Chapter Seventy-Six: Network Deconstruction of Pathology: Sequences
1. The selective expression of the laws of the body's vital activities is the normal and diseased conditions, the changes in structure and function are coupled with each other, and the changes in structure originate from the satisfaction and adaptation of functions, and the functions are based on the selective expression of structure. Therefore, we need to consider both pathology, which focuses on morphological changes, and pathophysiology, which focuses more on functional and metabolic changes.
2 The above is the macroscopic object, and we will understand the macroscopic pathological process from the infinitesimal quantity according to the idea of calculus, that is, the basic pathological process, and of course, we should pursue a more detailed level as omics. Now we understand the pathophysiological processes of metabolic changes at a relatively macro level, i.e., the common set of functions: inflammation, blood circulation disorders, tumors, etc., which are based on the balanced and adaptive expression of the damage and repair of cells in lower dimensions.
3. The macroscopic understanding of disease is homeostasis disorder, and the microscopic understanding is based on the perspective of game theory, and the disease and health state of the body are both balanced and selective expressions formed by multi-level games (the specific expression of different stages is different, which can be fuzzy mathematics). In this process, the development of the disease is not discrete, but is connected at the sequence level, that is, the changes in body function, metabolism and morphological structure, and the symptoms manifested by the changes in body function, metabolism and morphological structure, such as nausea, cough and vomiting, are all continuous changes at the network level. The general law of its occurrence, development and outcome can be understood as a series of continuity functions in mathematics, which are the patterns of the network.
4. The relationship between disease and pathological process is coupled, the same pathological process can be seen in different diseases, and a disease can contain several different pathological processes, which are all selective expressions of the network, but the balance of expression at different levels is different, which is the result of statistics.
5 Etiology refers to a certain harmful factor acting on the body to reach a certain intensity and time to produce a specific disease, we can think of this as the impact on the network itself sequence to make the balance move, and the effect of its effect can be expressed by the intensity and time of its impact on the sequence. The cause and the cause are actually similar, but the cause is at the key node of the network, and it is an indispensable, decisive and specific factor that is highly correlated to cause the disease. We also understand the fractal-structure nature of the network as a fixed point.
6. The similarity between the development law of the network and the law of disease development, in which the homeostatic disorder and hierarchical game competition are the basis for the formation of the network structure, and the sequence of network decomposition into units can construct a certain logical connection according to its similarity, so as to construct a multi-level path. There is a light-like interference between these paths, that is, there will be a certain decoherence effect, and the remaining paths in the end are the eigenpaths of the fixed point. This has some similarities with the screening mechanism of natural selection. The similarity of levels is that we understand the unity of different levels, such as parts and wholes.
7. Specific path formation can form a certain feedback structure, such as massive hemorrhage, β cardiac output, blood pressure, β sympathetic nerve excitation, β arterioles, venous constriction, β tissue hypoxia, β lactic acid accumulation, β capillaries are opened in large quantities, microcirculatory congestion, β return cardiac blood volume, βcardiac output, blood pressure, blood pressure. This is the last pattern of multi-level computing.
8 One of the simplest examples of competitive games is acid-base balance disorders. What is more complicated is the competitive game of thrombin and fibrinolytic enzyme in the coagulation system.
9 The multi-level network in pathology is reflected in the influence of multi-system changes, which are the selective expression of fractal structures. That's what we think of as a macro sequence. Many disease theories are a collection of these sequences, that is, they are elaborated from different aspects, and finally can be comprehensively expressed into specific diseases. These mechanisms can be broken down into smaller levels until we are able to do the math. For example, patients with heart failure have orthopnea: (1) part of the blood is transferred to the lower part of the body in the upright position, and pulmonary congestion is reduced. (2) The diaphragm in the sitting position is moved downward, the chest volume increases, and ventilation improves. (3) The absorption of edema fluid in the sitting position is reduced, and the pulmonary congestion is reduced.
