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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
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<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
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<center><img src="https://www.diagenode.com/img/product/kits/UDI-for-tagmented-fig1.png" /></center>
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<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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<p>The <strong>24 UDI for tagmented libraries</strong> includes 24 primer pairs for unique dual-indexing allowing the multiplexing of up to <b>24 samples </b>for sequencing on Illumina platforms. These UDI are designed and validated to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones</a> (Cat. No. C01011011), <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones</a> (Cat. No. C01011009), <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation</a> (Cat. No. C01011030), <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit</a> (Cat. No. C01080002). The 24 UDI for tagmented libraries are compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>
<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
<p><span>Each set can be used for library multiplexing up to 24. All sets can be used simultaneously for library multiplexing up to 72.</span></p>
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<ul>
<li>Multiplexing: <b>up to 72 samples </b>(using all 3 sets simultaneously)<b><br /></b></li>
<li>Allow for <b>identification of index hopping</b></li>
<li>Compatibility: <b>tagmentation</b><b>-based library preparation protocols</b></li>
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
<p></p>
<center><img src="https://www.diagenode.com/img/product/kits/UDI-for-tagmented-fig1.png" /></center>
<p></p>
<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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<p>The Diagenode <strong>µChIPmentation Kit for Histones</strong> is optimized to perform ChIP-seq on as little as <strong>10.000 cells</strong> from cell fixation to purified libraries. To <strong>reduce DNA lost</strong> the number of sample transfer from tube to tube has been limited: during whole workflow - from cell fixation to library prurification - only 3 tubes per sample are used. Reduced number of steps, reduced number of sample transfer and <a href="https://www.diagenode.com/en/categories/chromatin-ip-chipmentation" target="_blank">ChIPmentation technology</a> itself enable for <strong>efficient and robust ChIP-seq</strong> on <strong>limited amount of sample</strong>. The kit µChIPmentation for Histones includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The primer indexes for multiplexing are not included in the kit and have to be purchase separately - <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">read more</a>.</p>
<div class="extra-spaced">
<h3>Benefits of the µChIPmentation system for histone ChIP-seq</h3>
<ul>
<li><strong>Easier</strong> and <strong>faster</strong> than classical ChIP-seq</li>
<li>Optimized for <strong>low input samples</strong>: as little as 10,000 cells</li>
<li>Protocol optimized for <strong>FACS-sorted cells</strong></li>
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<ul class="accordion" data-accordion="" style="margin-left: 0;">
<li class="accordion-navigation"><a style="background-color: white;" href="#workflow"><i class="fa fa-caret-right"></i> Workflow of µChIPmentation for Histones - Read more</a>
<div id="workflow" class="content">
<div class="extra-spaced"><center><img src="https://www.diagenode.com/img/product/kits/workflow-micro-chipmentation.png" /></center></div>
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<div class="row extra-spaced">
<div class="small-12 medium-12 large-12 columns"><strong>A.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1A.png" /></div>
</div>
<div class="row extra-spaced">
<div class="small-12 medium-5 large-5 columns" columns=""><strong>B.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1B.png" /></div>
<div class="small-12 medium-7 large-7 columns">
<p style="text-align: left;"><strong>Figure 1. Comparison between ChIPmentation and µChIPmentation </strong><br />ChIPmentation: chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. No. C01011000) and diluted chromatin from 500.000 cells was used for the immunoprecipitation. µChIPmentation: chromatin preparation and immunoprecipitation have been performed on 10.000 K562 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032). The Diagenode antibody targeting H3K27me3 (Cat. No. C15410195) was used.<br /> A. Distribution of the ChIPmentation and µChIPmentation readsets in a representative region of the genome (in duplicates). B. Comparison of the top 40% peaks from µChIPmentation (10.000 cells) with dataset generated with ChIPmentation (500.000 cells).</p>
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<p><strong>Figure 2. Sequencing profiles of µChIPmentation libraries </strong><br />Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003), H3K27ac (Cat. No. C15410196), H3K27me3 (Cat. No. C15410195) and H3K9me3 (Cat. No. C15410193) have been used.</p>
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<p><strong>Figure 3. Integrative genomics viewer (IGV) visualization of from ChIP-seq experiments using H3K27me3 antibody (Diagenode, Cat. No. <span>C15410195</span>) and 10.000 cells of K562 cells per immunoprecipitation.<br /></strong>Cells were FACS-sorted and ChIP has been performed accordingly to µChIPmentation protocol. Batch chromatin preparation followed by immunoprecipitation has been used per comparison as indicated.</p>
</div>
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'label2' => 'Additional solutions for µChIPmentation Kit for Histones',
'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-high-sds-100-million-cells">Chromatin EasyShear Kit - High SDS</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies" target="_blank">ChIP-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for multiplexing:</p>
<ul class="no-bullet">
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries" target="_blank">24 SI for Tagmented libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries" target="_blank">8 SI for Tagmented libraries Cat. No. C01011033</a></li>
<li><em></em><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for Tagmented libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for Tagmented libraries, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
<li></li>
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<div align="center"><video width="400" height="250" autoplay="autoplay" muted="" loop="loop" controls="controls" src="https://www.diagenode.com/videos/chipmentation-dgo.mp4" frameborder="0" allowfullscreen="allowfullscreen"></video></div>
<div align="center"><a href="https://www.diagenode.com/pages/form-chipmentation" class="center alert radius button"><i class="fa fa-info"></i> Contact us</a></div>
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<p>Tagmentation is a reaction where an enzyme (a transposase) cleaves DNA and incorporates sequencing adaptors at the ends of the DNA fragments in one step. In our ChIPmentation technology we combine chromatin immunoprecipitation and tagmentation in one streamlined workflow where the tagmentation step occurs directly on chromatin. The <strong>TAG Kit for ChIPmentation</strong> has been developed for researchers who would like to perform ChIPmentation using their own validated ChIP protocol. Our TAG Kit for ChIPmentation includes reagents for <strong>tagmentation-based library preparation</strong> and is compatible with any ChIP protocol based on magnetic beads. The <strong>primer</strong> <strong>indexes for multiplexing</strong> must be <strong>purchased separately</strong> and are available as a reference:</p>
