What’s New?

MRININJA 3.2.16 — Reconstruction and Post-Processing Physics (New Child Page) — Physics Cluster Roadmap Complete

Date: July 27, 2026

• Added new child page Reconstruction and Post-Processing Physics (ID 9212) under the MRI Physics — Fundamentals and Principles master page (9201) — the ELEVENTH and final child page in the physics cluster, completing the full topic-group roadmap originally laid out in the master page (9201) Section 4 when the cluster was created.
• Covers the mathematical/physical basis of SENSE (image-domain unfolding) and GRAPPA (k-space-domain interpolation), including the shared, physically-grounded g-factor SNR penalty; compressed sensing (sparsity-domain recovery from incoherently undersampled k-space, and why incoherent rather than regular undersampling is specifically required); and the physical principles behind AI/deep-learning reconstruction (learned vs hand-crafted priors, physics-informed/unrolled-optimisation architecture, and the hard information-theoretic limit that applies regardless of reconstruction sophistication).
• Sourced from Pruessmann et al. 1999 (SENSE) and Griswold et al. 2002 (GRAPPA) — both already cited elsewhere on the site — plus Lustig, Donoho & Pauly 2007 (foundational compressed sensing MRI) and Hammernik et al. 2018 (landmark physics-informed deep-learning reconstruction), both new to the site.
• Registered as a child of 9201 with an unusually extensive set of reciprocal cross-links (six sibling child pages plus the existing Parallel Imaging parameter page, 9588), reflecting this page's role as the natural destination for several 'deferred to Reconstruction and Post-Processing Physics' notes left in earlier cluster pages' own evidence-gaps and advanced-technical-notes sections.

MRININJA 3.2.15 — High-Field Physics (New Child Page)

Date: July 27, 2026

• Added new child page High-Field Physics (ID 9211) under the MRI Physics — Fundamentals and Principles master page (9201) — tenth child page in the physics cluster, covering topic group 4.10 of the master page's roadmap.
• Structured deliberately as a consolidating, comparative page: provides genuinely new in-depth treatment of SNR field-strength dependence (Hoult-Richards theory, Edelstein empirical confirmation, and the sample-noise/coil-noise crossover at the highest field strengths), while explicitly cross-referencing — rather than repeating — T1/T2 field dependence (already covered in Relaxation Phenomena, 9203), susceptibility effects (already covered in Physics of MRI Artefacts, 9209), and B1 inhomogeneity (already covered in Magnetic Field, Hardware, and Homogeneity, 9208), tying all four together as an interacting, combined field-strength trade-off rather than four separate topics.
• Sourced from Hoult & Richards 1976 (foundational reciprocity-based SNR theory), Edelstein et al. 1986 (empirical MRI SNR field-strength confirmation), and Hoult 2000 (dedicated high-field SNR/power-deposition analysis).
• Registered as a child of 9201 with explicit, textually-grounded reciprocal cross-links to four sibling child pages (9203, 9206, 9208, 9210) and to the existing Contrast Media in MRI master page (9101), since Section 9.2 explicitly connects field-strength-dependent contrast agent relaxivity to that page.

MRININJA 3.2.14 — SAR, Bioeffects, and MRI Safety Physics (New Child Page)

Date: July 27, 2026

• Added new child page SAR, Bioeffects, and MRI Safety Physics (ID 9210) under the MRI Physics — Fundamentals and Principles master page (9201) — ninth child page in the physics cluster, covering topic group 4.9 of the master page's roadmap.
• Covers RF power deposition and SAR physics (dielectric heating, the SAR=σE²/2ρ relationship, and why SAR scales disproportionately with both flip angle and field strength), gradient dB/dt and peripheral nerve stimulation (the Reilly neuroelectric model and duration-dependent threshold curve), static field bioeffects (explicitly distinguishing established phenomena — projectile/torque hazard and transient sensory effects — from theoretical/unsubstantiated ones, and clarifying that projectile hazard depends on spatial field gradient, not absolute field strength), and acoustic noise physics (the Lorentz-force vibration mechanism and its direct, predictable dependence on sequence-level gradient waveform choices).
• Sourced from Bottomley & Andrew 1978 (foundational RF power deposition theory), Reilly 1989 (landmark PNS neuroelectric model), Schenck 2000 (comprehensive static field bioeffects review), and Hedeen & Edelstein 1997 (original acoustic noise characterisation and predictive model).
• Registered as a child of 9201 with explicit, textually-grounded reciprocal cross-links to siblings 9204 and 9208.

MRININJA 3.2.13 — Physics of MRI Artefacts (New Child Page)

Date: July 26, 2026

• Added new child page Physics of MRI Artefacts (ID 9209) under the MRI Physics — Fundamentals and Principles master page (9201) — eighth child page in the physics cluster, covering topic group 4.8 of the master page's roadmap.
• Covers susceptibility artefact (signal loss and geometric distortion from local field distortion at tissue interfaces), aliasing/wrap-around physics (the Nyquist criterion applied to k-space sampling), truncation (Gibbs) ringing (a direct mathematical consequence of finite k-space sampling at sharp boundaries), and RF-related (zipper) artefacts and the magic angle effect — explicitly distinguished as having five genuinely different physical origins rather than treated as a single undifferentiated ‘artefact’ category. Flow/motion artefacts, already covered in the companion Flow, Motion, and Diffusion Physics page, are explicitly not repeated.
• Sourced from Schenck 1996 (comprehensive magnetic susceptibility framework), Erickson et al. 1991 (original clinical description of the magic angle effect), and Nyquist 1928 (the original sampling-theorem paper underlying aliasing physics).
• Registered as a child of 9201 with explicit, textually-grounded reciprocal cross-links to four sibling child pages (9203, 9204, 9205, 9207).

