BioMicroCenter: Difference between revisions

From BioMicro Center

Latest revision as of 03:58, 11 June 2025

Welcome to the MIT BioMicro Center!

News & General Information
Pricing
Internal Sample Submission for
Genomics and Informatics (ilabs)

The MIT BioMicro Center is an integrated genomics core facility that provides both expertise and equipment for systems biology. The core has significant resources in sample preparation, next generation sequencing and in high throughput screening as well as bioinformatics and BioIT. The Center is a joint endeavor between the Department of Biology, the Koch Institute for Integrative Cancer Research (Integrated Genomics and Bioinformatics Core (IGB)), and the Department of Biological Engineering.

Assisted Services

Walkup Services

Sample Isolation

Sonication (Covaris E220/R230)
DNA/RNA purification (Chemagic360)
Quality Control
(AATI Fragment Analyzer/FemtoPulse)

Library Preparation

Short Read Sample Preparation
- High Throughput Methods for *DNA* *RNA*
Long Read Sample Preparation
(Nanopore and PacBio)

Sample Quantification

Single Cell and Spatial

10X CHROMIUM
(5'RNA, 3'RNA, ATAC, multiome, flex)
10X VISIUM (Std & HD)
ELEMENT AVITI24 (in situ prep/sequencing)

Sequencing Technologies

High Yield (>1b reads)
- Illumina NovaSeq6000 (S2,S4)
Mid Yield (250m-1b reads)
- Illumina NextSeq500
Low Yield (1m-150m reads)
- Illumina MiSeq
Long Read (1kb+)
- PacBio Revio†

Automation / Library Prep

Data Analysis

Bioinformatic Consulting

Data Management/BioIT

Education/Training/Seminars

† - service will be performed in a sister core facility (Harvard, DFCI, or Broad)

BMC Internal wiki

CONTACT US

68-322
biomicro@mit.edu
617-715-4533

Retrieved from "http://bmcwiki.mit.edu/index.php?title=BioMicroCenter&oldid=767"