<p><a href="https://www.diagenode.com/en/p/24-si-for-chipmentation">24 SI for ChIPmentation, Cat. No. C01011031</a><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for Tagmented libraries - Set I, Cat. No. C0101134</a><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136<br /></a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137<br /></a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank"><br /></a></p>',
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'info1' => '<h3>Comparing to classical ChIP-seq, ChIPmentation enables:</h3>
<ul>
<li>An easier protocol</li>
<li>Faster time to results</li>
<li>Flexibility – the TAG Kit for ChIPmentation combained with 24 SI for ChIPmentation allows you to perform ChIPmentation with <strong>any ChIP protocol </strong>(based on magnetic beads)<strong><br /></strong></li>
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<h3>ChIPmentation on histone marks using TAG KIT for ChIPmentation</h3>
<center><img src="https://www.diagenode.com/img/product/chipmentation/chipmentation-of-histone-using-tag-kit-for-chipmentation.jpg" /></center>
<p><strong>ChIPmentation sequencing results for four histone marks</strong>. Chromatin preparation has been performed on 7M K562 cells using the Auto iDeal ChIP-seq Kit for Histones (Cat. No. C01010057), TAG Kit for ChIPmentation (Cat. No. C01011030) and 24 SI for ChIPmentation (Cat. No. C01011031)*. Diluted chromatin from 1,000,000 cells was used for the immunoprecipitation with the Diagenode antibodies targeting H3K4me1 (Cat. No. C15410194), H3K27me3 (Cat. No. C15410195), H3K27ac (Cat. No. C15410196) and IgG (Cat. No. C15410206). The experiment was performed on the IP-Star® Compact Automated System.</p>
<p><small>*The Auto iDeal ChIP-seq for Histones (C01010057), TAG Kit for ChIPmentation (C01011030) and 24 SI for ChIPmentation (C01011031) form together the Auto ChIPmentation Kit for Histones* (C01011000).</small></p>
<h3>ChIPmentation on non-histone proteins using TAG Kit for ChIPmentation</h3>
<center><img src="https://www.diagenode.com/img/product/chipmentation/chipmentation-of-histone-using-tag-kit-for-chipmentation-2.jpg" /></center>
<p><strong></strong></p>
<p><strong>ChIPmentation sequencing results for two non histone factors</strong>. Chromatin preparation has been performed on 25M K562 cells using the iDeal ChIP-seq kit for TFs (Cat. No. C01010055). Diluted chromatin from 1,000,000 or 4,000,000 cells was used for the immunoprecipitation with the Diagenode antibodies targeting CTCF (Cat. No. C15410210) and RNA PolII (Cat. No. C15100055 ) respectively. The library preparation was performed with the TAG Kit for ChIPmentation (Cat. No. C01011030) and 24 SI for ChIPmentation (Cat. No. C01011031).</p>',
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<p style="text-align: justify;">Diagenode’s epigenetic reagents include:</p>
<ul>
<li style="text-align: justify;"><strong>DNA methylation kits and antibodies</strong> - Validated NGS-compatible kits for MeDIP, MBD pull-down, whole genome bisulfite sequencing, and reduced representation bisulfite sequencing. Official provider for the original clone for 5-mC 33D3.</li>
<li style="text-align: justify;"><strong>ChIP and ChIP-seq kits for industry-leading specificity and sensitivity</strong> - MicroChIP/MicroPlex Kit for ChIP-seq with only 10,000 cells and the iDeal ChIP-seq Kits optimized for both transcription factors and histones. Our kits feature full reagents for ChIP-seq including control primers, control antibodies, magnetics beads, and purification reagents.</li>
<li style="text-align: justify;"><strong>Library preparation kits</strong> tailored for your specific requirements. The MicroPlex Library Preparation Kit simplifies library preparation requiring only 3 simple steps and allowing inputs of only 50 pg. </li>
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'description' => '<p>The <strong>Primer indexes for tagmented libraries</strong> are PCR primers targeting the Nextera sequencing adapters, previously incorporated in the libraries by <strong>tagmentation</strong>. Each primer index is baring a <strong>unique index</strong> in order to identify each library before pooling them for sequencing in the same lane. They are compatible with any Nextera-based libraries such as the one generated with ChIPmentation, ATAC-seq or CUT&Tag technologies.</p>
<h3>Features:</h3>
<ul>
<li>Compatibility: <strong>tagmentation-based library</strong> preparation protocols</li>
<li>Flexibility: <strong>Single</strong> and <strong>unique dual indexing</strong> available</li>
<li>Multiplexing capacity: up to <strong>72 samples</strong> (with UDI)</li>
<li>Identification and <strong>filtering of index hopping</strong> – using the UDI</li>
</ul>
<p>Get the manual of <a href="https://www.diagenode.com/files/products/kits/primer-indexes-for-tagmented-libraries_manual.pdf" target="_blank" title="Primer indexes for tagmented libraries - Manual">Primer indexes for tagmented libraries</a>.</p>',
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<p>Tagmentation is a reaction where an enzyme (a transposase) cleaves DNA and incorporates sequencing adaptors at the ends of the DNA fragments in one step. In our ChIPmentation technology we combine chromatin immunoprecipitation and tagmentation in one streamlined workflow where the tagmentation step occurs directly on chromatin. The <strong>TAG Kit for ChIPmentation</strong> has been developed for researchers who would like to perform ChIPmentation using their own validated ChIP protocol. Our TAG Kit for ChIPmentation includes reagents for <strong>tagmentation-based library preparation</strong> and is compatible with any ChIP protocol based on magnetic beads. The <strong>primer</strong> <strong>indexes for multiplexing</strong> must be <strong>purchased separately</strong> and are available as a reference:</p>
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<h3>ChIPmentation on histone marks using TAG KIT for ChIPmentation</h3>
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<center><img src="https://www.diagenode.com/img/product/kits/UDI-for-tagmented-fig1.png" /></center>
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<p>3 sets of UDI for tagmented libraries are available:</p>
<p><strong>24 UDI for tagmented libraries - Set I</strong><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for tagmented libraries - Set II</a><br /><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for tagmented libraries - Set III</a><br /><br /></p>
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<p></p>
<center><img src="https://www.diagenode.com/img/product/kits/UDI-for-tagmented-fig1.png" /></center>
<p></p>
<p><small><strong>Figure 1. Sequencing profiles of µChIPmentation libraries generated with 24 UDI for Tagmented libraries</strong> Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 UDI for Tagmented libraries – Set I (Cat. No. Cat. No. C01011034) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003) and rabbit IgG (Cat. No. C15410206) have been used. </small></p>
