Erich Jarvis | Searcharxiv

arXiv2023

Accelerating and scaling mentoring strategies to build infrastructure that supports underrepresented groups in STEM

The vision of 2030STEM is to address systemic barriers in institutional structures and funding mechanisms required to achieve full inclusion in Science, Technology, Engineering, and Mathematics (STEM) and accelerate leadership pathways for individuals from underrepresented populations across STEM sectors. 2030STEM takes a systems-level approach to create a community of practice that affirms diverse cultural identities in STEM. Accelerated systemic change is needed to achieve parity and representation in the STEM workforce, and mentorship - due to its impact on retaining talent - is crucial to ensure those underrepresented in STEM feel that they belong and can thrive. To support the studies and careers of those underrepresented in STEM, we must increase access to mentors who have received adequate training on both the discipline of mentorship in addition to cross-cultural mentoring, use evidence-based mentorship tools to improve the outcomes of mentor/mentee relationships, and create a persistent culture of mentorship at the institutional versus individual level. This white paper provides a summary of research-based mentorship practices that have worked at improving the experience in STEM for underrepresented groups. This is the second in a series of white papers based on 2030STEM Salons that bring together innovative thinkers invested in creating a better STEM world for all. Our first salon focused on the power of social media campaigns like the #XinSTEM initiatives, to accelerate change towards inclusion and leadership by underrepresented communities in STEM. Read our first white paper entitled #Change: How Social Media is Accelerating STEM Inclusion for more information.

astro-ph.IM↗

arXiv2013

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species

Background - The process of generating raw genome sequence data continues to become cheaper, faster, and more accurate. However, assembly of such data into high-quality, finished genome sequences remains challenging. Many genome assembly tools are available, but they differ greatly in terms of their performance (speed, scalability, hardware requirements, acceptance of newer read technologies) and in their final output (composition of assembled sequence). More importantly, it remains largely unclear how to best assess the quality of assembled genome sequences. The Assemblathon competitions are intended to assess current state-of-the-art methods in genome assembly. Results - In Assemblathon 2, we provided a variety of sequence data to be assembled for three vertebrate species (a bird, a fish, and snake). This resulted in a total of 43 submitted assemblies from 21 participating teams. We evaluated these assemblies using a combination of optical map data, Fosmid sequences, and several statistical methods. From over 100 different metrics, we chose ten key measures by which to assess the overall quality of the assemblies. Conclusions - Many current genome assemblers produced useful assemblies, containing a significant representation of their genes, regulatory sequences, and overall genome structure. However, the high degree of variability between the entries suggests that there is still much room for improvement in the field of genome assembly and that approaches which work well in assembling the genome of one species may not necessarily work well for another.

q-bio.GN↗