@@ Line 1: / Line 1: @@
-<!--
+<h2 align="center"> Welcome to the MIT BioMicro Center! </h2>
-#<h2> COVID-19 UPDATE: 6/7/2021 </h2>
-#
-#<B> [[BioMicroCenter:COVID|Current procedures for WALKUP and ASSISTED services can be found on our COVID page]] </B><BR><BR>
-#* All submissions for assisted and services MUST be approved before you bring samples or use equipment in the Center.
-#* Informatics support remains unchanged during COVID.
-#
-#External Users:<BR>
-#* No walkup services are available for external users. Samples can be hand delivered outside of Building 68 or shipped by Fedex. Shipping address is #in our [[BioMicroCenter:FAQ|FAQ]]
--->
-NOTE: This is an archival version of the wiki and may not be up to date. We are working to address this issue.
+{| width="100%"
+ |-
+ |valign="top"|
+[[File:logo.png|left]]
+ | valign="top" align="left"|
+* [[BioMicroCenter:News|'''News & General Information''']]
+* [[BioMicroCenter:Pricing|Pricing]]
+* Internal Sample Submission for <BR>[https://mit-ki.ilabsolutions.com/sc/3381/ki-genomics-core-mit-biomicro-center?tab=about Genomics] and [https://mit-ki.ilabsolutions.com/sc/3189/bioinformatics-and-computing-core/?tab=services Informatics] (ilabs)
+ | valign="top" align="left"|
+* [[BioMicroCenter:People| Staff]] / [[BioMicroCenter:Jobs|Positions Available]]
+* [[BioMicroCenter:Forms#NEW_USERS|New User Signup Forms]]
+* [[BioMicroCenter:Forms|External Submission Forms]]
+* [[BioMicroCenter:FAQ|FAQs]]
+|}
+The '''MIT BioMicro Center''' is an integrated genomics core facility that provides both expertise and equipment for systems biology. The core has significant resources in sample preparation, next generation sequencing and in high throughput screening as well as bioinformatics and BioIT. The Center is a joint endeavor between the [http://biology.mit.edu Department of Biology], the [http://ki.mit.edu Koch Institute for Integrative Cancer Research] (Integrated Genomics and Bioinformatics Core (IGB)), and the [http://web.mit.edu/be Department of Biological Engineering].
-<h2 align="center"> Welcome to the MIT BioMicro Center! </h2>
+{| width="100%"
-<!--'''COVID restriction information is located here for [[BioMicroCenter:COVID|-ASSISTED SERVICES- . -WALK UP INSTRUMENTS- . -NON-MIT USERS-]]<BR><BR>'''-->
-The '''MIT BioMicro Center''' is an integrated genomics core facility that provides both expertise and equipment for systems biology. The core has significant resources in next generation sequencing and in high throughput screening as well as bioinformatics and BioIT. The Center is a joint endeavor between the [http://biology.mit.edu Department of Biology], the [http://ki.mit.edu Koch Institute for Integrative Cancer Research] (Genomics Core and Bioinformatics and Computing Core), the [http://web.mit.edu/be Department of Biological Engineering]  and the [http://cehs.mit.edu MIT Center for Environmental Health Sciences] (Genomics and Informatics Facilities Core).
-<BR><BR>
-{| width="100%"
   |- valign="top"
-  |rowspan=3 width="33%"|
+  |colspan=2 align="center" style="background-color:yellow; border:1px solid purple"|
+ {|
+  |<BIG><B>Assisted Services </B></BIG>
+ |}
+ |align="center" style="background-color:aqua; border:1px solid black"|
   {|
-   |[[File:Bmclogo2020.png|400 px|center]]
+   |<BIG><B> Walkup Services </B></BIG>
   |}
-  |align="center" width="33%" style="background-color:transparent; border:1px solid purple; height:150px;"|
+  |-
+ |valign="top" align="center" style="background-color:transparent; border:1px solid black"|
   {|
-   |valign="top" width="10%" align="left" height="145px"|
+   |width="10%" align="left"|<BIG><B>Sample Isolation</B></BIG>
-<BIG><B> The BioMicro Center </B></BIG>
+* Sonication ([[BioMicroCenter:Covaris|Covaris E220/R230]])
-* [[BioMicroCenter:News|'''News & General Information''']]
+* DNA/RNA purification ([[BioMicroCenter:Tecan_Freedom_Evo#Revvity_Chemagic_360|Chemagic360]])
