“And God said, Behold, I have given you every herb bearing seed, which is upon the face of all the earth, and every tree, in the which is the fruit of a tree yielding seed; to you it shall be for meat”
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Welcome, colleagues and curious visitors,
Running title: Transcriptome‑guided chronification in oncology
This work introduces a conceptual framework for integrating transcriptomic data into cancer susceptibility mapping, aiming to strengthen precision oncology through the principle of controlled chronification. Building on prior experimental studies, we highlight the potential of amide and carboxylic derivatives of natural nitrile glycosides, which exhibit anticancer activity with reduced toxicity compared to conventional chemotherapeutics.
The proposed therapeutic paradigm is structured into four stages shock therapy, primary treatment, synergistic treatment, and personalized therapy each designed to balance efficacy with patient safety. Clinical oversight is emphasized as essential, requiring continuous monitoring of biochemical parameters including hematocrit, electrolyte balance, iron metabolism, and trace elements. These correlations directly influence the bioactivity of the studied compounds and reinforce the need for precise medical supervision.
To ensure transparency and reproducibility, the framework integrates DOI‑referenced datasets and the open‑access resource ATLAS (Applied Transcriptomic Logic for Anticancer Selectivity), linking transcriptomic susceptibility profiles to therapeutic decision‑making. Collectively, the findings suggest that cancer can be reframed as a manageable chronic condition, controlled through modular and personalized treatment protocols. This contribution bridges experimental evidence with clinical practice and opens pathways for translational research in molecular oncology.
/ Applied Transcriptomic Logic for Anticancer Selectivity /
Interpretable prognosis for susceptibility to active anti-cancer molecular forms, based on amides/carboxylic acids - hydrolysis derivatives of natural nitrile glycosides, of transcriptome cell lines inherent in tumors.
This edition of ATLAS presents a condensed and accessible synthesis of a comprehensive monographic study. Its purpose is to distill key findings from the original scientific format into a structured, clinically relevant framework — one that supports future research and therapeutic application without compromising rigor.
The central proposition is cautiously optimistic: that certain oncological diseases may, under specific biochemical conditions, be managed as chronic conditions — akin to diabetes. This idea rests on two well-established observations: first, that cancer cells rely almost exclusively on carbohydrates for energy; and second, that some naturally occurring nitrile glycosides exhibit anticancer properties under defined conditions - hydrolyzed to amide and carboxylic acids in stoichiometric ratio 4.81:1 .
Taken together, these findings suggest a new therapeutic possibility: that cancer, under controlled biochemical conditions, may be managed as a chronic and potentially curable disease. The Applied Transcriptomic Logic for Anticancer Selectivity framework does not claim finality — it invites further validation, collaboration, and refinement. But it offers a structured, interpretable path forward, grounded in molecular logic and clinical pragmatism.
Structured Dataset: Interpretable Prediction of Anticancer Sensitivity
This dataset provides the complete results of a structured, interpretable prediction model for the anticancer sensitivity of glycosidic amides. Presented in *.xlsx format, it includes:
- Analytical data supporting the prediction logic;
- Theoretical foundations and mechanistic rationale;
- Final conclusions based on biochemical modeling;
- Full raw data and filtered subsets for clinical interpretation.
All content is organized in a user-friendly layout, optimized for clarity and compatibility with standard data processing tools. The file is suitable for export, integration, and further analysis across clinical, pharmaceutical, and research platforms.
This ATLAS presents in appended form the complete monographic study on the subject. The idea is to bring the results out of the "heavier" didactic format required for the scientific presentation and at the same time to systematize all the information needed for the subsequent clinical research.
The present excerpt from monographic work seeks to introduce the possibility that oncological diseases become chronic (like diabetes). The theoretical basis on which we refer is the fact that cancer cells feed only on carbohydrates. In turn, there is evidence that some nitrile glycosides have anti-cancer properties.
The current database represents the exact results of Interpretable prediction for anticancer sensitivity of glycoside amides. It is presented in *.xlsx format. The file includes: analytical data; theoretical basis; conclusions; full filtered data and full raw data. All information is presented in a user-friendly form and fully compatible for any type of data export.
