BiomeLogicSystems Biology Consulting
Mohammed Attallah, founder of BiomeLogic
Mohammed AttallahFounder · systems-biology analystIndependent educational consultancy

When symptoms cross systems, the analysis should too.

Independent analysis of complex gut, immune, autonomic and metabolic patterns — for people of every gender.

Your history and existing tests, carefully synthesized into mechanisms, alternatives and questions for your clinicians.

See if your case is a fitRead a sample analysis

Free brief fit screen. No payment or files upfront. Reply by email.

Recurrent SIBO/IBS, mast-cell and histamine reactions, POTS/dysautonomia, post-infectious illness and hormone-related changes are central areas of the work.

Services & feesEvery fee published Read their perspectiveClient experiences
Fee
$850
Live session
60–90 minutes
Synthesis
within 10 business days
Follow-up
4 weeks clarification email follow-up

When the findings stop fitting one diagnosis

Symptoms persist when the system is only ever examined in pieces.

For cases where gut, immune, autonomic, metabolic and post-viral findings are still being investigated one at a time — and no one has asked whether they interact.

  1. 01SIBO that returns after every course of treatment.
  2. 02MCAS-like or histamine reactivity that will not stabilise.
  3. 03A food list that keeps shrinking.
  4. 04Post-viral illness with gut decline, POTS or fatigue.
  5. 05Hormonal changes alongside gut, histamine or sleep symptoms.
  6. 06Extensive testing — and still questions about how the findings relate.

Check whether your case fits →

Where these patterns overlap

Five territories that often appear in the same record.

A record can contain findings across several systems. Co-occurrence is not proof of a shared cause: the analysis examines whether the evidence supports connections, separate explanations, or coincidence.

GI & motility patterns

Recurrent SIBO, IBS, reflux and dysmotility

Immune & histamine patterns

Reactivity and existing immune findings in context

Autonomic & post-infectious patterns

Orthostatic symptoms, POTS and changes after illness

Metabolic & gut–liver questions

Bile acids, microbiome and cellular-energy hypotheses

Hormonal & gut–brain changes

Cycle-linked, midlife, sleep and neurodevelopmental questions

You may recognise this pattern

  • Did symptoms in different systems begin or change around the same time?
  • Do several symptoms fluctuate together — or follow different courses?
  • Which existing findings support each explanation, and which do not?
  • Do you hold test results that would benefit from being read side by side?

If this sounds familiar, start with a brief fit screen before sharing any records. See if your case is a fit →

What you actually receive

A reconstruction of your case — and a framework for acting on it with your clinicians.

Six deliverables, each derived from your own record rather than a template. The personalized intervention framework is the part most people assume is missing. It is included.

  • A deep read of your records, labs and history

    History, chronology, labs, imaging, medications, supplements and every prior intervention are read end to end — including the results filed as normal — before any explanation is proposed.

  • Your case reconstructed as one system, with the rival explanations

    The record is rebuilt across the gut, barrier, immune, autonomic and metabolic domains relevant to you. The leading mechanism is stated beside the explanations it has to beat, contradictions stay visible, and every claim carries an evidence tier.

  • Prioritized leverage points

    Where the reconstruction suggests the highest-yield places to look first, ranked and explained — so the conversation with your clinicians starts at the point most likely to move the case.

  • Included

    A personalized intervention framework

    Prioritized targets, sequencing, nutritional and metabolic strategies, supplement and nutrient options with specific product examples where relevant, and testing and monitoring questions — derived from your own case, not a generic protocol, and prepared for review and implementation with your medical team.

  • A 60–90-minute live working session

    The written model is tested against what a record never captures, and the questions for your clinicians are put into clinical language — until the reasoning is yours and you can defend it in the consulting room.

  • The written synthesis, then four weeks of clarification

    Delivered within 10 business days of the session: the reconstruction, the graded evidence, the leverage points, the intervention framework, and the specific results that would confirm or falsify each candidate mechanism. 4 weeks of clarification email follow-up is included.

Not included: diagnosis, prescriptions, medical supervision, ordering tests, or any promise about results. Clinical decisions remain with your licensed clinicians.

Read a sample analysis before you decide →

Analysis becomes action

From reconstruction to a framework your clinicians can act on.

