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: @@
-NOTE: This is an archival version of the wiki and may not be up to date. We are working to address this issue.
 <h2 align="center"> Welcome to the MIT BioMicro Center! </h2>
+{| 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].
-<BR><BR>
 {| width="100%"
   |- valign="top"
-  |rowspan=3 width="33%"|
+  |colspan=2 align="center" style="background-color:yellow; border:1px solid purple"|
   {|
-   |[[File:Bmclogo2020.png|400 px|center]]
+   |<BIG><B>Assisted Services </B></BIG>
   |}
-  |align="center" width="33%" style="background-color:transparent; border:1px solid purple; height:150px;"|
+  |align="center" style="background-color:aqua; border:1px solid black"|
   {|
-   |valign="top" width="10%" align="left" height="145px"|
+   |<BIG><B> Walkup Services </B></BIG>
-<BIG><B> The BioMicro Center </B></BIG>
+ |}
-* [[BioMicroCenter:News|'''News & General Information''']]
-* [[BioMicroCenter:People| Staff]] <!--/ [[BioMicroCenter:Jobs|Positions Available]]-->
+ |-
-* [[BioMicroCenter:Forms|User signup forms and Sample Submission Forms for external users]]
+ |valign="top" align="center" style="background-color:transparent; border:1px solid black"|
-* [[BioMicroCenter:Pricing|Pricing]]
+ {|
-* [[BioMicroCenter:Technology_Seminar_Series| Technology Seminar Series]]
+  |width="10%" align="left"|<BIG><B>Sample Isolation</B></BIG>
-* [[BioMicroCenter:FAQ|FAQs]]
+* Sonication ([[BioMicroCenter:Covaris|Covaris E220/R230]])
-[https://wikis.mit.edu/confluence/display/bmc ''BMC Internal wiki'']
+* DNA/RNA purification ([[BioMicroCenter:Tecan_Freedom_Evo#Revvity_Chemagic_360|Chemagic360]])
+* Quality Control<BR>([[BioMicroCenter:QC|AATI Fragment Analyzer/FemtoPulse]])
   |}
-  |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]] (AVITI24)
+* 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 Equipment (Automation and Extraction)</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:Covaris|Covaris E220 and R230 Focused-ultrasonicators]]
+* [[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)
+ |}
+ |valign="top" align="center" style="background-color:transparent; border:1px solid black"|
+ {|
+  |width="10%" align="left"|<BIG><B> [[BioMicroCenter:Sequencing|Sequencing Technologies]] </B></BIG>
+* High Yield (>1b reads) <small>
+**[[BioMicroCenter:Illumina_Sequencing|Illumina NovaSeqX (25b,10b)]]†
+**[[BioMicroCenter:Illumina_Sequencing|Illumina NovaSeq6000 (S2,S4)]]</small>
+* Mid Yield (250m-1b reads) <small>
+**[[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>
   |}
-  |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>Automation / Library Prep</B></BIG>
-<BIG><B> Illumina Library Services </B></BIG>
+* [[BioMicroCenter:Tecan Freedom Evo|Liquid Handlers]] ([[BioMicroCenter:Tecan_Freedom_Evo#JOHNNY_5|Tecan EVO]]
-* [[BioMicroCenter:Illumina_Library_Preparation|Short Read Sample Preparation]]
+* [[BioMicroCenter:Tecan_Freedom_Evo#SPT_LABTECH_MOSQUITO_HV|SPT Mosquito]])
-** Standard Methods for [[BioMicroCenter:DNA_LIB| *DNA* ]] [[BioMicroCenter:RNA_LIB| *RNA* ]]
+* [[BioMicroCenter:Covaris|Covaris E220 and R230 Focused-ultrasonicators]]
-** High Throughput Methods for [[BioMicroCenter:DNA_HTL| *DNA* ]]  [[BioMicroCenter:RNA_HTL| *RNA* ]]
-* [[BioMicroCenter:SingleCell|Single Cell Prep, Sequencing and Analysis]]
 * [[BioMicroCenter:PippinPrep|Pippin Prep automated electrophoresis system]]
+* [[BioMicroCenter:Oligo_Synthesis| Oligo Synthesis]]
+ |}
+ |-
+ |valign="top" align="center" style="background-color:transparent; border:1px solid black"|
+ {|
+  |width="10%" align="left"|[[BioMicroCenter:Computing|<BIG><B>Data Analysis</B></BIG>]]
+* [[BioMicroCenter:BioInformaticsStaff|Bioinformatic Consulting]]
   |}
-  |- 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>Data Management/BioIT</B></BIG>
-<BIG><B> [[BioMicroCenter:Computing|Bioinformatics and BioIT]] </B></BIG>
+* [https://koch-institute-mit.gitbook.io/mit-data-management-analysis-core/ Data Management]
-* [[BioMicroCenter:BioInformaticsStaff|Bioinformatic Consulting]]
-* [[BioMicroCenter:DataManagement|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