Keywords: anticancer cellular effects, glycoside amides, druglikeness, active carboxyl transfer, nitrile glycosides, theoretical analysisBackground: This article is a continuation of Theoretical Analysis for the Safe Form and Dosage of Amygdalin Product and Theoretical Study of the Process of Passage of Glycoside Amides through the Cell Membrane of Cancer Cell. They consider some possible natural modifications and hypothesize that it is not nitrile glycosides that have antitumor properties but their amide / carboxyl derivatives. The possibility of using this circumstance in conservative oncology is also considered. A mechanism for crossing the cell membrane and overcoming the immune functions of the cancer cell is presented.
The physiologically active cancer cell itself is quite inert to external influences. It is far more stable than any physiologically active structural and/or functional organismal cell. Its defenses are discussed in detail in the article, and its main weakness was defined, namely: the cancer cell feeds mainly on carbohydrates and/ or carbohydrate complexes. In an effort to preserve its gene set, it has evolved to counteract biologically active substances by maximally preventing its passage through its cell membrane.
It is this property that could be used to minimize its effect on the whole body. In the same article, based on theoretical calculations and literature references, a hypothesis is stated: cancers could turn from severe infectious to controlled chronic ones (similar to diabetes, chronic hepatitis, etc.)
Objective: The pharmaceutical form allows deviation from the chemically pure substance. It is a convenient and at the same time accessible (from a financial and/or technological point of view) form for admission by patients.
Due to the great variety of natural glycosamide nitriles (starting material for the production of amide/ carboxylic acid), modern pharmacology allows their combined intake by chemical nature and concentration of the active form crossing the cell membrane.
Natural nitrile glycosides hydrolyzed to amide/carboxylic acid are still unexplored but with great theoretical potential. As biologically active substances, these compounds also have significant toxicity. One of the purposes of this article is to organize laboratory tests on animals.
Methods: A comparative analysis is performed on the basis of stoichiometric calculations for the concentration of the active form and the prediction of the bioactivity. For this purpose, the following methodology is applied: Data analysis for active anticancer cell molecular form and Determination of the drug dose. The derived chemicals obtained immediately after the passage of glycosamide across the cancer cell membrane are: (R)-2-hydroxy-2-phenylacetamide, (R)-2- hydroxy-2-(4-hydroxyphenyl)acetamide, (R)-2-hydroxy-2-(3-hydroxyphenyl)acetamide, 2-hydroxy-2-methylpropanamide, (S)-2-hydroxy-2-methylbutanamide, 2-hydroxy-3-methylbut-2-enamide, (2Z,4E)-4-(2-amino-1-hydroxy-2-oxoethylide ne)hex-2-enedioic acid, (S)-1-hydroxycyclopent-2-ene-1-carboxamide, (1S,4S)-1,4-dihydroxycyclopent-2-ene-1-carbox amide, (1R,4R)-1,4,5-trihydroxycyclopent-2-ene-1-carboxamide, (Z)-2-((4S,6R)-4,6-dihydroxycyclohex-2-en-1-ylidene) acetamide, (R)-2-hydroxy-3-methylbutanamide, (E)-2-((4S,5R,6R)-4,5,6-trihydroxycyclohex-2-en-1-ylidene)acetamide, (Z)-2-((4R,5R,6S)-5,6-dihydroxy-4-methoxycyclohex-2-en-1-ylidene)acetamide, (E)-2-((4R,6S)-4,6-dihydroxycyclohex- 2-en-1-ylidene)acetamide and (E)-2-((4S,5R,6R)-4,5,6-trihydroxycyclohex-2-en-1-ylidene)acetamide.
Results: The use of two or more pharmaceutical forms would not prevent their penetration, subject to the mass ratios between the active antitumor amide and the active carboxyl transfer form.
Conclusion: Amides resulting from the hydrolysis of nitrile glycosides would have the ability to cross the cell membrane of a cancer cell and thus cause its cellular response. The pharmaceutical form must represent the exact amide / carboxylic acid ratio for the corresponding active anticancer cell form.
This book presents the results of a long-term scientific investigation, structured as a monographic study and adapted into a more accessible, scientifically popular format. The aim is to communicate a complex biochemical hypothesis in clear, structured language — without compromising analytical depth.