The written synthesis is not the end point. It is translated into prioritized targets, sequencing and options for the people who make the clinical decisions.

  1. Step 01

    Reconstruct

    The whole record is read as one system, not as a stack of separate results.

  2. Step 02

    Prioritize

    Competing mechanisms are weighed, evidence is graded, and the leverage points are ranked.

  3. Step 03

    Build the framework

    The analysis becomes a personalized, prioritized intervention framework — targets, sequencing, nutritional and metabolic strategies, supplement and nutrient options, testing questions.

  4. Then

    Clinician review

    The framework is prepared for your licensed clinicians to review, modify or reject. Clinical decisions stay with them; BiomeLogic does not prescribe or supervise treatment.

BiomeLogic identifies and organises intervention options for educational discussion with your licensed healthcare team. It does not diagnose, prescribe, authorise, or medically supervise treatment; clinical decisions remain with your clinicians.

The engagement

One flagship engagement. One published fee.

The right starting point for a first-time complex case. Narrower scopes exist, and Gate 1 tells you in writing which one applies before anything is paid.

Flagship engagementMost first-time clients
$850Fee

Comprehensive Systems-Biology Case Analysis

Your whole record reconstructed as one system, the leverage points ranked, and a personalized intervention framework prepared for your clinicians to review. The fee covers the reconstruction and the framework; the live session is where both are tested with you.

Live session
60–90 minutes
Written synthesis
within 10 business days
Clarification
4 weeks of clarification email follow-up
Start the free fit screenFull scope and terms

Free written fit screen first · about 5 minutes · no files · no payment. Written reply by email either way.

What you receive
  • Full review of your records, labs and history
  • Mechanistic reconstruction with competing hypotheses
  • Prioritized leverage points
  • Personalized intervention frameworkDerived from your case — not a generic protocol.
  • 60–90-minute live working session
  • Written synthesis, then four weeks of clarification

Educational mechanistic analysis. Not diagnosis, prescribing, treatment, clinical monitoring, or a replacement for your own clinicians.

Two narrower paths, when the scope is different.

Compare all services →

Complex Case Deep Dive

Unusually layered histories
$1,250

A substantially deeper longitudinal reconstruction for unusually large, contradictory, multi-system cases — with a 90-minute working session and a 30-minute refinement session.

Best for
Unusually layered, contradictory, record-heavy cases
Format
90 min session + 30 min refinement · 8–10 weeks
View details

Lab Pattern & Results Review

Existing results, no full reconstruction
$400

A focused mechanistic reading of laboratory and specialty-testing results you already hold, when a full case reconstruction is not required.

Best for
Already have labs, want a mechanistic read
Format
Written review · 2 weeks

Does not include the full personalized intervention framework — that belongs to the Comprehensive engagement, because it requires the whole record.

View details

How it works

Four steps from first contact to the written framework.

Nothing is charged until fit has been confirmed in writing. Every step is bounded and described before it starts.

  1. Free fit screen (Gate 1)

    A short written screen — no files, no payment. I read it myself and reply by email with whether the analysis is likely to help, or why it is not.

  2. Secure record submission

    If it fits, you send the history and records you choose to share through the secure intake. Payment happens only at this point.

  3. Reconstruction and live session

    The record is read end to end and rebuilt as one system, then we test that reasoning together for 60–90 minutes by video.

  4. Synthesis and intervention framework

    Within 10 business days you receive the written analysis and the personalized intervention framework to review with your medical team.

Start the free fit screenSee how the analysis is built →

Inspect the work before you commit

Evaluate the reasoning — not marketing claims.

The reasoning is published in full, so you and your clinician can judge its quality and its limits before you commit to anything.

How the analysis is built

What the written report contains: causal hypotheses, evidence tiers, competing explanations, contradictions, and the questions to put to your clinician first.

See the method
Worked case analysis

One complex case worked end to end — what the Host Capacity Model explained, and where it fell short.

Read the worked case
Scientific accountability

The framework audit, the counterarguments, and the claim ledger that separate settled physiology from working inference.

Review the evidence architecture

Client statements are published only with explicit authorization and the writer’s chosen attribution. Read the complete collection on the client reflections page.

Focus areas

The overlapping territories this practice reads most often.