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<p>The Diagenode <strong>µChIPmentation Kit for Histones</strong> is optimized to perform ChIP-seq on as little as <strong>10.000 cells</strong> from cell fixation to purified libraries. To <strong>reduce DNA lost</strong> the number of sample transfer from tube to tube has been limited: during whole workflow - from cell fixation to library prurification - only 3 tubes per sample are used. Reduced number of steps, reduced number of sample transfer and <a href="https://www.diagenode.com/en/categories/chromatin-ip-chipmentation" target="_blank">ChIPmentation technology</a> itself enable for <strong>efficient and robust ChIP-seq</strong> on <strong>limited amount of sample</strong>. The kit µChIPmentation for Histones includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The primer indexes for multiplexing are not included in the kit and have to be purchase separately - <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">read more</a>.</p>
<div class="extra-spaced">
<h3>Benefits of the µChIPmentation system for histone ChIP-seq</h3>
<ul>
<li><strong>Easier</strong> and <strong>faster</strong> than classical ChIP-seq</li>
<li>Optimized for <strong>low input samples</strong>: as little as 10,000 cells</li>
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<ul class="accordion" data-accordion="" style="margin-left: 0;">
<li class="accordion-navigation"><a style="background-color: white;" href="#workflow"><i class="fa fa-caret-right"></i> Workflow of µChIPmentation for Histones - Read more</a>
<div id="workflow" class="content">
<div class="extra-spaced"><center><img src="https://www.diagenode.com/img/product/kits/workflow-micro-chipmentation.png" /></center></div>
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<div class="row extra-spaced">
<div class="small-12 medium-12 large-12 columns"><strong>A.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1A.png" /></div>
</div>
<div class="row extra-spaced">
<div class="small-12 medium-5 large-5 columns" columns=""><strong>B.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1B.png" /></div>
<div class="small-12 medium-7 large-7 columns">
<p style="text-align: left;"><strong>Figure 1. Comparison between ChIPmentation and µChIPmentation </strong><br />ChIPmentation: chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. No. C01011000) and diluted chromatin from 500.000 cells was used for the immunoprecipitation. µChIPmentation: chromatin preparation and immunoprecipitation have been performed on 10.000 K562 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032). The Diagenode antibody targeting H3K27me3 (Cat. No. C15410195) was used.<br /> A. Distribution of the ChIPmentation and µChIPmentation readsets in a representative region of the genome (in duplicates). B. Comparison of the top 40% peaks from µChIPmentation (10.000 cells) with dataset generated with ChIPmentation (500.000 cells).</p>
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<p><strong>Figure 2. Sequencing profiles of µChIPmentation libraries </strong><br />Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003), H3K27ac (Cat. No. C15410196), H3K27me3 (Cat. No. C15410195) and H3K9me3 (Cat. No. C15410193) have been used.</p>
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<div class="extra-spaced">
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<p><strong>Figure 3. Integrative genomics viewer (IGV) visualization of from ChIP-seq experiments using H3K27me3 antibody (Diagenode, Cat. No. <span>C15410195</span>) and 10.000 cells of K562 cells per immunoprecipitation.<br /></strong>Cells were FACS-sorted and ChIP has been performed accordingly to µChIPmentation protocol. Batch chromatin preparation followed by immunoprecipitation has been used per comparison as indicated.</p>
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'label2' => 'Additional solutions for µChIPmentation Kit for Histones',
'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-high-sds-100-million-cells">Chromatin EasyShear Kit - High SDS</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies" target="_blank">ChIP-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for multiplexing:</p>
<ul class="no-bullet">
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries" target="_blank">24 SI for Tagmented libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries" target="_blank">8 SI for Tagmented libraries Cat. No. C01011033</a></li>
<li><em></em><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for Tagmented libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for Tagmented libraries, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
<li></li>
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<div align="center"><video width="400" height="250" autoplay="autoplay" muted="" loop="loop" controls="controls" src="https://www.diagenode.com/videos/chipmentation-dgo.mp4" frameborder="0" allowfullscreen="allowfullscreen"></video></div>
<div align="center"><a href="https://www.diagenode.com/pages/form-chipmentation" class="center alert radius button"><i class="fa fa-info"></i> Contact us</a></div>
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<p>Tagmentation is a reaction where an enzyme (a transposase) cleaves DNA and incorporates sequencing adaptors at the ends of the DNA fragments in one step. In our ChIPmentation technology we combine chromatin immunoprecipitation and tagmentation in one streamlined workflow where the tagmentation step occurs directly on chromatin. The <strong>TAG Kit for ChIPmentation</strong> has been developed for researchers who would like to perform ChIPmentation using their own validated ChIP protocol. Our TAG Kit for ChIPmentation includes reagents for <strong>tagmentation-based library preparation</strong> and is compatible with any ChIP protocol based on magnetic beads. The <strong>primer</strong> <strong>indexes for multiplexing</strong> must be <strong>purchased separately</strong> and are available as a reference:</p>
<p><a href="https://www.diagenode.com/en/p/24-si-for-chipmentation">24 SI for ChIPmentation, Cat. No. C01011031</a><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for Tagmented libraries - Set I, Cat. No. C0101134</a><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136<br /></a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137<br /></a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank"><br /></a></p>',
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'info1' => '<h3>Comparing to classical ChIP-seq, ChIPmentation enables:</h3>
<ul>
<li>An easier protocol</li>
<li>Faster time to results</li>
<li>Flexibility – the TAG Kit for ChIPmentation combained with 24 SI for ChIPmentation allows you to perform ChIPmentation with <strong>any ChIP protocol </strong>(based on magnetic beads)<strong><br /></strong></li>
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<h3>ChIPmentation on histone marks using TAG KIT for ChIPmentation</h3>
<center><img src="https://www.diagenode.com/img/product/chipmentation/chipmentation-of-histone-using-tag-kit-for-chipmentation.jpg" /></center>
<p><strong>ChIPmentation sequencing results for four histone marks</strong>. Chromatin preparation has been performed on 7M K562 cells using the Auto iDeal ChIP-seq Kit for Histones (Cat. No. C01010057), TAG Kit for ChIPmentation (Cat. No. C01011030) and 24 SI for ChIPmentation (Cat. No. C01011031)*. Diluted chromatin from 1,000,000 cells was used for the immunoprecipitation with the Diagenode antibodies targeting H3K4me1 (Cat. No. C15410194), H3K27me3 (Cat. No. C15410195), H3K27ac (Cat. No. C15410196) and IgG (Cat. No. C15410206). The experiment was performed on the IP-Star® Compact Automated System.</p>
<p><small>*The Auto iDeal ChIP-seq for Histones (C01010057), TAG Kit for ChIPmentation (C01011030) and 24 SI for ChIPmentation (C01011031) form together the Auto ChIPmentation Kit for Histones* (C01011000).</small></p>