The central proposition is cautiously optimistic: under specific biochemical conditions, certain oncological diseases may be managed as chronic conditions — similar to diabetes. This idea is grounded in two well-established observations:
- Cancer cells rely almost exclusively on carbohydrates for energy metabolism;
- Some naturally occurring nitrile glycosides exhibit anticancer properties when transformed into specific molecular forms.
The study is organized into four main sections, each framed as a distinct goal within the broader therapeutic logic.
Goal I: Molecular Structure and Therapeutic Form
The first section begins with a detailed analysis of Amygdalin — a well-known nitrile glycoside. In its native form, Amygdalin is highly toxic to physiologically active animal cells and does not possess direct antitumor properties. Through structural and biochemical examination, it is concluded that the active anticancer form is a stoichiometric mixture of two hydrolytic derivatives: the amide and the carboxylic acid form of the glycoside. This insight defines the acceptable molecular configuration for therapeutic application.Goal II: Biochemical Pathway and Selective Mechanism
The second section explores the precise biochemical behavior of the active compound. Using mathematical modeling and biochemical analysis, the study traces its passage through the digestive system, absorption into the bloodstream, and targeted interaction with cancer cells. Special attention is given to the selective permeability of malignant cell membranes — a key factor enabling differential uptake and intracellular activation.Goal III: Pharmaceutical Modeling and Formulation
The third section focuses on pharmaceutical design. A total of 54 methodological and formulation models are reviewed, each incorporating hundreds of variables. These models explore delivery mechanisms, molecular stability, enzymatic compatibility, and dosage parameters — all essential for translating molecular insight into clinical practice.Goal IV: Predictive Susceptibility and Clinical Relevance
The fourth section presents a predictive model for anticancer susceptibility. Using transcriptomic data, the framework evaluates the affinity of glycosidic amides to known cancer cell lines. The results demonstrate significantly higher selectivity and lower toxicity compared to conventional chemotherapeutic agents — offering a promising direction for future clinical trials.Additional Section: Clinical Control and Safety
A supplementary section outlines general principles for clinical control. It emphasizes the importance of maintaining therapeutic precision and avoiding deviations that could lead to irreversible pathological outcomes.Conclusion: Taken together, the findings suggest a new therapeutic possibility: that cancer, under controlled biochemical conditions, may be managed as a chronic and potentially curable disease. This monograph does not offer final answers — it offers a structured, interpretable foundation for further research, clinical validation, and interdisciplinary collaboration.
Keywords: glycoside amides, cancer cell membrane, hydrolysis, PM7, TD-DFT, apoptosisBackground: This article concentrates on the processes occurring in the medium around the cancer cell and the transfer of glycoside amides through their cell membrane. They are obtained by modification of natural glycoside-nitriles (cyano-glycosides). Hydrolysis of starting materials in the blood medium and associated volume around physiologically active healthy and cancer cells, based on quantum-chemical semiempirical methods, are considered.
Objective: Based on the fact that the cancer cell feeds primarily on carbohydrates, it is likely that organisms have adapted to take food containing nitrile glycosides and/or modified forms to counteract "external" bioactive activity. For their part, cancers have evolved to create conditions around their cells that eliminate their active apoptotic forms. This is far more appropriate for them than changing their entire enzyme regulation to counteract it. In this way, it protects itself and the gene sets and develops accordingly.
Methods: Pedestal is derived that closely defines the processes of hydrolysis in the blood, the transfer of a specific molecular hydrolytic form to the cancer cell membrane and with the help of time-dependent densityfunctional quantum-chemical methods, its passage and the processes of re-hydrolysis within the cell itself, to bioactive forms causing chemical apoptosis of the cell-independent of its non-genetic set, which seeks to counteract the process.
Results: Used in oncology, it could turn a cancer from a lethal to a chronic disease (such as diabetes). The causative agent and conditions for the development of the disease are not eliminated, but the amount of cancer cells could be kept low for a long time (even a lifetime).
Conclusion: The amide derivatives of nitrile glycosides exhibit anticancer activity; the cancer cell probably seeks to displace hydrolysis of these derivatives in a direction that would not pass through its cell membrane and the amide-carboxyl derivatives of nitrile glycosides could deliver extremely toxic compounds within the cancer cell itself and thus block and/or permanently damage its normal physiology.