10 The network view of treatment is to selectively process the sequence of these mechanisms, which is based on the equilibrium formed by multi-level competitive games. That is, the impact of a single factor on the whole may be overlooked in the consideration of multiple factors. For example, the mechanism of right heart failure caused by respiratory failure (1) The blood H+ concentration is too high, causing the pulmonary arterioles to constrict, and the pulmonary artery pressure increases the right heart afterload. (2) The pulmonary vascular wall thickens and hardens, and the lumen narrows, resulting in persistent pulmonary pulmonary hypertension. (3) Chronic hypoxia stimulates the kidneys and bone marrow to increase red blood cells, increase blood viscosity, and increase pulmonary circulation resistance. (4) Compression, destruction and reduction of pulmonary capillaries, swelling of capillary endothelial cells or microthrombosis, etc., are the causes of pulmonary hypertension. (5) When it is difficult to breathe, the intrathoracic pressure decreases abnormally during forced inspiration, which increases the contractile load of the right heart, and the intrathoracic pressure increases abnormally during forced expiration, which limits cardiac diastole. (6) Hypoxia, hypercapnia, and hyperkalemia reduce myocardial contractile function. The comprehensive approach we take may not be resistant to every single factor. For specific sequence selection, we can refer to the scoring matrix of biological information.
11 Sometimes thinking occurs probabilitarily, just like the ratio of positive feedback to negative feedback, which is the result of the selective expression of the network, such as thrombosis falling off after thrombosis causes thromboembolism in the cerebral artery, and the corresponding cerebral tissue infarction.
The continuous change of the morphological level is the occurrence, development and prognosis of macroscopic diseases, which requires the use of fuzzy mathematics for different levels of affiliation, i.e., atrophy, hypertrophy, hyperplasia, and metaplastic adaptation are manifested in different proportions of specific diseases, but this is not random but has a certain pattern. Among them, the patterns of different diseases are the information we need for diagnosis, and various characteristic changes can be regarded as the existence of the median theorem (we tend to think of it as a topological immobile point), such as typhoid bodies, R-S cells, rheumatic bodies, tuberculosis nodules, and other pathological changes. These are thought to be based on the selective expression of these fundamental pathological processes, as in the case of ACGT sequence combinations. Different sequences have different meanings, such as epithelial metaplasia can become carcinomatous.
The causes of cell and tissue damage (1 hypoxia: disorders of cell metabolism 2 chemical substances and drugs 3 physical factors 4 biological factors 5 nutritional imbalance: lack or excess of vital substances 6 endocrine factors 7 immune response 8 genetic variation 9 aging 10 socio-psycho-spiritual factors: psychosomatic diseases 11 iatrogenic factors: iatrogenic diseases) are the influencing factors of the sequence formed by specific cell combinations. Due to the inevitability of hierarchical games within the network, these influencing factors can make the equilibrium changes achieved by the sequence game, such as the chemical equilibrium shift of reversible reactions, that is, reversible damage (denaturation) and irreversible damage (necrosis) are based on the selective expression of these sequences.
Cellular degeneration, such as cellular edema, can decompose similar sequences: main causes, predisposing sites, mechanisms, morphological changes, pathological outcomes, etc. This is because of the hierarchical similarity nature of the fractal structure that the network has.
There are multiple levels of necrosis: (1) nuclear condensation, fragmentation, and lysis (2) cell membrane rupture, cell disintegration, and disappearance, (3) swelling, disintegration, liquefaction, and matrix depolymerization of interstitial collagen, and (4) inflammation around the necrotic foci. It can be thought of as a selective combination of different sequences. Moreover, the coupling of inflammatory response is the coupling of sublayers (blood circulation disorders, inflammation, tumors and other disease pathologies are all sublayers). The disease outcome of necrosis is a logical operation of the sequence: dissolution and absorption, separation and excretion, organization, and encapsulation. Therefore, what we think of as erosive ulcers is actually a normal physiological mechanism.
Apoptosis as a programmed death is not only related to gene regulation, but also to its patterned morphological changes: (1) cell consolidation. (2) Chromatin condensation. (3) Cytoplasmic granulation and apoptotic body formation. (4) Macrophages engulf apoptotic bodies. Orderly.