<h3>ChIPmentation on non-histone proteins using TAG Kit for ChIPmentation</h3>
<center><img src="https://www.diagenode.com/img/product/chipmentation/chipmentation-of-histone-using-tag-kit-for-chipmentation-2.jpg" /></center>
<p><strong></strong></p>
<p><strong>ChIPmentation sequencing results for two non histone factors</strong>. Chromatin preparation has been performed on 25M K562 cells using the iDeal ChIP-seq kit for TFs (Cat. No. C01010055). Diluted chromatin from 1,000,000 or 4,000,000 cells was used for the immunoprecipitation with the Diagenode antibodies targeting CTCF (Cat. No. C15410210) and RNA PolII (Cat. No. C15100055 ) respectively. The library preparation was performed with the TAG Kit for ChIPmentation (Cat. No. C01011030) and 24 SI for ChIPmentation (Cat. No. C01011031).</p>',
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<p style="text-align: justify;">Diagenode’s epigenetic reagents include:</p>
<ul>
<li style="text-align: justify;"><strong>DNA methylation kits and antibodies</strong> - Validated NGS-compatible kits for MeDIP, MBD pull-down, whole genome bisulfite sequencing, and reduced representation bisulfite sequencing. Official provider for the original clone for 5-mC 33D3.</li>
<li style="text-align: justify;"><strong>ChIP and ChIP-seq kits for industry-leading specificity and sensitivity</strong> - MicroChIP/MicroPlex Kit for ChIP-seq with only 10,000 cells and the iDeal ChIP-seq Kits optimized for both transcription factors and histones. Our kits feature full reagents for ChIP-seq including control primers, control antibodies, magnetics beads, and purification reagents.</li>
<li style="text-align: justify;"><strong>Library preparation kits</strong> tailored for your specific requirements. The MicroPlex Library Preparation Kit simplifies library preparation requiring only 3 simple steps and allowing inputs of only 50 pg. </li>
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'description' => '<p>The <strong>Primer indexes for tagmented libraries</strong> are PCR primers targeting the Nextera sequencing adapters, previously incorporated in the libraries by <strong>tagmentation</strong>. Each primer index is baring a <strong>unique index</strong> in order to identify each library before pooling them for sequencing in the same lane. They are compatible with any Nextera-based libraries such as the one generated with ChIPmentation, ATAC-seq or CUT&Tag technologies.</p>
<h3>Features:</h3>
<ul>
<li>Compatibility: <strong>tagmentation-based library</strong> preparation protocols</li>
<li>Flexibility: <strong>Single</strong> and <strong>unique dual indexing</strong> available</li>
<li>Multiplexing capacity: up to <strong>72 samples</strong> (with UDI)</li>
<li>Identification and <strong>filtering of index hopping</strong> – using the UDI</li>
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<p>Get the manual of <a href="https://www.diagenode.com/files/products/kits/primer-indexes-for-tagmented-libraries_manual.pdf" target="_blank" title="Primer indexes for tagmented libraries - Manual">Primer indexes for tagmented libraries</a>.</p>',
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<p>Tagmentation is a reaction where an enzyme (a transposase) cleaves DNA and incorporates sequencing adaptors at the ends of the DNA fragments in one step. In our ChIPmentation technology we combine chromatin immunoprecipitation and tagmentation in one streamlined workflow where the tagmentation step occurs directly on chromatin. The <strong>TAG Kit for ChIPmentation</strong> has been developed for researchers who would like to perform ChIPmentation using their own validated ChIP protocol. Our TAG Kit for ChIPmentation includes reagents for <strong>tagmentation-based library preparation</strong> and is compatible with any ChIP protocol based on magnetic beads. The <strong>primer</strong> <strong>indexes for multiplexing</strong> must be <strong>purchased separately</strong> and are available as a reference:</p>
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'description' => '<p><span>Universal Minicircle Sequence binding proteins (UMSBPs) are CCHC-type zinc-finger proteins that bind the single-stranded G-rich UMS sequence, conserved at the replication origins of minicircles in the kinetoplast DNA, the mitochondrial genome of kinetoplastids. Trypanosoma brucei UMSBP2 has been recently shown to colocalize with telomeres and to play an essential role in chromosome end protection. Here we report that TbUMSBP2 decondenses in vitro DNA molecules, which were condensed by core histones H2B, H4 or linker histone H1. DNA decondensation is mediated via protein-protein interactions between TbUMSBP2 and these histones, independently of its previously described DNA binding activity. Silencing of the TbUMSBP2 gene resulted in a significant decrease in the disassembly of nucleosomes in T. brucei chromatin, a phenotype that could be reverted, by supplementing the knockdown cells with TbUMSBP2. Transcriptome analysis revealed that silencing of TbUMSBP2 affects the expression of multiple genes in T. brucei, with a most significant effect on the upregulation of the subtelomeric variant surface glycoproteins (VSG) genes, which mediate the antigenic variation in African trypanosomes. These observations suggest that UMSBP2 is a chromatin remodeling protein that functions in the regulation of gene expression and plays a role in the control of antigenic variation in T. brucei.</span></p>',
'date' => '2023-05-01',
'pmid' => 'https://www.ncbi.nlm.nih.gov/pubmed/37207337',
'doi' => '10.1093/nar/gkad402',
'modified' => '2023-06-15 08:54:17',
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<p>The <b>24 UDI for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
<p></p>
<center><img src="https://www.diagenode.com/img/product/kits/UDI-for-tagmented-fig1.png" /></center>
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<div class="extra-spaced">
<h3>Benefits of the µChIPmentation system for histone ChIP-seq</h3>
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'info1' => '<p>ChIPmentation is based on tagmentation that allows library preparation to be integrated during the ChIP itself using transposase and sequencing-compatible adaptors. Our new improved µChIPmentation protocol combines 3 features for guaranteeing high quality sequencing data on small sample inputs 1) optimized chromatin shearing preparation protocol, 2) reduced number of steps, 3) reduced number of sample transfer from tube to tube - only 3 tubes per sample for the whole process, from cell fixation to purified libraries.</p>
<ul class="accordion" data-accordion="" style="margin-left: 0;">
<li class="accordion-navigation"><a style="background-color: white;" href="#workflow"><i class="fa fa-caret-right"></i> Workflow of µChIPmentation for Histones - Read more</a>
<div id="workflow" class="content">
<div class="extra-spaced"><center><img src="https://www.diagenode.com/img/product/kits/workflow-micro-chipmentation.png" /></center></div>
</div>
</li>
</ul>
<div class="row extra-spaced">
<div class="small-12 medium-12 large-12 columns"><strong>A.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1A.png" /></div>
</div>
<div class="row extra-spaced">
<div class="small-12 medium-5 large-5 columns" columns=""><strong>B.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1B.png" /></div>
<div class="small-12 medium-7 large-7 columns">