Indroduction: This article presents a theoretical analysis of the safe form and dosage of the amygdalin derivative. By making a precise socio-anthropological analysis of the life of the ancient people of Botra (Hunza people, Burusho/Brusho people), a hypothesis has been postulated through a number of modern quantum-mechanical, molecular-topological and bio analytical checks, and has also been confirmed by two proofs.
Methods: The proposed hypothesis underwent theoretical and logical analysis to confirm and/or reject it. The methodological scheme was: determining the optimal chemical formula, determination of the pharmaceutical molecular form and determination of the drug dose.
Results: A convenient, harmless, form of amygdalin derivative is available that has the same biological and chemical activity and could be used in conservative clinical oncology. The article also presents a theoretical comparative analysis of biochemical reactivity in in vivo and in vitro media, by which we also determine the recommended dosage for patient administration. A comparative analysis of the data, obtained in published clinical studies of amygdalin, is presented, summarizing a scheme of the anti-tumor activity of the proposed molecular form.
Conclusion: The hydrolyzed to amide / carboxylic acid cyano / nitrile glycosides are potential drugs. Their biological activity remains unchanged, but their toxicity is many times lower than unmodified native molecules. We claim that this study we have conducted on amygdalin / dhurrin-derived amide is the only study on this molecular form. Other substances in these groups with pronounced biological activity (including anti-tumor) are the hydrolyzed nitrile groups by Prunasin, Lucumin, Vicianin, Sambunigrin, Dhurrin, Taxiphyllin, Zierin, Preteacin, p-Glucosyloxymandelonitrile, Linamarin, Lotaustralin, Acaciapetalin, Triglochinin, Dejdaclin, Tetraphyllin A, Tetrallin B, Gynocardin and etc., to their amide/carboxylic acid.
Keywords: oncology, amygdalin, PM6, PM7, TD-DFT, pharmacological activity
By Vasil Tsanov · Published on LinkedIn
This article advocates for an open, ethical framework in oncology—one that prioritizes patient dignity, transparent logic, and collaborative responsibility. It proposes a public model for therapeutic reasoning that bridges molecular insight with societal trust.
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A structured, transcriptome - based framework for conservative cancer care. This page explores how molecular logic and cell line susceptibility can guide therapeutic decisions through reproducible, clinically supervised pathways.
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This article explores how traditional remedies and bioactive compounds can be reinterpreted through modern biochemical logic. It introduces the ATLAS framework for selective anticancer action, guided by transcriptomic profiling and molecular precision.
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Cancer is more than a biological condition — it reflects the architecture of our society, our ethics, and our shared fragility. This article invites readers to consider oncology as a mirror, revealing how we care, connect, and evolve together.
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Chemoprevention offers a proactive approach to cancer care — but can it align with rigorous scientific standards? This article examines how preventive strategies can be ethically and logically embedded within conservative therapeutic frameworks.
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This article proposes a paradigm shift in oncology: transforming cancer into a chronic, manageable condition through molecular precision and transcriptome-guided therapies. It outlines the ATLAS framework and the role of selective toxicity in long-term care.
🟢 Short answer: Yes — but only after they are transformed into specific active forms. In their raw state, these compounds are not directly anticancer and may even be toxic.
🔬 Explanation: Nitrile glycosides are natural molecules found in many plants, including apricot kernels, cherries, cassava, moringa, and others. Amygdalin is the most well-known among them. While these compounds have been used in traditional medicine for centuries, modern research shows that they do not fight cancer in their original form.
However, when they undergo a chemical transformation called hydrolysis — a process that breaks them down into simpler components — they produce two key derivatives: an amide and a carboxylic acid. This specific mixture has shown potential to selectively affect cancer cells by exploiting their unique metabolic weaknesses.
Studies within the ATLAS framework suggest that these transformed molecules can enter malignant cells and trigger controlled cell death (apoptosis), while leaving healthy cells unharmed — if applied correctly and under clinical supervision.
