Sunday, 23 July 2023

Self, Mind in Biology and Yog-Vedanta explained mechanistically

 Self, Mind in Biology and Yog-Vedanta explained mechanistically

The emergent mind in biology, also called the embodied  mind, is  due to  interactions between and within cells in the living organism, in organs throughout the body such as brain, heart etc . This is the biological basis of thought which occurs in the embodied mind. The physics of an emergent mind involves mechanisms of phase transition, the chemistry involves interactions between and within cells, the biology involves organization of cells in tissues and organs,  and the math involves fractal (self-similar) patterns of interactions.

The underlying mind according to the psychological practical experience of  Yog, specifically Raja-Yog which encompasses techniques of meditation, involves manas (recorder of perceptions), chitta (memory bank), buddhi (the determinative faculty , deciding the pros and cons-is this a chair or not) and ahamkara (the individualization capacity). The underlying mind has three attributes i.e, sattva (balance/harmony), rajas (activity) and tamas (inertia), which collectively constitute prakriti or internal nature.

Both the emergent, embodied mind and the underlying mind which identifies with the body, are subtle matter. During meditation, such as object based   meditation where one repeatedly dwells on sound and the mantra (words with meaning), when the underlying mind vibrational activity is stilled, because the mind is focused on the mantra, away from thoughts, the mind state is termed “chitt vritti nirodh” or literally translated into  mind activity stopped, the witness to mind activity is revealed. This witness to the mind activity is termed Purusha in Yog or Atman in Vedanta , which is translated as Self. The mind activity is movement or moving energy, and since movement can only be relative to that which is unmoving, the self is inert or inert energy.

In the experience of  meditation  this self in context of an  individual human being, termed Atman, is equated to the selves in all living beings, and pervades the entire physical and mental universes, which is termed Brahman or the underlying universal self. Brahman/Atman is inert unmoving/still energy and thus cannot be quantified or measured, while mental activity or moving energy i.e. Prakriti or Shakti, can be quantified or measured. This equation of Atman =Brahman, is the conclusion of A-dvaita (Non-dual) Vedanta , and can be intuited by rational enquiry of clear minds. This philosophical rational enquiry is the process  or technique of Jnana-Yog also termed Advaita Vedanta.

 According to Sri Ramakrishna, through practice of meditation, Brahman and shakti are identical, and he uses the analogy of fire and its power to burn.

The various states of samadhi which are a culmination of Yogic practice are degrees  of revelation of the Purusha, via Raj-Yog practice. The chakras in the Raja-Yog systematic practice are areas of concentrated energy, which are experienced. The energy chakras dealing with food/eating, sexual activity and excretion of waste products are dense, like tied knots. With advanced and sustained Yogic meditation, the knotted energy gets progressivley  untied, and energy chakra becomes lighter, as in the heart or anahata chakra. With progressive sustained meditation, the person feels happier, lighter and cheerful.

Sat-Chit-Ananda literally translated into Truth/Being-Consciousness-Bliss, can be narrated as when, mind activity is stilled, the ground of truth  i.e being is experienced and manifested as bliss. People experiencing bliss, manifest transformative behaviours such as calmness, eveness of mind (Stithaprajna), humility etc. This is the reason Swami Vivekananda said “Religion is realization” not talk, theory or intellectual consent. Realization is the lived experience of brahman, (Knowing by Being), the underlying non-quantifiable stillness, and a realized or enlightened person, manifests transformed behaviour, exhibiting kindness, compassion etc. Realization can also be termed as liberation from mental activity or “mukti/moksha”.

The basis of oneness/unity or connectedness of physical and mental universes, is this underlying still continuity which is termed Brahman in Vedanta. This Brahman is termed God, and Atman or the individualized self, is termed Ishvara (inner controller) or antaryamin or (inner seer).

It is the practice that finally matters, so that stillness, which feels as bliss is a lived experience.

The following is speculation: In the concept of re-birth, at death  the body decomposes, while the mental activity remains as a set of vibrations or forms a vibratory footprint. At conception, when  the sperm  physically, fuses with the egg to form the zygote it provides the environment for the vibratory footprint to take a home, and interactions of this vibratory footprint with its zygotic environment , produces a conscious living organism. The living organisms, takes in food from its environment and develops systematically into an adult human. The tendencies developed by a human being are not ony inherited, but coming from previous births. A realized or enlightened human, who has transcended mental activity no longer takes re-birth.

The physicist David Bohm, talks about wholeness and fragmentation. The wholeness refers to Brahman/Unity and fragmentation to vibratory mental activity.   

 

Thursday, 30 March 2023

Cancer Research in the Context of Organoid Biology

 One of the  goals of biology research is to simulate the native architecture of tissues, so that one can study cells in their "natural environments".

A step towards this goal is the development of organoid systems.

Organoid systems are the cultures of stem cells in a three-dimensional environment, i.e. a matrigel, which develop over time in the presence of requisite growth factors into tissue-like structures. 