<p style="text-align: left;"><strong>Figure 1. Comparison between ChIPmentation and µChIPmentation </strong><br />ChIPmentation: chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. No. C01011000) and diluted chromatin from 500.000 cells was used for the immunoprecipitation. µChIPmentation: chromatin preparation and immunoprecipitation have been performed on 10.000 K562 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032). The Diagenode antibody targeting H3K27me3 (Cat. No. C15410195) was used.<br /> A. Distribution of the ChIPmentation and µChIPmentation readsets in a representative region of the genome (in duplicates). B. Comparison of the top 40% peaks from µChIPmentation (10.000 cells) with dataset generated with ChIPmentation (500.000 cells).</p>
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<div class="extra-spaced">
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<div class="small-12 medium-12 large-12 columns"><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig2.png" /></div>
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<div class="row">
<div class="small-12 medium-12 large-12 columns">
<p><strong>Figure 2. Sequencing profiles of µChIPmentation libraries </strong><br />Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003), H3K27ac (Cat. No. C15410196), H3K27me3 (Cat. No. C15410195) and H3K9me3 (Cat. No. C15410193) have been used.</p>
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<div class="extra-spaced">
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<p><strong>Figure 3. Integrative genomics viewer (IGV) visualization of from ChIP-seq experiments using H3K27me3 antibody (Diagenode, Cat. No. <span>C15410195</span>) and 10.000 cells of K562 cells per immunoprecipitation.<br /></strong>Cells were FACS-sorted and ChIP has been performed accordingly to µChIPmentation protocol. Batch chromatin preparation followed by immunoprecipitation has been used per comparison as indicated.</p>
</div>
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'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-high-sds-100-million-cells">Chromatin EasyShear Kit - High SDS</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies" target="_blank">ChIP-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for multiplexing:</p>
<ul class="no-bullet">
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries" target="_blank">24 SI for Tagmented libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries" target="_blank">8 SI for Tagmented libraries Cat. No. C01011033</a></li>
<li><em></em><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for Tagmented libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for Tagmented libraries, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
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<div align="center"><video width="400" height="250" autoplay="autoplay" muted="" loop="loop" controls="controls" src="https://www.diagenode.com/videos/chipmentation-dgo.mp4" frameborder="0" allowfullscreen="allowfullscreen"></video></div>
<div align="center"><a href="https://www.diagenode.com/pages/form-chipmentation" class="center alert radius button"><i class="fa fa-info"></i> Contact us</a></div>
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<p>Tagmentation is a reaction where an enzyme (a transposase) cleaves DNA and incorporates sequencing adaptors at the ends of the DNA fragments in one step. In our ChIPmentation technology we combine chromatin immunoprecipitation and tagmentation in one streamlined workflow where the tagmentation step occurs directly on chromatin. The <strong>TAG Kit for ChIPmentation</strong> has been developed for researchers who would like to perform ChIPmentation using their own validated ChIP protocol. Our TAG Kit for ChIPmentation includes reagents for <strong>tagmentation-based library preparation</strong> and is compatible with any ChIP protocol based on magnetic beads. The <strong>primer</strong> <strong>indexes for multiplexing</strong> must be <strong>purchased separately</strong> and are available as a reference:</p>
<p><a href="https://www.diagenode.com/en/p/24-si-for-chipmentation">24 SI for ChIPmentation, Cat. No. C01011031</a><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for Tagmented libraries - Set I, Cat. No. C0101134</a><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136<br /></a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137<br /></a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank"><br /></a></p>',
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'info1' => '<h3>Comparing to classical ChIP-seq, ChIPmentation enables:</h3>
<ul>
<li>An easier protocol</li>
<li>Faster time to results</li>
<li>Flexibility – the TAG Kit for ChIPmentation combained with 24 SI for ChIPmentation allows you to perform ChIPmentation with <strong>any ChIP protocol </strong>(based on magnetic beads)<strong><br /></strong></li>
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<h3>ChIPmentation on histone marks using TAG KIT for ChIPmentation</h3>
<center><img src="https://www.diagenode.com/img/product/chipmentation/chipmentation-of-histone-using-tag-kit-for-chipmentation.jpg" /></center>
<p><strong>ChIPmentation sequencing results for four histone marks</strong>. Chromatin preparation has been performed on 7M K562 cells using the Auto iDeal ChIP-seq Kit for Histones (Cat. No. C01010057), TAG Kit for ChIPmentation (Cat. No. C01011030) and 24 SI for ChIPmentation (Cat. No. C01011031)*. Diluted chromatin from 1,000,000 cells was used for the immunoprecipitation with the Diagenode antibodies targeting H3K4me1 (Cat. No. C15410194), H3K27me3 (Cat. No. C15410195), H3K27ac (Cat. No. C15410196) and IgG (Cat. No. C15410206). The experiment was performed on the IP-Star® Compact Automated System.</p>
<p><small>*The Auto iDeal ChIP-seq for Histones (C01010057), TAG Kit for ChIPmentation (C01011030) and 24 SI for ChIPmentation (C01011031) form together the Auto ChIPmentation Kit for Histones* (C01011000).</small></p>
<h3>ChIPmentation on non-histone proteins using TAG Kit for ChIPmentation</h3>
<center><img src="https://www.diagenode.com/img/product/chipmentation/chipmentation-of-histone-using-tag-kit-for-chipmentation-2.jpg" /></center>
<p><strong></strong></p>
<p><strong>ChIPmentation sequencing results for two non histone factors</strong>. Chromatin preparation has been performed on 25M K562 cells using the iDeal ChIP-seq kit for TFs (Cat. No. C01010055). Diluted chromatin from 1,000,000 or 4,000,000 cells was used for the immunoprecipitation with the Diagenode antibodies targeting CTCF (Cat. No. C15410210) and RNA PolII (Cat. No. C15100055 ) respectively. The library preparation was performed with the TAG Kit for ChIPmentation (Cat. No. C01011030) and 24 SI for ChIPmentation (Cat. No. C01011031).</p>',
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<p style="text-align: justify;">Diagenode’s epigenetic reagents include:</p>
<ul>
<li style="text-align: justify;"><strong>DNA methylation kits and antibodies</strong> - Validated NGS-compatible kits for MeDIP, MBD pull-down, whole genome bisulfite sequencing, and reduced representation bisulfite sequencing. Official provider for the original clone for 5-mC 33D3.</li>
<li style="text-align: justify;"><strong>ChIP and ChIP-seq kits for industry-leading specificity and sensitivity</strong> - MicroChIP/MicroPlex Kit for ChIP-seq with only 10,000 cells and the iDeal ChIP-seq Kits optimized for both transcription factors and histones. Our kits feature full reagents for ChIP-seq including control primers, control antibodies, magnetics beads, and purification reagents.</li>
<li style="text-align: justify;"><strong>Library preparation kits</strong> tailored for your specific requirements. The MicroPlex Library Preparation Kit simplifies library preparation requiring only 3 simple steps and allowing inputs of only 50 pg. </li>