For more up-to-date information please see this article: DOI: 10.2174/1871520620666200313163801 and/or this monograph: DOI: 10.5281/zenodo.7295357
🩺 The proposed molecular forms do NOT contradict conventional oncology practices. On the contrary, their anticancer activity is significant—often surpassing that of several approved therapeutic agents. These compounds are best administered orally (p.o.), offering a favorable safety profile with toxicity levels far below those of most clinical references.
Based on the accumulated clinical observations, transcriptomic susceptibility data, and anatomical system-specific modeling, treatment with these agents should follow a structured four-stage protocol. This approach integrates good medical practice with predictive biochemical analysis.
Importantly, amide and carboxyl derivatives of natural nitrile glycosides act by selectively penetrating the membranes of cancer cells. Metastatic cells share the same metabolic characteristics and extracellular acidity as primary tumor cells. Therefore, they remain susceptible to the apoptotic (or similar) effects of these agents, preserving therapeutic efficacy across both primary and metastatic sites.
For more up-to-date information please see the latest version of the ATLAS on p.127: DOI: 10.5281/zenodo.13777292
The bio constants of the human organism should not be accepted as a dogma, but simply used as benchmarks of the norm. Deviation from them should not necessarily be considered pathology. The human body adapts extremely well to the environment and strives to respond adequately to each stimulus.
Especially when performing chemotherapy on cancer patients, it is necessary to monitor the overall reference picture of the patient. It is good to avoid interpreting individual deviations from the physiologically healthy organism and to direct the treatment of cancer in the direction of "suppression" of individual symptoms.
Here the control forms that the clinician must comply with before and during chemotherapy are indicated. These are reference correlations that would directly affect the release of the active anticancer molecular form within the cancer cell.
VOLUME OF BLOOD: it is directly related to the fluid ratio, and secondarily to the water content in the body - hence the change in a number of physicochemical parameters.
When the total blood volume increases, it is important for the treating physician to rule out diagnoses:
HEMATOCRIT: In case of a decrease in the value of the hematocrit in the blood, it is obligatory for the attending physician to reject the diagnoses:
NATREMIA: Particular attention should be paid to cases of hyponatremia. Here the attending physician needs to comply with diagnoses such as:
KALEMIA: To some extent, hyperkalemia has a synergistic effect on the action of the studied dosage forms. It is good for the doctor to maintain higher blood potassium reference values. In cases where this is difficult, two circumstances must be taken into account:
CHLORAEMIA: Hypochloraemia alters the ionic and electrostatic activity of both amides and carboxylic acids - especially when they are in low concentrations in the blood. It is good to consider:
CALCEMIA: Hypercalcemia can suppress the spread of the drug form. Treatment should be resected and any comorbidities considered:
SIDERINEMIA: Hyposiderinemia could delay the detection of a more acidic environment around the cancer cell and from there slow down the action of the drug under study. The clinician should be aware that this is often accompanied by:
TOTAL IRON-BINDING CAPACITY: In case of increased content of total iron-binding capacity, it is necessary for the clinician to take into account the possible presence of:
CUPREMIA: Hypercupremia would significantly increase the need for a higher drug dose. She herself is also an indicator for:
ZINC CONTENT IN THE BLOOD:
The content of zinc in the blood determines its extremely complex role in cancer. Its compounds are both inhibitors and promoters. It can displace a number of metals from organometallic biologically active substances, but at the same time its coordination compounds in an in vivo medium are volatile.
We recommend a mandatory blood test for zinc in the blood before starting chemotherapy according to the studied experimental methodology. The following reference deviations must be taken into account:
For more up-to-date information please see the latest version of the ATLAS on p.135: DOI: 10.5281/zenodo.13777292
🟢 Short answer: Yes — the proposed approach does not conflict with standard medical practices. Supportive methods like chemoprevention or homeopathy may be used, but only with care and balance.
🩺 Explanation: The conservative treatment model described in ATLAS (Applied Transcriptomic Logic for Anticancer Selectivity) is designed to work alongside established medical therapies, including chemotherapy. It doesn’t replace them — it complements them.
If a patient chooses to use supportive approaches like chemoprevention (preventive use of certain substances) or homeopathy, these can help improve overall well-being. However, they should never interfere with essential elements of nutrition — such as salt, water, natural acids (like lemon juice or vinegar), and healthy fats. These are vital for maintaining the body’s biochemical balance.