-* [[BioMicroCenter:People| Staff]] <!--/ [[BioMicroCenter:Jobs|Positions Available]]-->
+* Quality Control<BR>([[BioMicroCenter:QC|AATI Fragment Analyzer/FemtoPulse]])
-* [[BioMicroCenter:Forms|Sample Submission Forms and Scheduling]]
-* [[BioMicroCenter:Pricing|Pricing]]
-* [[BioMicroCenter:Technology_Seminar_Series| Technology Seminar Series]]
-* [[BioMicroCenter:FAQ|FAQs]]
-[https://wikis.mit.edu/confluence/display/bmc ''BMC Internal wiki'']
   |}
-  |align="center" width="33%" style="background-color:transparent; border:1px solid purple; height:150px;"|
+  |valign="top" align="center" style="background-color:transparent; border:1px solid black"|
   {|
-   |valign="top" width="10%" align="left" height="145px"|
+   |width="10%" align="left"|<BIG><B>Library Preparation</B></BIG>
-<BIG><B> [[BioMicroCenter:Sequencing|Sequencing Technologies]] </B></BIG>
+* [[BioMicroCenter:Illumina_Library_Preparation|Short Read Sample Preparation]]<small>
-* [[BioMicroCenter:Illumina_Sequencing|Illumina Sequencing]] (NovaSeq, NextSeq, MiSeq)
+** Standard Methods for [[BioMicroCenter:DNA_LIB| *DNA* ]] [[BioMicroCenter:RNA_LIB| *RNA* ]]
-* [[BioMicroCenter:Singular Sequencing|Singular Sequencing]] (G4)
+** [[BioMicroCenter:FAQ#STANDARD_versus_HIGH_THROUGHPUT_LIBRARY_PREPARATION|High Throughput Methods]] for [[BioMicroCenter:DNA_HTL| *DNA* ]]  [[BioMicroCenter:RNA_HTL| *RNA* ]]</small>
-* [[BioMicroCenter:Element Sequencing|Element Sequencing]] (AVITI)
+* Long Read Sample Preparation<BR>([[BioMicroCenter:NanoPore_Library_Prep|Nanopore]] and [[BioMicroCenter:PacBio_Library_Preparation|PacBio]])
-* [[BioMicroCenter:PacBio| PacBio Sequencing]] with Revio
-* [[BioMicroCenter:Oxford Nanopore Technologies| Nanopore Sequencing]] with PromethION
   |}
-  |- valign="top"
+  |valign="top" align="center" style="background-color:transparent; border:1px solid black"|
- |align="center" width="33%" style="background-color:transparent; border:1px solid purple; height:150px;"|
   {|
-   |valign="top" width="10%" align="left" height="145px"|
+   |width="10%" align="left"|<BIG><B>Sample Quantification</B></BIG>
-<BIG><B> High Throughput </B></BIG>
-* [[BioMicroCenter:Tecan Freedom Evo|Liquid Handlers]] ([[BioMicroCenter:Tecan_Freedom_Evo#JOHNNY_5|Tecan EVO]] / [[BioMicroCenter:Tecan_Freedom_Evo#SPT_LABTECH_MOSQUITO_HV|SPT Mosquito]])
-* DNA/RNA purification ([[BioMicroCenter:Tecan_Freedom_Evo#verrity_Chemagic_360|Chemagic360]])
 * Plate Readers ([[BioMicroCenter:Varioskan#Synergy_H1| Synergy H1]]/[[BioMicroCenter:Varioskan| Varioskan]])
+* [[BioMicroCenter:RTPCR|RT-PCR (Roche LC480)]]
+* [[BioMicroCenter:QC| BioAnalyzer2100]]
+* [[BioMicroCenter:QC#NanoDrop_ND-1000| NanoDrop ND-1000]]
+ |}
+ |-
+ |valign="top" align="center" style="background-color:transparent; border:1px solid black"|
+ {|
+  |width="10%" align="left"|<BIG><B>Single Cell and Spatial</B></BIG>
+* [[BioMicroCenter:SingleCell|10X CHROMIUM]] <BR> (5'RNA, 3'RNA, ATAC, multiome, flex)
+* 10X VISIUM (Std & HD)
+* ELEMENT AVITI24 (<i>in situ</i> prep/sequencing)
   |}
-  |align="center" width="33%" style="background-color:transparent; border:1px solid purple; height:150px;"|
+  |valign="top" align="center" style="background-color:transparent; border:1px solid black"|
   {|
-   |valign="top" width="10%" align="left" height="145px|
+   |width="10%" align="left"|<BIG><B> [[BioMicroCenter:Sequencing|Sequencing Technologies]] </B></BIG>
-<BIG><B> Illumina Library Services </B></BIG>
+* High Yield (>1b reads) <small>
-* [[BioMicroCenter:Illumina_Library_Preparation|Short Read Sample Preparation]]
+**[[BioMicroCenter:Illumina_Sequencing|Illumina NovaSeqX (25b,10b)]]†
-** Standard Methods for [[BioMicroCenter:DNA_LIB| *DNA* ]] [[BioMicroCenter:RNA_LIB| *RNA* ]]
+**[[BioMicroCenter:Illumina_Sequencing|Illumina NovaSeq6000 (S2,S4)]]</small>