As the structure of the organism network, because the competitive game at the original level is universal, and the existing structure is the equilibrium, there is a tendency to expand at different levels, which is the source of the compensatory mechanism of the organism, which is reflected in the repair of all levels. Stem cells are the driving force behind normal cell proliferation, which is the basis for maintaining the body's normal structure. Of course, pathological conditions are selectively expressed, such as fibrous repair: repair by fibrous connective tissue. The normal progress of various circulatory processes is the basis for maintaining the dissipative structure of the network (keeping the internal environment of the body stable, and the metabolism and normal progress of various organs), among which blood circulation disorders can have a relatively large impact.
For example, the separation of different levels of the body such as cell membrane, pleura, etc. is the structural basis for maintaining the high-dimensional structure of the body, so (1) the escape of intravascular components from the blood vessels (edema, effusion, hemorrhage) (2) the abnormal amount of blood circulating in local tissues (congestion, congestion, ischemia) (3) the appearance of abnormal substances in the blood (thrombosis and intravascular air, lipid droplets and amniotic fluid) and so on are the destruction of balance. Then the specific selective expression is all kinds of congestion, congestion, hemorrhage, thrombosis, embolism, infarction and edema, etc.
Anticoagulant effects of endothelial cells: (1) barrier (2) antiplatelet adhesion (3) antithrombin or coagulation factors (4) promote fibrinolysis. Procoagulant effects of endothelial cells: (1) activation of exogenous coagulation processes (2) adjuvant platelet adhesion (3) inhibition of fibrinolysis. This is hierarchical competitive and selective expression: (1) inhibition of platelet adhesion and anticoagulation when normal and endothelial cells are intact (2) when endothelial damage or activation, causing local coagulation.
Thrombotic conditions: damage to cardiovascular endothelial cells, changes in blood flow status, increased blood coagulability, etc., can be considered as the overall effect on the sequence, that is, it can act in the form of probability.
Metamorphism-exudation-proliferation, which is a Bayesian probability. Multi-mechanism competition.
Increased vascular permeability: 1. Endothelial cell contraction 2. Endothelial cell damage 3. Increased endothelial cell permeability 4. Selective expression, there is no false damage, but the price of the game, there are advantages and disadvantages. The nascent organization is immature and is a multi-level game. All of them are selective expressions of probability, and the transformation law of their combinations may have a certain similarity with the Rubik's Cube.
The inflammatory network, the traversal of the hierarchy, takes the vascular system as the basic object of operation (the vascular response is the central link of the inflammatory process), and then the interaction of different tissues with different cytokines. Its final role is a game, and everything has a price.
Inflammation is a macroscopic description, which is the resistance of all levels of the body to changes in the external environment (this is a relative concept, one cell can be relative to the environment of another cell, but it can also form a whole as an organization at the same time), and finally the multi-level response forms pathological processes such as metamorphosis, exudation, and hyperplasia at the statistical level. As a pattern emerges, the proportions of different patterns at specific stages are different, i.e., each pattern is present in the course of the inflammatory response. It can be understood in terms of the hierarchical membership of fuzzy mathematics.
This is associated with changes in a large number of factors at the microscopic level, which are selectively expressed in redness, swelling, heat, pain, dysfunction, and even fever, changes in the number of peripheral blood white blood cells, increased heart rate, increased blood pressure, chills, and anorexia. This can be understood as an equilibrium formed by multi-level/sequential competitive games. Coupling with other levels is the operation of sequences, which is a probabilistic expression that can play various roles relatively, that is, inflammation in different parts of the body has different effects.
The power of the network lies in the ability to gather the power of individuals, so that the occurrence of low-probability events on a large basis is inevitable (for example, there is a high probability that two people in n people have the same birthday, P=1-(1-1/365)^n, which is like the existence of a continuity function, so as to be able to construct fixed points). The synchronicity of the network allows the diffusion of information to exceed a certain value, and it is more focused on breadth than light, like the infinite perimeter of a finite area of a fractal structure. From a human point of view, this is irrational, but in the past, it played a certain positive role in our survival and reproduction, that is, the rapid spread of information.