Alternative medicine may help relieve specific symptoms (like nausea or anxiety), but it should not be used as the main treatment for complex conditions like cancer. Every supportive method should be discussed with a medical professional to ensure safety and compatibility.
For more up-to-date information please see the latest version of the ATLAS on p.139: DOI: 10.5281/zenodo.13777292
🧫 The Warburg effect—characterized by altered glucose metabolism and increased lactate production in cancer cells—does not fundamentally contradict the theory and theorem behind the anti-tumor activity of amide and carboxyl derivatives of natural nitrile glycosides. However, there is a conceptual divergence regarding the alkalization of the extracellular environment surrounding cancer cells.
While the Warburg effect emphasizes metabolic reprogramming, the glycoside-based theory focuses on selective molecular permeability and apoptotic susceptibility. These frameworks rely on distinct scientific methodologies and evidentiary models. Therefore, direct comparison of individual parameters is not appropriate. Instead, both approaches offer complementary insights into tumor biology and therapeutic targeting—each illuminating different aspects of cancer cell vulnerability.
For more up-to-date information please see this article: DOI: 10.2174/1871520620999201103201008 and/or this monograph: 10.5281/zenodo.7295357
🌿 Aromatically substituted glycosides: Prunus spp. (Karakas, et al., 2019), Lucuma spp. (Prabhu, Selvam, & Rajeswari, 2018), Vicia spp. (Salehi, et al., 2021), Sambucus spp. (Thole, et al., 2006), Sorghum spp. (Smolensky, et al., 2018), Taxus spp. (Durak, Büber, Devrim, Kocaoğlu, & Durak, 2014), Zieria spp. (Spalding, 1991), Macadamia spp. (Desegaulx, Sirdaarta, Rayan, Cock, & McDonnell, 2015). Glycosides with a free α-hydroxynitrile: Nandina spp. (Taha, Khalil, & Abubakr, 2020). Glycosides with aliphatic substituents: Linum spp. (Szewczyk, et al., 2014), Trifolium spp. (Sabudak & Guler, 2009), Lotus spp. (Tong, et al., 2020), Maniholt spp. (Veerapagu, Latha, Ramanathan, & Jeya, 2020), Acacia spp. (Sakthivel, Kannan, Angeline, & Guruvayoorappan, 2012), Triglochin spp. (Lellau & Liebezeit, 2003), Deidamia spp. and Tetrapathaea spp. (Yulvianti & Zidorn, 2021), Gynocardia spp. (Kalita, et al., 2018), Pangium spp. (Chye & Sim, 2009) and others.
The proposed pharmaceutical form of the amide/carboxylic derivative of amygdalin represents only one of the dozens of glycoside nitriles that have been analyzed and by which this claim is made. Some of them are listed (Vetter, 2000) (Barceloux, 2008) in table:
It is important to mention that the by-product of the modification process also produces their carboxylic derivatives in a ratio, the ratio for amygdalin being: -amide : -carboxylic = 4.87:1, and for other homologs and/or similar structural of compounds is in the order of 2.61÷5.13:1. Chemical bond of the type: -N(H)-OC(O)- between the two derivatives of Amygdalin is possible, but it is within statistical error.
For more up-to-date information please see the latest version of the ATLAS: DOI: 10.5281/zenodo.13777292
📘 Yes, of course, there are texts with which the idea can be recognized and, above all, to encourage people's search for knowledge ...
Sirach 38:11-12
"… et da locum medico. Etenim illum Dominus creavit et non discedat a te quoniam opera eius sunt necessaria."
“... then call the doctor, for the Lord created him, and keep him at your side; you need him.”
Sirach 38:4“The Lord created medicines out of the earth, and the sensible will not despise them. ”
Ezekiel 47:12“... and their leaves will serve for healing.”
Revelation 22:2“... and the leaves of the tree are for the healing of the nations.”
Ecclesiastes 7:12“Wisdom is a shelter, as money is a shelter, but the advantage of knowledge is this: Wisdom preserves those who have it. ”
Hosea 4:6“... my people are destroyed from lack of knowledge.”
Proverbs 18:15“... the heart of the discerning acquires knowledge, for the ears of the wise seek it out.”