Complex cases of every gender are central to BiomeLogic. Each area uses the same careful chronology, alternative explanations and evidence grading; fit is assessed individually.

Complex GI, recurrent SIBO, IBS & dysmotility

A careful reading of recurring digestive patterns, prior approaches and the explanations existing results can support.

See if your case is a fit →

MCAS, histamine & immune overlap

Reactivity, immune findings and gut symptoms examined together, without assuming a single cause or a mast-cell diagnosis.

See if your case is a fit →

POTS, dysautonomia & post-infectious patterns

Chronology and competing explanations for overlapping autonomic, gut and fatigue patterns after infection or other changes.

See if your case is a fit →

Bile acids, gut–liver & microbiome

Existing findings read in their biochemical context, with clear limits on what a stool or bile-acid result can establish.

See if your case is a fit →

Women's hormonal–gut–immune patterns

Perimenopause, menopause and cycle-linked changes alongside digestive, histamine or autonomic symptoms — a dedicated specialty.

See if your case is a fit →

Neurodevelopmental–gut & metabolic overlap

Gut–brain, mitochondrial and metabolic questions explored as evidence-graded hypotheses, with alternatives and uncertainty explicit.

See if your case is a fit →
Women's hormonal–gut–immune hub →Browse all Areas of Analysis →

How I investigate a complex pattern

A disciplined sequence — not a template.

The same four steps for gastrointestinal, immune, autonomic, metabolic or hormonal questions — without assuming they share one cause.

  1. 01

    Chronology and exposures first

    When each symptom appeared and what changed around it — hormonal shifts, infections, medications, surgeries — before any mechanism is proposed.

  2. 02

    Existing results in context

    Stool, bile-acid, hormonal and standard laboratory results interpreted where relevant — and set aside where they are not. No new testing is ordered here.

  3. 03

    Competing hypotheses, graded

    Each candidate mechanism stated with its evidence strength — and the findings that argue against it kept visible.

  4. 04

    A synthesis for your clinicians

    The written analysis and intervention framework are prepared for your licensed medical team, uncertainties stated rather than hidden.

Part of that work is stating what existing tests cannot prove. Microbe abundance does not establish metabolic activity; a single abnormal result does not establish a causal mechanism. Findings are weighed against your chronology and alternative explanations. See how the analysis is prepared →

The framework

The Host Capacity Model asks what made the altered microbial state sustainable.

Many approaches begin with microbial composition: identify the organisms, reduce them, and expect the intestinal environment to recover. In recurrent cases, that sequence may be incomplete.

The Host Capacity Model examines whether impaired epithelial fuel use, mitochondrial capacity, oxygen-gradient regulation, barrier integrity, immune signaling, or motility has changed the habitat in which the microbiome operates.

This is evaluated as a candidate explanatory framework — not assumed to be the cause of every case. The analysis must account for competing mechanisms and findings that the model cannot explain.

Explore the complete frameworkOpen the interactive systems map →
  1. 01Colonocyte bioenergetics
  2. 02O₂ gradient
  3. 03Habitat shift
  4. 04Endotoxin / metabolites
  5. 05Gut barrier
  6. 06Immune / mast cells
  7. 07Systemic symptoms
A candidate feedback model. Individual cases may enter the cycle through different mechanisms, and not every pathway will apply to every person.

The published work

The reasoning is public. Read it before you contact me.

Each page below is the canonical answer to one question, with its evidence class stated on the page.

  1. What Gut and Stool Tests Actually Measure — Measurement Library

    Answers: what do gut and stool tests actually measure.

  2. SIBO: What the Diagnosis Describes, and What It Does Not

    Answers: what is SIBO, and what does and does not explain it.

  3. Why SIBO Keeps Coming Back: Competing Explanations and Their Evidence

    Answers: why does SIBO keep coming back.

  4. MCAS: What Is Established, and What Is Contested

    Answers: what is mast cell activation syndrome and what is actually established.

  5. The Host Capacity Model

    Answers: what is the Host Capacity Model and what is its evidence status.

Selected research

Start with the recurring questions.

SIBO

Why Does SIBO Keep Coming Back After Treatment?