Understanding tumorigenesis from a sequence perspective is an attempt to shift the paradigm of the disease. Ideally, there is a sequence of gene expression, and its specific expression pattern determines the health of the body, such as a specific pattern is highly correlated with the occurrence of cancer. Of course, these sequences are not new and independent, and we can also deal with the relations within the sequences in terms of the relations of the sequences, which is like the simple operation of the high-dimensional level of the Newton-Leibniz formula of calculus is equivalent to the higher-order operation of the low-dimensional level. Of course, this is very mathematically abstract thinking, so we need to consider a lot of factors to achieve model accuracy that is close to concrete reality (which we can do). We can now understand in macro natural language, for example, the equilibrium reached by the game between proto-oncogenes and tumor suppressor genes is biased towards the direction of disease occurrence. Or, more macroscopically, the cells of local tissues lose their normal regulation of their growth at the genetic level, leading to the formation of new organisms due to clonal abnormal proliferation. The expression of different patterns of sequences is closely related to benign and malignant tumors. Of course, the ideal sequence is a 1/0 sequence, and any macroscopic object can be abstracted into a large-scale operation of the underlying logic, and a certain correlation can be constructed between the disease and the logical operation, which is simply the romance of the doctor (well, my romance). Because at this level, there is always a specific cure for any disease in the world (based on the assumption of continuity), and of course the next step in existence is to find this specific existence, and antibiotics are a good example. The treatment of abstract sequences is a variety of therapies. Then there is the logical reasoning of the network, which is based on the accumulation of high-dimensional knowledge, but this is an operation method that conforms to human thinking habits, and we need to dig out the changes at the lower level, and then add them. At present, the macroscopic object is decomposed into a certain microscopic sequence, and the macroscopic pathological features (bleeding, cough), cellular, molecular and other levels are decomposed at this basis, which is a macroscopic diagnostic process and a multi-sequence matching. Regarding the operation of sequences, I now prefer the sequence matching algorithm of biological information, in which the idea of scoring matrix is a good measure. At the same time, I believe that the matching process of sequences can be idealized as a competitive game of sequences, that is, different levels have a certain tendency to expand their own living space. This is the hypothesis of mimicking selfish genes that give it the properties of a living being, capable of producing a certain explosive growth that is then screened by natural selection. The concept of Nash equilibrium can then be introduced naturally, that is, the fixed point, which is the steady state of the local result, is a small part of the sequential operation. The characteristic structure of the pathology appears to be immobile points, Mallory bodies for alcoholic liver disease, and rheumatic bodies for rheumatism.
When we consider the tumor parenchyma, we should also consider the role of the interstitium, which can shape the environment that can have an impact that determines the development of the tumor to a certain extent.
The heterogeneity of tumors includes both cellular and structural levels, and the variability of the rest of normal tissues is the result of their different selective expressions based on the same sequence. Hence the presence of various types of tumors.
In the future, various systemic diseases are the selective expression of various inflammatory responses and the selective combination of disease pathological processes, which can theoretically form an infinite number of combinations, but due to the non-independence of the basic pathological processes and the interference of various sequence formations, only a limited number of species may be real. This process is like the convergence nature of the network in which microorganisms with infinite resources can grow at an exponential rate, but only in an S-shaped curve in a finite space. Of course, there are still many patterns in this process with certain characteristic changes, which are the various diseases that we have sorted out, that is, a specific sequence. The operation between sequences is the relationship we look for in general experiments, such as inhibiting premature cardiac beats to help reduce the occurrence of heart disease, and so on. Of course, the operation of the sequence is not really completely the homology matching of bioinformatics, I prefer a traversal of the seed sequence of the BLAST algorithm to the overall sequence, which is not only for the sake of improving the speed of the algorithm, but also partly because only a part of the key sequence matching in the real world operation can determine the larger-scale sequence matching operation, which is actually an interface idea, so that different levels are coupled with a limited number of key sequences, that is, interfaces, to form an orderly high-dimensional structure.