Self-organization into tissue-like structures, is a crowning achievement of invitro cell biology. What remains to be included is the vasculature, which can be incorporated by mixing the matrigel and microfluidics systems, with various technological approaches.

In the cancer context the stem cells, maybe replaced by cancer stem cells (patient derived/cell line derived) for primary tumors and circulating tumor cells for metastatic cancer.

The above system, may then be utilized for testing anti-cancer compounds, or even used to determine cancer related signatures in their native microenvironments. This information may inform the development of therapeutic cancer vaccines, which can be applied to patients with early diagnosis (depending on the stage), to prevent full blown development to metastastic cancer  which is fatal.


Ref:https://pubmed.ncbi.nlm.nih.gov/31550983/


Saturday, 23 July 2022

what is life ? what is living ?

 What is Life ? contrasted with what is Living ? 

Life from the perspective of atoms is the progressive re-arrangement of atoms into "higher-order" structures with an increase in entropy that transforms energy into useful work, which results in metabolism, growth, and reproduction. Cells are an example of living objects.

Living is a "lived experience." 

Does 'ALL LIFE' possess lived experience, in other words, do all living objects "EXPERIENCE?"

Do individual cells experience? does a crystal experience? does DNA experience? 

However, as a human organism, I experience, and I know a cat is living when I see it, but do I know whether a cat experiences? I assume a cat enjoys the experience of drinking milk when I see it, but do I as a human being know that for sure? 

What is the difference between "I know it when I see it" to truly understanding the process? The first is a subjective experience that is intuited, the latter is an objective rational understanding of the process when I divide the entire experience into "I the observer", observing the cat drinking milk. 

Am I truly able to understand in third-person perspective or phenomenology, or is phenomenology a descriptor and first-person understanding or noumenology is true understanding via subjective intuition? 

The basis of "phenomenology" is the mind/active (dynamic) energy field/biological awareness/consciousness that analyses and breaks down a process into parts to understand it. It does not include the observer.

 The basis of "noumenology", is "Pure Awareness/Consciousness that is the inert/still energy field underlying all physical and mental universes, called "Brahman" in Advaita (Non-Dual) Vedanta. Shakti i.e. dynamic energy is akin to the power of fire (Brahman) to burn. The inert/still energy field illuminates existence itself via the power of awareness.  


ref: can life really be explained by physics? 

https://www.youtube.com/watch?v=k-vm3ZWnMWk&t=24s     




Thursday, 7 July 2022

cellular expression code: cec

 The concentration of RNA and proteins within a cell determines its conformation.

The levels of RNA/protein are like the crests and troughs of a wave, fluctuating high and low concentrations encoding an expression code of RNA/protein. 

There is an optimal expression code within a regularly dividing cell.

In a cancer cell,  this expression code is altered due to deregulatory epigenetic mechanisms, leading to aberrant expression of oncogenes and tumor suppressors, projecting as a tumor-initiating cell.





Tuesday, 17 May 2022

Manifestation of Unity

 The manifestation of Unity (Wave function/Universal Energy Field) as multiplicity (Particles) in the double-slit experiment.


Fractals may be the mechanism via which Brahman/Universal energy field experiences the universe as Multiplicity via various minds (mind here is biological consciousness/thought emerging from the brain and is speculated to have a fractal structure or fractal function).

 Fractals are separated in time and space by Markov Blankets, which are most probably higher-order fractals. This occurs for energy-efficient propagation of information so that darker areas of destructive interference of waves are separated from lighter areas of constructive interference of waves resulting in particles as observed in the quantum double-slit experiment.




Friday, 6 May 2022

Cancer_Hypothesis

 Hypothesis of Cancer:

1.Probably the epigenome of a cell is modified by an oncogenic mutation. Phenotypic plasticity/tumor heterogeneity occurs in this process.

2. This modified epigenome overrides the inhibitory signaling of tumor microenvironment. Chaos ensues.

3. The above (2) breaks cell cell interactions leading to tumor cells release from primary site and spread i.e. invasion.

4. Altered epigenome leads to epithelial mesenchymal transition.

5. Tumor cells at secondary site  undergo mesenchymal epithelial transition due to restored epigenome in a new microenvironment.

6. As critical threshlod of oncogenic protein/signaling activity is breached (1) happens again.

7. A vicious cycle of tumor growth and spread ensues.

8. Altered expression/phenotype of tumor cells  containing oncogenic mutation occurs via phase transition.

9. The unpredictable component is how the epigenome is altered from a normal one to a cancerous one via the  oncogenic mutation.


The analogy with an Enzymatic Reaction:

Initiator-Oncogenic mutation, Epigenome alteration/Ist hit

Catalyst-Altered Tumor Microenvironment /2nd hit


Reactants-Normal cell


Product/s-Tumor cell

Saturday, 30 April 2022

Targeting the Epigenetic Profile of tumor-initiating stem cells

 IDEA for a Cancer  Vaccine:


Can Tissue-Specific, Conserved Epigenetic Signatures, of Tumor Initiating/metastasizing Stem Cells serve as targets for developing an Anti-Cancer Vaccine?