-** High Throughput Methods for [[BioMicroCenter:DNA_HTL| *DNA* ]]  [[BioMicroCenter:RNA_HTL| *RNA* ]]
+* Mid Yield (250m-1b reads) <small>
-* [[BioMicroCenter:SingleCell|Single Cell Prep, Sequencing and Analysis]]
+**[[BioMicroCenter:Element Sequencing|Element AVITI24]]
+**[[BioMicroCenter:Illumina_Sequencing|Illumina NovaSeq6000]]
+**[[BioMicroCenter:Illumina_Sequencing|Illumina NextSeq500]]</small>
+* Low Yield (1m-150m reads) <small>
+**[[BioMicroCenter:Singular Sequencing|SingularG4]]
+**[[BioMicroCenter:Illumina_Sequencing|Illumina MiSeq]]</small>
+* Long Read (1kb+) <small>
+**[[BioMicroCenter:Oxford Nanopore Technologies|ONT PromethION]]
+**[[BioMicroCenter:PacBio|PacBio Revio]]†</small>
+ |}
+ |valign="top" align="center" style="background-color:transparent; border:1px solid black"|
+  {|
+  |width="10%" align="left"|<BIG><B>Automation / Library Prep</B></BIG>
+* [[BioMicroCenter:Tecan Freedom Evo|Liquid Handlers]] ([[BioMicroCenter:Tecan_Freedom_Evo#JOHNNY_5|Tecan EVO]]
+* [[BioMicroCenter:Tecan_Freedom_Evo#SPT_LABTECH_MOSQUITO_HV|SPT Mosquito]])
+* [[BioMicroCenter:Covaris|Covaris E220 and R230 Focused-ultrasonicators]]
 * [[BioMicroCenter:PippinPrep|Pippin Prep automated electrophoresis system]]
-* [[BioMicroCenter:Covaris|Covaris E220 and R230 Focused-ultrasonicators]]
+* [[BioMicroCenter:Oligo_Synthesis| Oligo Synthesis]]
   |}
-  |- valign="top"
- |align="center" width="33%" style="background-color:transparent; border:1px solid purple; height:150px;"|
+  |-
+ |valign="top" align="center" style="background-color:transparent; border:1px solid black"|
   {|
-   |valign="top" width="10%" align="left" height="145px"|
+   |width="10%" align="left"|[[BioMicroCenter:Computing|<BIG><B>Data Analysis</B></BIG>]]
-<BIG><B> [[BioMicroCenter:Computing|Bioinformatics and BioIT]] </B></BIG>
 * [[BioMicroCenter:BioInformaticsStaff|Bioinformatic Consulting]]
-* [[BioMicroCenter:DataManagement|Data Management]]
+ |}
+ |valign="top" align="center" style="background-color:transparent; border:1px solid black"|
+ {|
+  |width="10%" align="left"|<BIG><B>Data Management/BioIT</B></BIG>
+* [https://koch-institute-mit.gitbook.io/mit-data-management-analysis-core/ Data Management]
 * [[BioMicroCenter:Computing#HARDWARE|Servers]]
 * [[BioMicroCenter:Computing#SOFTWARE|Software]]
+ |}
+ |valign="top" align="center" style="background-color:transparent; border:1px solid black"|
+ {|
+  |width="10%" align="left"|<BIG><B>Education/Training/Seminars</B></BIG>
 * [[BioMicroCenter:BioinfoClasses|Informatics Training Sessions]]
-* [[BioMicroCenter:BIG_meeting|BIG meeting Schedule]]
+* [[BioMicroCenter:Technology_Seminar_Series|Technology Seminar Series]]
-* [https://mit-ki.ilabsolutions.com/sc/3189/bioinformatics-and-computing-core?tab=services Poster Printing [[Image:Ki small.jpg]]]
- |}
- |align="center" width="33%" style="background-color:transparent; border:1px solid purple; height:150px;"|
- {|
-  |valign="top" width="10%" align="left" height="145px"|
-<BIG><B> Other Services </B></BIG>
-* [[BioMicroCenter:RTPCR| PCR and RT-PCR]]
-* [[BioMicroCenter:QC|BioAnalyzer / AATI Fragment Analyzer / Femto Pulse]]
 * [http://mailman.mit.edu:/mailman/listinfo/biostuff Biostuff mailing list]
-* [[BioMicroCenter:Oligo_Synthesis| Oligo Synthesis]]
   |}
 |}
-<h2 align="center">  </h2>
-<h2 align="center"> [http://whereis.mit.edu 68-322] ---- biomicro@mit.edu ---- 617-715-4533  </h2>
+† - service will be performed in a sister core facility (Harvard, DFCI, or Broad)<BR>
+<BR>
+[https://wikis.mit.edu/confluence/display/bmc ''BMC Internal wiki'']
-[[Image:Ki_small.jpg]] - Denotes services available through the KI Genomics Core in the High Throughput Facility located in 76-047 or in the KI Bioinformatics and Computing Core in 76-189 and are not directly part of the BioMicro Center.<BR>
+<h2 align="center"> CONTACT US </h2>
+[http://whereis.mit.edu 68-322]<BR>
+biomicro@mit.edu<BR>
+-715-4533