Recurrent SIBO may represent an equilibrium state of an unaddressed host substrate failure. Antimicrobials reduce overgrowth without restoring the colonocyte bioenergetic capacity that defines which microbes can dominate. A Host Capacity Model reading of the recurrence cycle, the SLC5A8 / Fe-S / CD38-NAD+-SIRT3 mechanisms behind it, and what an HCM-anchored approach actually looks like.

16 min · May 2026

MCAS & Mast Cells

Why Does MCAS Not Respond to Standard Treatment? The Four Mechanistically Distinct Patterns

Treatment-resistant MCAS may, in a subset of people, be a stratification problem rather than a stabilization problem. At least four candidate mechanistic patterns can contribute to the MCAS phenotype — barrier-driven, neuroimmune/vagal, chemical/toxicant, and clonal/KIT-driven — and they require different upstream interventions. A Host Capacity Model reading of why cromolyn, ketotifen, and the standard stack fail, and what stratification-anchored care looks like.

18 min · May 2026

Browse all mechanistic writing →

Fit and boundaries

Decide quickly whether this is the wrong service for you.

BiomeLogic provides educational systems-biology analysis. It does not diagnose, prescribe, treat, triage, or replace licensed medical care. Major claims are separated by evidence level, and every written analysis is designed for discussion with your licensed medical team.

How I Work →Framework Audit →Claim Ledger →For Clinicians →

Based in Bowie, Maryland, United States. Sessions are held remotely by video. Maryland & DMV consulting →

This is for you if

  • Your case spans gut, immune, autonomic, metabolic or post-viral findings at once.
  • Testing has been extensive and the results still do not form one picture.
  • You want reasoning derived from your own record, not a template.
  • You have, or are willing to work with, a clinician who will read a written analysis.

This is not the service if

  • You need a diagnosis, medication decisions, or medical treatment made for you.
  • You are in an acute or unstable situation that needs medical care now.
  • You want a generic supplement stack rather than a case-specific framework.
  • You expect ongoing clinical management, monitoring, or emergency cover.

Before you begin

The questions worth answering first.

  • No. The analysis is the foundation, not the end point. Your record is reconstructed as one system, the leverage points are ranked, and the result is translated into a personalized intervention framework that you and your clinicians can act on. The fee covers the reconstruction and the framework that follows from it; the live session is where both are tested with you.
  • Yes. It is included in the Comprehensive Systems-Biology Case Analysis. Depending on the case it may contain prioritized targets, sequencing, nutritional and metabolic strategies, supplement and nutrient options with specific product examples where relevant, testing and monitoring questions, and implementation considerations — derived from your own record rather than a template. It is not a prescription and not a medically supervised treatment plan: BiomeLogic does not diagnose, prescribe, or manage care. The framework is prepared for your licensed clinicians to review, modify or reject, and the clinical decisions remain with them.
  • Nothing to begin. Gate 1 is a short written fit screen with no files and no payment. If the case fits, you then choose what to share through the secure intake: history and chronology, prior labs and imaging, medications and supplements, and what has already been tried. The more complete the record, the more precise the reconstruction.
  • The written synthesis is delivered within 10 business days of the session. It contains the mechanistic reconstruction, competing explanations with evidence grading, the prioritized leverage points, the personalized intervention framework, and questions for your clinicians. 4 weeks of clarification email follow-up on the delivered analysis is included.
  • A medical or functional medicine consultation is clinical: it orders testing, prescribes interventions, and manages care. BiomeLogic does none of those things and is not a substitute for licensed care. The work is closer to a research consultancy — a structured mechanistic re-read of your existing records against the Host Capacity Model, with competing explanations, contradictions, and evidence tiers stated explicitly, translated into a framework your clinicians can approve, modify or reject. If you do not currently have a licensed care team, establishing one comes first.
  • That is the intended use. The synthesis is written to be read and questioned by a licensed clinician, with claims separated by evidence tier and the framework presented as options for their review. Many clients share it directly. With your authorization, a separate clinician-facing brief can also be prepared on request, with its scope confirmed in writing.

Read the full set of hard questions →

Start with fit — not payment

Does your case need to be read as one system?

Gate 1 is a free, short written fit screen. No files, laboratory reports, or payment are required. It establishes whether the analysis suits your case; every submission receives a written reply by email.

Start the free fit screenCompare services and fees