Lifeboat Foundation

In this video I showcase a program that I have been working on for simulating evolution by natural selection. I dive into various mechanisms of the simulation and go over some interesting real-life biology in the process. The key aim of this project is to evolve multicellular organisms, starting from single-celled protozoa-like creatures that must collect mass and energy from their surroundings in order to survive, grow and reproduce.

Chapters:
00:00 — Introduction.
00:56 — Life of a protozoan.
02:46 — The start of the simulation.
05:57 — How the cells work.
06:53 — Introducing multicellular colonies.
08:33 — Understanding evolution.
11:38 — Looking at data from the simulation.
13:27 — Evolving epigenetics introduction.
14:14 — Waddington’s Landscape and cell specialisation.
15:22 — The Central Dogma of Molecular Biology.
16:05 — Gene Regulatory Networks.
16:54 — Outro.
17:30 — Watching the simulation.

Continue reading “Simulating Cellular Evolution: The Path To Multicellularity” »

The ultraviolet nail polish drying devices used to cure gel manicures may pose more of a public health concern than previously thought. Researchers at the University of California San Diego have studied these ultraviolet (UV) light emitting devices, and found that their use leads to cell death and cancer-causing mutations in human cells.

The devices are a common fixture in nail salons, and generally use a particular spectrum of UV light (340-395nm) to cure the chemicals used in gel manicures. While tanning beds use a different spectrum of UV light (280-400nm) that studies have conclusively proven to be carcinogenic, the spectrum used in the nail dryers has not been well studied.

“If you look at the way these devices are presented, they are marketed as safe, with nothing to be concerned about,” said Ludmil Alexandrov, a professor of bioengineering as well as cellular and molecular medicine at UC San Diego, and corresponding author of the study published in Nature Communications. “But to the best of our knowledge, no one has actually studied these devices and how they affect human cells at the molecular and cellular levels until now.”

Since the success of the COVID-19 vaccine, RNA therapies have been the object of increasing interest in the biotech world. These therapies work with your body to target the genetic root of diseases and infections, a promising alternative treatment method to that of traditional pharmaceutical drugs.

Lipid nanoparticles (LNPs) have been successfully used in drug delivery for decades. FDA-approved therapies use them as vehicles for delivering messenger RNA (mRNA), which prompts the cell to make new proteins, and small interfering RNA (siRNA), which instruct the cell to silence or inhibit the expression of certain proteins.

The biggest challenge in developing a successful RNA therapy is its targeted delivery. Research is now confronting the current limitations of LNPs, which have left many diseases without an effective RNA therapy.

Artificial neural networks that are inspired by natural nerve circuits in the human body give primates faster, more accurate control of brain-controlled prosthetic hands and fingers, researchers at the University of Michigan have shown. The finding could lead to more natural control over advanced prostheses for those dealing with the loss of a limb or paralysis.

The team of engineers and doctors found that a feed-forward neural network improved peak finger velocity by 45% during control of robotic fingers when compared to traditional algorithms not using neural networks. This overturned an assumption that more complex neural networks, like those used in other fields of machine learning, would be needed to achieve this level of performance improvement.

Continue reading “Simple neural networks outperform more complex systems for controlling robotic prosthetics” »

Combining a map of gene regulatory sites with disease-associated loci has uncovered a new genetic risk factor of adult-onset macular degeneration (AMD), according to a new study publishing January 17 in the open access journal PLOS Biology by Ran Elkon and Ruth Ashery-Padan of Tel Aviv University, Israel, and colleagues. The finding advances the understanding of the leading cause of visual impairment in adults.

AMD is caused by dysfunction in the retinal pigmented epithelium (RPE), a layer of tissue sandwiched between the photoreceptors that receive light, and the choriocapillaris, which nourishes the retina. Because of the central importance of the RPE in AMD, the authors began by exploring a transcription factor (a protein that regulates specific genes) called LHX2 which, based on the team’s analysis of mouse mutants, is central to RPE development. Knocking down LHX2 activity in RPE derived from human stem cells, they found that most affected genes were down-regulated, indicating that LHX2’s role was likely that of a transcriptional activator, binding to regulatory sites on the genome to increase activity of other genes.

The authors found that one affected gene, called OTX2, collaborated with LHX2 to regulate many genes in the RPE. By mapping the genomic sites that OTX2 and LHX2 could bind to, they showed that 68% of those that bound LHX2 were also bound by OTX2 (864 sites in all), suggesting they likely work together to promote the activity of a large suite of genes involved in RPE development and function.

Summary: Study uncovers new genetic risk factors for age-related macular degeneration, a leading cause of vision loss in adults.

Source: PLOS

Combining a map of gene regulatory sites with disease-associated loci has uncovered a new genetic risk factor of adult-onset macular degeneration (AMD), according to a new study publishing January 17 in the open-access journal PLOS Biology by Ran Elkon and Ruth Ashery-Padan of Tel Aviv University, Israel, and colleagues.

Summary: Study opens the door for the exploration of information processing in vestibular synapses.

Source: Rice University.

The sensory organs that allow us to walk, dance and turn our heads without dizziness or loss of balance contain specialized synapses that process signals faster than any other in the human body.

The agency is funding research projects to find ways to boost people’s resilience to extreme cold.

Researchers at Chalmers University of Technology have made a ground-breaking discovery in the field of synthetic DNA, using AI to control the cells’ protein production.

This new technology could revolutionize the way we produce vaccines, drugs for severe diseases, and alternative food proteins by making the process faster and significantly cheaper than current methods.

The process of gene expression is fundamental to the function of cells in all living organisms. In simple terms, the genetic code in DNA is transcribed into the molecule messenger RNA (mRNA), which tells the cell’s factory which protein to produce and in what quantities.