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'description' => '<p>The <strong>Primer indexes for tagmented libraries</strong> are PCR primers targeting the Nextera sequencing adapters, previously incorporated in the libraries by <strong>tagmentation</strong>. Each primer index is baring a <strong>unique index</strong> in order to identify each library before pooling them for sequencing in the same lane. They are compatible with any Nextera-based libraries such as the one generated with ChIPmentation, ATAC-seq or CUT&Tag technologies.</p>
<h3>Features:</h3>
<ul>
<li>Compatibility: <strong>tagmentation-based library</strong> preparation protocols</li>
<li>Flexibility: <strong>Single</strong> and <strong>unique dual indexing</strong> available</li>
<li>Multiplexing capacity: up to <strong>72 samples</strong> (with UDI)</li>
<li>Identification and <strong>filtering of index hopping</strong> – using the UDI</li>
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<p>Get the manual of <a href="https://www.diagenode.com/files/products/kits/primer-indexes-for-tagmented-libraries_manual.pdf" target="_blank" title="Primer indexes for tagmented libraries - Manual">Primer indexes for tagmented libraries</a>.</p>',
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<p>Tagmentation is a reaction where an enzyme (a transposase) cleaves DNA and incorporates sequencing adaptors at the ends of the DNA fragments in one step. In our ChIPmentation technology we combine chromatin immunoprecipitation and tagmentation in one streamlined workflow where the tagmentation step occurs directly on chromatin. The <strong>TAG Kit for ChIPmentation</strong> has been developed for researchers who would like to perform ChIPmentation using their own validated ChIP protocol. Our TAG Kit for ChIPmentation includes reagents for <strong>tagmentation-based library preparation</strong> and is compatible with any ChIP protocol based on magnetic beads. The <strong>primer</strong> <strong>indexes for multiplexing</strong> must be <strong>purchased separately</strong> and are available as a reference:</p>
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'description' => '<p><span>Universal Minicircle Sequence binding proteins (UMSBPs) are CCHC-type zinc-finger proteins that bind the single-stranded G-rich UMS sequence, conserved at the replication origins of minicircles in the kinetoplast DNA, the mitochondrial genome of kinetoplastids. Trypanosoma brucei UMSBP2 has been recently shown to colocalize with telomeres and to play an essential role in chromosome end protection. Here we report that TbUMSBP2 decondenses in vitro DNA molecules, which were condensed by core histones H2B, H4 or linker histone H1. DNA decondensation is mediated via protein-protein interactions between TbUMSBP2 and these histones, independently of its previously described DNA binding activity. Silencing of the TbUMSBP2 gene resulted in a significant decrease in the disassembly of nucleosomes in T. brucei chromatin, a phenotype that could be reverted, by supplementing the knockdown cells with TbUMSBP2. Transcriptome analysis revealed that silencing of TbUMSBP2 affects the expression of multiple genes in T. brucei, with a most significant effect on the upregulation of the subtelomeric variant surface glycoproteins (VSG) genes, which mediate the antigenic variation in African trypanosomes. These observations suggest that UMSBP2 is a chromatin remodeling protein that functions in the regulation of gene expression and plays a role in the control of antigenic variation in T. brucei.</span></p>',
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<p>The Diagenode <strong>µChIPmentation Kit for Histones</strong> is optimized to perform ChIP-seq on as little as <strong>10.000 cells</strong> from cell fixation to purified libraries. To <strong>reduce DNA lost</strong> the number of sample transfer from tube to tube has been limited: during whole workflow - from cell fixation to library prurification - only 3 tubes per sample are used. Reduced number of steps, reduced number of sample transfer and <a href="https://www.diagenode.com/en/categories/chromatin-ip-chipmentation" target="_blank">ChIPmentation technology</a> itself enable for <strong>efficient and robust ChIP-seq</strong> on <strong>limited amount of sample</strong>. The kit µChIPmentation for Histones includes all reagents for chromatin preparation, chromatin immunoprecipitation and library preparation using tagmentation. The primer indexes for multiplexing are not included in the kit and have to be purchase separately - <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">read more</a>.</p>
<div class="extra-spaced">
<h3>Benefits of the µChIPmentation system for histone ChIP-seq</h3>
<ul>
<li><strong>Easier</strong> and <strong>faster</strong> than classical ChIP-seq</li>
<li>Optimized for <strong>low input samples</strong>: as little as 10,000 cells</li>
<li>Protocol optimized for <strong>FACS-sorted cells</strong></li>
<li>Validated for various <strong>histone marks</strong></li>
<li><strong>High quality</strong> sequencing data</li>
</ul>
</div>',
'label1' => 'Characteristics',
'info1' => '<p>ChIPmentation is based on tagmentation that allows library preparation to be integrated during the ChIP itself using transposase and sequencing-compatible adaptors. Our new improved µChIPmentation protocol combines 3 features for guaranteeing high quality sequencing data on small sample inputs 1) optimized chromatin shearing preparation protocol, 2) reduced number of steps, 3) reduced number of sample transfer from tube to tube - only 3 tubes per sample for the whole process, from cell fixation to purified libraries.</p>
<ul class="accordion" data-accordion="" style="margin-left: 0;">
<li class="accordion-navigation"><a style="background-color: white;" href="#workflow"><i class="fa fa-caret-right"></i> Workflow of µChIPmentation for Histones - Read more</a>
<div id="workflow" class="content">
<div class="extra-spaced"><center><img src="https://www.diagenode.com/img/product/kits/workflow-micro-chipmentation.png" /></center></div>
</div>
</li>
</ul>
<div class="row extra-spaced">
<div class="small-12 medium-12 large-12 columns"><strong>A.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1A.png" /></div>
</div>
<div class="row extra-spaced">
<div class="small-12 medium-5 large-5 columns" columns=""><strong>B.</strong><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig1B.png" /></div>
<div class="small-12 medium-7 large-7 columns">
<p style="text-align: left;"><strong>Figure 1. Comparison between ChIPmentation and µChIPmentation </strong><br />ChIPmentation: chromatin preparation has been performed on 7 M K562 cells using the ChIPmentation Kit for Histones (Cat. No. C01011000) and diluted chromatin from 500.000 cells was used for the immunoprecipitation. µChIPmentation: chromatin preparation and immunoprecipitation have been performed on 10.000 K562 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032). The Diagenode antibody targeting H3K27me3 (Cat. No. C15410195) was used.<br /> A. Distribution of the ChIPmentation and µChIPmentation readsets in a representative region of the genome (in duplicates). B. Comparison of the top 40% peaks from µChIPmentation (10.000 cells) with dataset generated with ChIPmentation (500.000 cells).</p>
</div>
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<div class="extra-spaced">
<div class="row">
<div class="small-12 medium-12 large-12 columns"><img src="https://www.diagenode.com/img/product/kits/micro-chipmentation-fig2.png" /></div>
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<div class="row">
