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iaradsouza1 committed Dec 23, 2023
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2 changes: 1 addition & 1 deletion feed.xml
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<?xml version="1.0" encoding="utf-8"?><feed xmlns="http://www.w3.org/2005/Atom" ><generator uri="https://jekyllrb.com/" version="4.3.2">Jekyll</generator><link href="/feed.xml" rel="self" type="application/atom+xml" /><link href="/" rel="alternate" type="text/html" /><updated>2023-12-23T19:59:46+00:00</updated><id>/feed.xml</id><title type="html">Dalmolin Systems Biology Group</title><subtitle>An engaging 1-3 sentence description of your lab.</subtitle></feed>
<?xml version="1.0" encoding="utf-8"?><feed xmlns="http://www.w3.org/2005/Atom" ><generator uri="https://jekyllrb.com/" version="4.3.2">Jekyll</generator><link href="/feed.xml" rel="self" type="application/atom+xml" /><link href="/" rel="alternate" type="text/html" /><updated>2023-12-23T20:43:56+00:00</updated><id>/feed.xml</id><title type="html">Dalmolin Systems Biology Group</title><subtitle>An engaging 1-3 sentence description of your lab.</subtitle></feed>
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45 changes: 33 additions & 12 deletions lines/transcriptomics.html
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<meta name="viewport" content="width=device-width, initial-scale=1">

<title>Some name | Dalmolin Systems Biology Group</title>
<title>Transcriptional Analyses | Dalmolin Systems Biology Group</title>

<link rel="icon" href="/images/icon.png">

<meta name="title" content="Some name">
<meta name="description" content="Some description">
<meta name="title" content="Transcriptional Analyses">
<meta name="description" content="Microarray, Bulk RNA-seq and scRNA-seq">

<meta property="og:title" content="Some name">
<meta property="og:title" content="Transcriptional Analyses">
<meta property="og:site_title" content="Dalmolin Systems Biology Group">
<meta property="og:description" content="Some description">
<meta property="og:description" content="Microarray, Bulk RNA-seq and scRNA-seq">
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<meta property="og:image" content="/images/share.jpg">
<meta property="og:locale" content="en_US">

<meta property="twitter:title" content="Some name">
<meta property="twitter:description" content="Some description">
<meta property="twitter:title" content="Transcriptional Analyses">
<meta property="twitter:description" content="Microarray, Bulk RNA-seq and scRNA-seq">
<meta property="twitter:url" content="">
<meta property="twitter:card" content="summary_large_image">
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"@type": "WebSite",

"name": "Some name",
"description": "Some description",
"headline": "Some name",
"name": "Transcriptional Analyses",
"description": "Microarray, Bulk RNA-seq and scRNA-seq",
"headline": "Transcriptional Analyses",
"publisher": {
"@type": "Organization",
"logo": { "@type": "ImageObject", "url": "/images/icon.png" }
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<section class="background" data-size="page">
<h1 class="center">Some name</h1>
<h1 class="center">Transcriptional Analyses</h1>
</section>


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-->


<p>Some Markdown content</p>
<h1 id="what-is-transcriptomics">What is Transcriptomics?</h1>

<p>Transcriptional analysis is an indispensable tool for understanding the pattern and regulation of gene expression in triggering biological processes. This field has been marked by notable advances in molecular biology techniques over the years and, consequently, in the amount of data generated. The Dalmolin group has been researching this area since 2009, analyzing data from Microarray, Bulk RNA-seq, and, more recently, single-cell RNA-seq (scRNA-seq).</p>

<p>One of the first transcriptional analysis projects undertaken by the group resulted in the development of a computational method that assesses gene expression variation and identifies functional modules consisting of strongly interacting genes. Initially, this method was applied to differentiate stages of Saccharomyces cerevisiae fermentation (<a href="https://doi.org/10.1093/nar/gkq1269">Rybarczyk-Filho et al, 2011</a>), and, subsequently, it was used to assess early and late-induced global transcriptional changes caused by lead intoxication (<a href="https://doi.org/10.3389/fgene.2019.00791">Reis et al, 2019</a>). This approach resulted in the Bioconductor/R package called Transcriptogramer (<a href="https://doi.org/10.1093/bioinformatics/btz007">Morais et al, 2019</a>) and can be used for both Microarray and RNA-seq data, enabling genome-wide visualization of the alterations in the gene expression in various conditions or diseases.</p>

<p>The group also conducts studies focusing on the transcriptional analysis applied to diseases, studying the gene expression pattern related to the regulation of metastasis development in cancer and major depressive disorder.</p>

<figure class="figure">
<a class="figure-image" aria-label="From Reis et al, 2019. Transcriptogram and connectivity diagram of time-intervals 1 and 2 of neural progenitor cells after lead acetate treatment. (A, C) The transcriptogram of time-interval 1 (day 3 to 11, n = 9) and time-interval 2 (day 12 to 26, n = 15), respectively, from control and treated samples. The X-axis represents gene position, and the Y-axis the relative expression. The solid black line represents control expression average, and the solid gray line represents the lead treatment expression average relative to control. Colored lines highlight the groups of differentially expressed genes that compose the 11 identified clusters.">
<img src="/images/lines/transcriptomics_1.jpg" style="
width: auto;
max-height: unset;
" alt="From Reis et al, 2019. Transcriptogram and connectivity diagram of time-intervals 1 and 2 of neural progenitor cells after lead acetate treatment. (A, C) The transcriptogram of time-interval 1 (day 3 to 11, n = 9) and time-interval 2 (day 12 to 26, n = 15), respectively, from control and treated samples. The X-axis represents gene position, and the Y-axis the relative expression. The solid black line represents control expression average, and the solid gray line represents the lead treatment expression average relative to control. Colored lines highlight the groups of differentially expressed genes that compose the 11 identified clusters." loading="lazy" onerror="this.src = '/images/fallback.svg'; this.onerror = null;">
</a>

<figcaption class="figure-caption">
From Reis et al, 2019. Transcriptogram and connectivity diagram of time-intervals 1 and 2 of neural progenitor cells after lead acetate treatment. (A, C) The transcriptogram of time-interval 1 (day 3 to 11, n = 9) and time-interval 2 (day 12 to 26, n = 15), respectively, from control and treated samples. The X-axis represents gene position, and the Y-axis the relative expression. The solid black line represents control expression average, and the solid gray line represents the lead treatment expression average relative to control. Colored lines highlight the groups of differentially expressed genes that compose the 11 identified clusters.

</figcaption>

</figure>
</section>


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72 changes: 36 additions & 36 deletions sitemap.xml
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