently offers library preparation services for a variety of starting materials. Prior to sequencing, all libraries must pass the BioMicro Center's Sequencing Quality Control process, which verifies selection of inserts of a desired size and correct ligation of short read sequencing adapters.

	== Short Read Library Prep Services==		== Short Read Library Prep Services==
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	\| '''[[BioMicroCenter:RNA_LIB\|Standard RNA Methods include]]'''		\| '''[[BioMicroCenter:RNA_LIB\|Standard RNA Methods include]]'''
	* NEB UltraII <br> polyA stranded method		* NEB UltraII <br> polyA stranded method
	* NEB ribosomal depletion ~~(NEB or Lexogen for Bacteria)~~ <br> stranded rRNA depletion		* NEB ribosomal depletion <br> stranded rRNA depletion
	* ~~SMARTer_Low-Input~~ <br> Low input polyA based		* Clontech SMARTseq <br> Low input polyA based
	* Clontech ZapR <br> Low input rRNA depletion based.		* Clontech ZapR <br> Low input rRNA depletion based
	* ~~smallRNA~~ prep		* Small RNA prep
	\|-		\|-
	\| '''[[BioMicroCenter:DNA_HTL\|High Throughput DNA Methods include]]'''		\| '''[[BioMicroCenter:DNA_HTL\|High Throughput DNA Methods include]]'''
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	* SMARTseq v2		* SMARTseq v2
	* ZapR		* ZapR
			\|}

			== Long Read Library Prep Services ==

			The BioMicro Center also supports library preparation for long-read sequencing on two platforms. See the [[BioMicroCenter:LongRead\|Long Read Sequencing page]] for full details on sequencing services and platform comparison.

			{\| style="wikitable" border=1
			!width=300\| Oxford Nanopore Technologies
			!width=300\| PacBio
			\|-
			\| '''[[BioMicroCenter:LongRead#PromethION_Library_Preparation\|Nanopore Library Methods include]]'''
			* LSK114 — Ligation-based dsDNA
			* RBK114 — Tagmentation-based / ultra-long
			* RNA004 — Direct RNA sequencing
			* Native barcoding available (up to 96 samples)

			\| '''[[BioMicroCenter:LongRead#Revio_.E2.80.94_Library_Preparation\|PacBio Library Methods include]]'''
			* SMRTbell Prep Kit v3.0
			* Genomic DNA (HiFi, 10–20 kb reads)
			* Size selection via PippinPrep available
	\|}		\|}

Hilo1: /* Short Read Library Prep Services */

2025-05-28T13:28:15Z

Short Read Library Prep Services

← Older revision		Revision as of 13:28, 28 May 2025
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	{\| style="wikitable" border=1		{\| style="wikitable" border=1
	! DNA		!width=300\| DNA
	! RNA		!width=300\| RNA
	\|-		\|-
	\| '''[[BioMicroCenter:DNA_LIB\|Standard DNA Methods include]]'''		\| '''[[BioMicroCenter:DNA_LIB\|Standard DNA Methods include]]'''

172.18.0.1 at 17:37, 27 May 2025

2025-05-27T17:37:17Z

← Older revision		Revision as of 17:37, 27 May 2025
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	{{BioMicroCenter}}		{{BioMicroCenter}}

	Generating high-quality data on any short read sequencing platform requires high-quality libraries. The BMC currently offers library preparation services for a variety of starting materials. Prior to sequencing, all ~~samples~~ must pass the BioMicro Center’s Sequencing Quality Control process, which verifies selection of inserts of a desired size and correct ligation of short read sequencing adapters.		Generating high-quality data on any short read sequencing platform requires high-quality libraries. The BMC currently offers library preparation services for a variety of starting materials. Prior to sequencing, all libraries must pass the BioMicro Center’s Sequencing Quality Control process, which verifies selection of inserts of a desired size and correct ligation of short read sequencing adapters.

	== Short Read Library Prep Services==		== Short Read Library Prep Services==

Slevine at 15:13, 15 May 2025

2025-05-15T15:13:23Z

← Older revision		Revision as of 15:13, 15 May 2025
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	{{BioMicroCenter}}		{{BioMicroCenter}}

	~~[[Image:BMC_samplePrep_pipes.jpeg\|thumb\|right\|400px\|Simplified workflow in the MIT BioMicro Center]]~~
	Generating high-quality data on any short read sequencing platform requires high-quality libraries. The BMC currently offers library preparation services for a variety of starting materials. Prior to sequencing, all samples must pass the BioMicro Center’s Sequencing Quality Control process, which verifies selection of inserts of a desired size and correct ligation of short read sequencing adapters.		Generating high-quality data on any short read sequencing platform requires high-quality libraries. The BMC currently offers library preparation services for a variety of starting materials. Prior to sequencing, all samples must pass the BioMicro Center’s Sequencing Quality Control process, which verifies selection of inserts of a desired size and correct ligation of short read sequencing adapters.

