Protocol for Genome-Scale Reconstruction and Melanogenesis Analysis of .

Wheaton L Schroeder, Rajib Saha

September 2020 STAR Protoc

Synopsis of Social media discussions

The discussions frequently cite specific tools like OptFill and mention their applications in reconstructing genome-scale models of organisms such as E. dermatitidis, emphasizing the technical innovations with phrases like 'overcomes current limitations' and 'applied to melanized fungi.' The tone demonstrates enthusiasm and a focus on advancing metabolic modeling, reflecting both high interest and engagement, while the overall impact is viewed as progressive but not revolutionary.

A
Agreement
 Moderate agreement

Most discussions highlight the usefulness and advancements provided by the OptFill method, indicating general support.

I
Interest
 High level of interest

Posts focus on sharing videos and publications about the research, demonstrating high curiosity and academic engagement.

E
Engagement
 High engagement

Many posts encourage further exploration through links and describe applications like pigment modeling and metabolic reconstruction, showing deep involvement.

I
Impact
 Moderate level of impact

While the posts promote awareness and understanding, they mainly serve educational purposes rather than immediate transformative insights.

Social Mentions

YouTube

2 Videos

Twitter

5 Posts

Metrics

Video Views

395

Total Likes

1

Extended Reach

1,079

Social Features

7

Timeline: Posts about article

Top Social Media Posts

Posts referencing the article

Analysis of Polyextremotolerant Fungus Exophiala dermatitidis and Melanin Production

Analysis of Polyextremotolerant Fungus Exophiala dermatitidis and Melanin Production

This 15-minute presentation discusses the reconstruction of a GenomeScale Model of Exophiala dermatitidis to understand its metabolic costs related to defensive pigments and explore its potential as a melanin-producing system. The associated publication is available in iScience.

SSbioUNL

November 6, 2020

306 views

OptFill: Infeasible Cycle-Free Gapfilling for Metabolic Models

OptFill: Infeasible Cycle-Free Gapfilling for Metabolic Models

This presentation introduces OptFill, a tool developed to address limitations in gapfilling algorithms for metabolic models. It ensures cycle-free reconstructions, aiding in the accurate understanding of understudied systems, and was showcased at the 2020 AICHE Annual Meeting.

SSbioUNL

November 6, 2020

89 views

  • Dr. Wheaton L. Schroeder, PhD
    @BowTie_PhD (Twitter)

    A short overview of my #OptFill work for @AIChECAST10 can be found on @YouTube for those that are interested! See how we identify futile cycles, speed GSM reconstruction, and have applied it to melanized fungi! https://t.co/LaTH5BokxT
    view full post

    November 15, 2020

  • Dr. Wheaton L. Schroeder, PhD
    @BowTie_PhD (Twitter)

    Check out my work through @YouTube, and if you find in interesting, take a look at our publications on this work: https://t.co/DQ49HoEibA, https://t.co/OFEaqB4SSE! https://t.co/nuyK0znZF0
    view full post

    November 9, 2020

  • Dr. Wheaton L. Schroeder, PhD
    @BowTie_PhD (Twitter)

    Check out this short presentation on @YouTube, and see my publications on this work through the following links: https://t.co/tN2z6Zdt2M, https://t.co/OFEaqB4SSE, and https://t.co/DQ49HoEibA. https://t.co/pUWN7w6MwN
    view full post

    November 9, 2020

  • SSbioUNL
    @SSbio_UNL (Twitter)

    Learn more about how the OptFill tool by @WheatonLSchroe1 overcomes current limitations of gapfinding algorithms and how it is useful for reconstructing models of under-studied systems on @YouTube! https://t.co/wMIXFOBt3n
    view full post

    November 6, 2020

  • SSbioUNL
    @SSbio_UNL (Twitter)

    Learn about how we reconstructed a Genome-Scale Model (GSM) of the under-studied organism E. dermatitidis, presented by @WheatonLSchroe1 on @YouTube used to study defensive pigments, as well as exploring its potential as a model melanin-producing system! https://t.co/WwRjxn5F1J
    view full post

    November 6, 2020

Abstract Synopsis

  • This text discusses a study on BR, a highly tolerant fungus with a small genome, used as a model to understand melanogenesis (pigment production) and carotenoid synthesis.
  • Researchers reconstructed a genome-scale model called Ede2091 to better understand BR's metabolism and performed a shadow price analysis to evaluate pigment production.
  • A key part of this process involved using OptFill, a new gap-filling method that helps complete metabolic models, especially for organisms with limited metabolic data, ensuring a more accurate and conservative reconstruction.]