<div class="small-12 medium-12 large-12 columns">
<p><strong>Figure 2. Sequencing profiles of µChIPmentation libraries </strong><br />Chromatin preparation and immunoprecipitation have been performed on 10.000 cells using the µChIPmentation Kit for Histones (Cat. No. C01011011) and 24 SI for Tagmented libraries (Cat. No. C010111032) using K562 cells. The Diagenode antibodies targeting H3K4me3 (Cat. No. C15410003), H3K27ac (Cat. No. C15410196), H3K27me3 (Cat. No. C15410195) and H3K9me3 (Cat. No. C15410193) have been used.</p>
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<div class="extra-spaced">
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<div class="row">
<div class="small-12 medium-12 large-12 columns">
<p><strong>Figure 3. Integrative genomics viewer (IGV) visualization of from ChIP-seq experiments using H3K27me3 antibody (Diagenode, Cat. No. <span>C15410195</span>) and 10.000 cells of K562 cells per immunoprecipitation.<br /></strong>Cells were FACS-sorted and ChIP has been performed accordingly to µChIPmentation protocol. Batch chromatin preparation followed by immunoprecipitation has been used per comparison as indicated.</p>
</div>
</div>
</div>',
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'info2' => '<p><a href="https://www.diagenode.com/en/p/chromatin-shearing-optimization-kit-high-sds-100-million-cells">Chromatin EasyShear Kit - High SDS</a> optimizes chromatin shearing, a critical step for ChIP.</p>
<p><a href="https://www.diagenode.com/en/categories/chip-seq-grade-antibodies" target="_blank">ChIP-seq grade anti-histone antibodies</a> provide high yields with excellent specificity and sensitivity.</p>
<p>For fast and efficient isolation of magnetic beads we recommend the magnetic racks <a href="https://www.diagenode.com/en/p/diamag02-magnetic-rack-1-unit">DiaMag0.2</a>.</p>
<p>Primer indexes for multiplexing:</p>
<ul class="no-bullet">
<li><a href="https://www.diagenode.com/en/p/24-si-for-tagmented-libraries" target="_blank">24 SI for Tagmented libraries Cat. No. C01011032</a></li>
<li><a href="https://www.diagenode.com/en/p/8-si-for-tagmented-libraries" target="_blank">8 SI for Tagmented libraries Cat. No. C01011033</a></li>
<li><em></em><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for Tagmented libraries - Set I, Cat. No. C0101134</a></li>
<li><a href="https://www.diagenode.com/en/p/8-unique-dual-indexes-for-tagmented-libraries">8 UDI for Tagmented libraries, Cat. No. C0101135</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136</a></li>
<li><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137</a></li>
<li></li>
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<div align="center"><video width="400" height="250" autoplay="autoplay" muted="" loop="loop" controls="controls" src="https://www.diagenode.com/videos/chipmentation-dgo.mp4" frameborder="0" allowfullscreen="allowfullscreen"></video></div>
<div align="center"><a href="https://www.diagenode.com/pages/form-chipmentation" class="center alert radius button"><i class="fa fa-info"></i> Contact us</a></div>
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<p>Tagmentation is a reaction where an enzyme (a transposase) cleaves DNA and incorporates sequencing adaptors at the ends of the DNA fragments in one step. In our ChIPmentation technology we combine chromatin immunoprecipitation and tagmentation in one streamlined workflow where the tagmentation step occurs directly on chromatin. The <strong>TAG Kit for ChIPmentation</strong> has been developed for researchers who would like to perform ChIPmentation using their own validated ChIP protocol. Our TAG Kit for ChIPmentation includes reagents for <strong>tagmentation-based library preparation</strong> and is compatible with any ChIP protocol based on magnetic beads. The <strong>primer</strong> <strong>indexes for multiplexing</strong> must be <strong>purchased separately</strong> and are available as a reference:</p>
<p><a href="https://www.diagenode.com/en/p/24-si-for-chipmentation">24 SI for ChIPmentation, Cat. No. C01011031</a><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set1">24 UDI for Tagmented libraries - Set I, Cat. No. C0101134</a><br /> <a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set2">24 UDI for Tagmented libraries - Set II, Cat. No. C0101136<br /></a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank">24 UDI for Tagmented libraries - Set III, Cat. No. C0101137<br /></a><a href="https://www.diagenode.com/en/p/24-unique-dual-indexes-for-tagmented-libraries-set3" target="_blank"><br /></a></p>',
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'info1' => '<h3>Comparing to classical ChIP-seq, ChIPmentation enables:</h3>
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<li>An easier protocol</li>
<li>Faster time to results</li>
<li>Flexibility – the TAG Kit for ChIPmentation combained with 24 SI for ChIPmentation allows you to perform ChIPmentation with <strong>any ChIP protocol </strong>(based on magnetic beads)<strong><br /></strong></li>
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<h3>ChIPmentation on histone marks using TAG KIT for ChIPmentation</h3>
<center><img src="https://www.diagenode.com/img/product/chipmentation/chipmentation-of-histone-using-tag-kit-for-chipmentation.jpg" /></center>
<p><strong>ChIPmentation sequencing results for four histone marks</strong>. Chromatin preparation has been performed on 7M K562 cells using the Auto iDeal ChIP-seq Kit for Histones (Cat. No. C01010057), TAG Kit for ChIPmentation (Cat. No. C01011030) and 24 SI for ChIPmentation (Cat. No. C01011031)*. Diluted chromatin from 1,000,000 cells was used for the immunoprecipitation with the Diagenode antibodies targeting H3K4me1 (Cat. No. C15410194), H3K27me3 (Cat. No. C15410195), H3K27ac (Cat. No. C15410196) and IgG (Cat. No. C15410206). The experiment was performed on the IP-Star® Compact Automated System.</p>
<p><small>*The Auto iDeal ChIP-seq for Histones (C01010057), TAG Kit for ChIPmentation (C01011030) and 24 SI for ChIPmentation (C01011031) form together the Auto ChIPmentation Kit for Histones* (C01011000).</small></p>
<h3>ChIPmentation on non-histone proteins using TAG Kit for ChIPmentation</h3>
<center><img src="https://www.diagenode.com/img/product/chipmentation/chipmentation-of-histone-using-tag-kit-for-chipmentation-2.jpg" /></center>
<p><strong></strong></p>
<p><strong>ChIPmentation sequencing results for two non histone factors</strong>. Chromatin preparation has been performed on 25M K562 cells using the iDeal ChIP-seq kit for TFs (Cat. No. C01010055). Diluted chromatin from 1,000,000 or 4,000,000 cells was used for the immunoprecipitation with the Diagenode antibodies targeting CTCF (Cat. No. C15410210) and RNA PolII (Cat. No. C15100055 ) respectively. The library preparation was performed with the TAG Kit for ChIPmentation (Cat. No. C01011030) and 24 SI for ChIPmentation (Cat. No. C01011031).</p>',
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<p style="text-align: justify;">Diagenode’s epigenetic reagents include:</p>
<ul>
<li style="text-align: justify;"><strong>DNA methylation kits and antibodies</strong> - Validated NGS-compatible kits for MeDIP, MBD pull-down, whole genome bisulfite sequencing, and reduced representation bisulfite sequencing. Official provider for the original clone for 5-mC 33D3.</li>
<li style="text-align: justify;"><strong>ChIP and ChIP-seq kits for industry-leading specificity and sensitivity</strong> - MicroChIP/MicroPlex Kit for ChIP-seq with only 10,000 cells and the iDeal ChIP-seq Kits optimized for both transcription factors and histones. Our kits feature full reagents for ChIP-seq including control primers, control antibodies, magnetics beads, and purification reagents.</li>