Hilo1: /* Short Read Library Prep Services */

2025-04-30T17:51:06Z

Short Read Library Prep Services

← Older revision		Revision as of 17:51, 30 April 2025
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	* Amplicon / 16S		* Amplicon / 16S
	* NexteraXT		* NexteraXT
	* low input NexteraXT
	* Nextera Flex		* Nextera Flex
	* NEB UltraII		* NEB UltraII

Hilo1 at 17:13, 30 April 2025

2025-04-30T17:13:42Z

← Older revision		Revision as of 17:13, 30 April 2025
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	{{BioMicroCenter}}		{{BioMicroCenter}}

	[[Image:BMC_samplePrep_pipes.jpeg\|thumb\|right\|400px\|~~Sample Preparation available~~ in BioMicro]]		[[Image:BMC_samplePrep_pipes.jpeg\|thumb\|right\|400px\|Simplified workflow in the MIT BioMicro Center]]
	Generating high-quality data on any short read sequencing platform requires high-quality libraries. The BMC currently offers library preparation services for a variety of starting materials. Prior to sequencing, all samples must pass the BioMicro Center’s Sequencing Quality Control process, which verifies selection of inserts of a desired size and correct ligation of ~~Illumina~~ adapters.		Generating high-quality data on any short read sequencing platform requires high-quality libraries. The BMC currently offers library preparation services for a variety of starting materials. Prior to sequencing, all samples must pass the BioMicro Center’s Sequencing Quality Control process, which verifies selection of inserts of a desired size and correct ligation of short read sequencing adapters.

	== Short Read Library Prep Services==		== Short Read Library Prep Services==

172.18.0.1: /* SIZE SELECTION */

2025-04-30T15:17:05Z

SIZE SELECTION

← Older revision		Revision as of 15:17, 30 April 2025
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	== OTHER SERVICES ==		== OTHER SERVICES ==
	=== SIZE SELECTION ===		=== SIZE SELECTION ===
	The BMC offers [[BioMicroCenter:PippinPrep\|PippinPrep Size Selection]] post library construction if custom insert sizes are needed.		The BMC offers standard SPRI cleans for NGS libraries and [[BioMicroCenter:PippinPrep\|PippinPrep Size Selection]] post library construction if custom insert sizes are needed.

	=== QUALITY CONTROL ===		=== QUALITY CONTROL ===
	All NGS libraries are quality controlled prior to use. The BioMicro Center offers two 'flavors' of quality control for NGS libraries.<BR><BR>		All NGS libraries are quality controlled prior to use. The BioMicro Center offers two 'flavors' of quality control for NGS libraries.<BR><BR>

172.18.0.1: /* QUALITY CONTROL */

2025-04-30T15:01:25Z

QUALITY CONTROL

← Older revision		Revision as of 15:01, 30 April 2025
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	The BMC offers [[BioMicroCenter:PippinPrep\|PippinPrep Size Selection]] post library construction if custom insert sizes are needed.		The BMC offers [[BioMicroCenter:PippinPrep\|PippinPrep Size Selection]] post library construction if custom insert sizes are needed.
	=== QUALITY CONTROL ===		=== QUALITY CONTROL ===
	All NGS libraries are quality controlled prior to use. The BioMicro Center offers two 'flavors' of quality control for ~~Illumina~~ libraries.<BR><BR>		All NGS libraries are quality controlled prior to use. The BioMicro Center offers two 'flavors' of quality control for NGS libraries.<BR><BR>
	Standard quality control includes analysis on the [[BioMicroCenter:QC#AATI_FRAGMENT_ANALYZER\|Fragment Analyzer]] and quantification by four point [[BioMicroCenter:RTPCR\|qPCR]] quantification for each sample. This confirms both the sizing as well as the presence of Illumina adapters on the libraries.<BR><BR>		Standard quality control includes analysis on the [[BioMicroCenter:QC#AATI_FRAGMENT_ANALYZER\|Fragment Analyzer]] and quantification by four point [[BioMicroCenter:RTPCR\|qPCR]] quantification for each sample. This confirms both the sizing as well as the presence of Illumina adapters on the libraries.<BR><BR>
	Rapid Quality Control is less expensive and quicker. It includes analysis on the [[BioMicroCenter:QC#AATI_FRAGMENT_ANALYZER\|Fragment Analyzer]] and quantification by PicoGreen on the [[BioMicroCenter:Varioskan\|Varioskan]] for each sample. Final pools are quantified by [[BioMicroCenter:RTPCR\|qPCR]] before loading. While this method is significantly faster and less expensive, we cannot guarantee pool balance with it.		Rapid Quality Control is less expensive and quicker. It includes analysis on the [[BioMicroCenter:QC#AATI_FRAGMENT_ANALYZER\|Fragment Analyzer]] and quantification by PicoGreen on the [[BioMicroCenter:Varioskan\|Varioskan]] for each sample. Final pools are quantified by [[BioMicroCenter:RTPCR\|qPCR]] before loading. While this method is significantly faster and less expensive, we cannot guarantee pool balance with it.
	<BR><BR>[[BioMicroCenter:PREP_TEST]]		<BR><BR>[[BioMicroCenter:PREP_TEST]]

Hilo1 at 17:11, 25 April 2025

2025-04-25T17:11:40Z

← Older revision		Revision as of 17:11, 25 April 2025
Line 2:		Line 2:

	[[Image:BMC_samplePrep_pipes.jpeg\|thumb\|right\|400px\|Sample Preparation available in BioMicro]]		[[Image:BMC_samplePrep_pipes.jpeg\|thumb\|right\|400px\|Sample Preparation available in BioMicro]]
	Generating high-quality data on ~~the~~ any short read sequencing platform requires high-quality libraries. The BMC currently offers library preparation services for a variety of starting materials. Prior to sequencing, all samples must pass the BioMicro Center’s Sequencing Quality Control process, which verifies selection of inserts of a desired size and correct ligation of Illumina adapters.		Generating high-quality data on any short read sequencing platform requires high-quality libraries. The BMC currently offers library preparation services for a variety of starting materials. Prior to sequencing, all samples must pass the BioMicro Center’s Sequencing Quality Control process, which verifies selection of inserts of a desired size and correct ligation of Illumina adapters.

	== Short Read Library Prep Services==		== Short Read Library Prep Services==