<li style="text-align: justify;"><strong>Library preparation kits</strong> tailored for your specific requirements. The MicroPlex Library Preparation Kit simplifies library preparation requiring only 3 simple steps and allowing inputs of only 50 pg. </li>
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'description' => '<p>The <strong>Primer indexes for tagmented libraries</strong> are PCR primers targeting the Nextera sequencing adapters, previously incorporated in the libraries by <strong>tagmentation</strong>. Each primer index is baring a <strong>unique index</strong> in order to identify each library before pooling them for sequencing in the same lane. They are compatible with any Nextera-based libraries such as the one generated with ChIPmentation, ATAC-seq or CUT&Tag technologies.</p>
<h3>Features:</h3>
<ul>
<li>Compatibility: <strong>tagmentation-based library</strong> preparation protocols</li>
<li>Flexibility: <strong>Single</strong> and <strong>unique dual indexing</strong> available</li>
<li>Multiplexing capacity: up to <strong>72 samples</strong> (with UDI)</li>
<li>Identification and <strong>filtering of index hopping</strong> – using the UDI</li>
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<p>Get the manual of <a href="https://www.diagenode.com/files/products/kits/primer-indexes-for-tagmented-libraries_manual.pdf" target="_blank" title="Primer indexes for tagmented libraries - Manual">Primer indexes for tagmented libraries</a>.</p>',
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'description' => '<p><span>Universal Minicircle Sequence binding proteins (UMSBPs) are CCHC-type zinc-finger proteins that bind the single-stranded G-rich UMS sequence, conserved at the replication origins of minicircles in the kinetoplast DNA, the mitochondrial genome of kinetoplastids. Trypanosoma brucei UMSBP2 has been recently shown to colocalize with telomeres and to play an essential role in chromosome end protection. Here we report that TbUMSBP2 decondenses in vitro DNA molecules, which were condensed by core histones H2B, H4 or linker histone H1. DNA decondensation is mediated via protein-protein interactions between TbUMSBP2 and these histones, independently of its previously described DNA binding activity. Silencing of the TbUMSBP2 gene resulted in a significant decrease in the disassembly of nucleosomes in T. brucei chromatin, a phenotype that could be reverted, by supplementing the knockdown cells with TbUMSBP2. Transcriptome analysis revealed that silencing of TbUMSBP2 affects the expression of multiple genes in T. brucei, with a most significant effect on the upregulation of the subtelomeric variant surface glycoproteins (VSG) genes, which mediate the antigenic variation in African trypanosomes. These observations suggest that UMSBP2 is a chromatin remodeling protein that functions in the regulation of gene expression and plays a role in the control of antigenic variation in T. brucei.</span></p>',
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<p>Tagmentation is a reaction where an enzyme (a transposase) cleaves DNA and incorporates sequencing adaptors at the ends of the DNA fragments in one step. In our ChIPmentation technology we combine chromatin immunoprecipitation and tagmentation in one streamlined workflow where the tagmentation step occurs directly on chromatin. The <strong>TAG Kit for ChIPmentation</strong> has been developed for researchers who would like to perform ChIPmentation using their own validated ChIP protocol. Our TAG Kit for ChIPmentation includes reagents for <strong>tagmentation-based library preparation</strong> and is compatible with any ChIP protocol based on magnetic beads. The <strong>primer</strong> <strong>indexes for multiplexing</strong> must be <strong>purchased separately</strong> and are available as a reference:</p>
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<h3>ChIPmentation on histone marks using TAG KIT for ChIPmentation</h3>
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<p>The <b>8</b><b> UDI (Unique dual indexes) for </b><b>tagmented</b><b> libraries </b>provides combinations of barcodes where each barcode is uniquely attributed to one sample. This is a great tool to identify mistakes during index sequencing. A phenomenon, known as index hopping, can lead to misattribution of some reads to the wrong sample. This is particularly frequent with the NovaSeq6000, and thus the use of Unique Dual Indexing (UDI) is highly recommended when using this sequencer.</p>
<p>The 8 UDI for tagmented libraries includes 8 primer pairs for unique dual-indexing allowing the multiplexing of up to 8<b> samples </b>for sequencing on Illumina platforms. This set of indexes is designed to be used with <a href="https://www.diagenode.com/en/p/uchipmentation-for-histones-24-rxns">μChIPmentation for Histones (Cat. No. C01011011)</a>, <a href="https://www.diagenode.com/en/p/chipmentation-kit-for-histones">ChIPmentation Kit for Histones (Cat. No. C01011009)</a>, <a href="https://www.diagenode.com/en/p/tag-kit-for-chipmentation-24">TAG Kit for ChIPmentation (Cat. No. C01011030)</a>, <a href="https://www.diagenode.com/en/categories/atac-seq">ATAC-seq Kit (Cat. No. C01080002)</a> but it is also compatible with other <b>tagmentation</b><b>-based library preparation </b>protocols, such as <b>ATAC-seq</b> or <a href="https://www.diagenode.com/en/categories/cutandtag">CUT&Tag</a> technologies.</p>',
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'description' => '<p class="p1">The primer indexes for tagmented libraries are PCR primers targeting the Nextera sequencing adaptors, previously incorporated in the libraries by tagmentation.</p>',
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'name' => 'UMSBP2 is chromatin remodeler that functions in regulation of geneexpression and suppression of antigenic variation in trypanosomes.',
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'description' => '<p><span>Universal Minicircle Sequence binding proteins (UMSBPs) are CCHC-type zinc-finger proteins that bind the single-stranded G-rich UMS sequence, conserved at the replication origins of minicircles in the kinetoplast DNA, the mitochondrial genome of kinetoplastids. Trypanosoma brucei UMSBP2 has been recently shown to colocalize with telomeres and to play an essential role in chromosome end protection. Here we report that TbUMSBP2 decondenses in vitro DNA molecules, which were condensed by core histones H2B, H4 or linker histone H1. DNA decondensation is mediated via protein-protein interactions between TbUMSBP2 and these histones, independently of its previously described DNA binding activity. Silencing of the TbUMSBP2 gene resulted in a significant decrease in the disassembly of nucleosomes in T. brucei chromatin, a phenotype that could be reverted, by supplementing the knockdown cells with TbUMSBP2. Transcriptome analysis revealed that silencing of TbUMSBP2 affects the expression of multiple genes in T. brucei, with a most significant effect on the upregulation of the subtelomeric variant surface glycoproteins (VSG) genes, which mediate the antigenic variation in African trypanosomes. These observations suggest that UMSBP2 is a chromatin remodeling protein that functions in the regulation of gene expression and plays a role in the control of antigenic variation in T. brucei.</span></p>',
'date' => '2023-05-01',
'pmid' => 'https://www.ncbi.nlm.nih.gov/pubmed/37207337',
'doi' => '10.1093/nar/gkad402',
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