MRININJA 3.2.12 — Magnetic Field, Hardware, and Homogeneity (New Child Page)

Date: July 26, 2026

• Added new child page Magnetic Field, Hardware, and Homogeneity (ID 9208) under the MRI Physics — Fundamentals and Principles master page (9201) — seventh child page in the physics cluster, covering topic group 4.7 of the master page's roadmap (all five of its listed sub-topics).
• Covers magnet types (superconducting, permanent, resistive) and their engineering trade-offs, field homogeneity and shimming (passive vs active, and why perfect homogeneity is physically unattainable), gradient coil design and performance metrics (maximum amplitude, slew rate, and the peripheral-nerve-stimulation/acoustic-noise limits on pushing them further), RF coil transmit/receive physics with an explicit explanation of why parallel imaging is fundamentally a hardware-enabled capability rather than a purely software technique, and multi-transmit/B1 shimming at high field.
• Sourced from Roemer et al. 1990 (the original NMR phased array description — the direct hardware prerequisite for parallel imaging) and Katscher et al. 2003 (original parallel transmission/Transmit SENSE description).
• Registered as a child of 9201 with explicit, textually-grounded reciprocal cross-links to siblings 9202, 9204, and 9205, and to the existing Parallel Imaging parameter page (9588), since this page explains the hardware basis its reconstruction methods depend on.

MRININJA 3.2.11 — Flow, Motion, and Diffusion Physics (New Child Page)

Date: July 26, 2026

• Added new child page Flow, Motion, and Diffusion Physics (ID 9207) under the MRI Physics — Fundamentals and Principles master page (9201) — sixth child page in the physics cluster, covering topic group 4.6 of the master page's roadmap.
• Covers time-of-flight (differential saturation/inflow enhancement) and phase-contrast (velocity-to-phase) flow physics, three physically distinct flow-artefact mechanisms (pulsatile ghosting, intravoxel dephasing, misregistration), diffusion physics (Brownian motion, the Stejskal-Tanner pulsed-gradient method, the b-value, and the ADC-vs-true-diffusion distinction), and the physics underlying cardiac/respiratory gating and triggering.
• Sourced from Stejskal & Tanner 1965 (the foundational PGSE diffusion method), Moran 1982 (original phase-contrast velocity encoding), Le Bihan et al. 1986 (first clinical DWI/IVIM translation), and Carr & Purcell 1954 (earlier diffusion-related signal-loss observations that motivated Stejskal-Tanner).
• Registered as a child of 9201 with explicit, textually-grounded reciprocal cross-links to siblings 9202, 9204, and 9205, and to the existing DWI sequence page (9012), since this page explains the underlying physics of that page's clinical technique.

MRININJA 3.2.10 — Chemical Shift and Fat/Water Physics (New Child Page)

Date: July 26, 2026

• Added new child page Chemical Shift and Fat/Water Physics (ID 9206) under the MRI Physics — Fundamentals and Principles master page (9201) — fifth child page in the physics cluster, covering topic group 4.5 of the master page's roadmap.
• Covers the chemical shift phenomenon and ppm scale (with the quantitative water-fat frequency difference at 1.5T and 3T), type 1 (misregistration) and type 2 (India-ink boundary) chemical shift artefact with their distinct physical origins, and a detailed physical comparison of the three major fat-suppression mechanisms — STIR (T1-based), spectral saturation (frequency-based), and Dixon (chemical-shift-encoded computational separation) — including a side-by-side property table.
• Sourced from Proctor & Yu 1950 and Dickinson 1950 (independent original discovery of chemical shift), Bydder et al. 1985 (original STIR description), and Dixon 1984 (original Dixon technique description).
• Registered as a child of 9201 with explicit, textually-grounded reciprocal cross-links to all four prior sibling child pages and to the existing STIR sequence page (9006), since this page explains the underlying physics of that page's clinical technique.

MRININJA 3.2.9 — Signal Localisation and Image Formation / k-Space (New Child Page)

Date: July 26, 2026

• Added new child page Signal Localisation and Image Formation (k-Space) (ID 9205) under the MRI Physics — Fundamentals and Principles master page (9201) — fourth child page in the physics cluster, covering topic group 4.3 of the master page's roadmap (all five of its listed sub-topics, since no separate topic list was supplied for this page).
• Covers the three spatial-encoding gradients (slice-select, frequency-encode, phase-encode) and the physics of slice selection, k-space theory and structure (the gradient-to-k relationship, centre-vs-periphery, conjugate symmetry), k-space filling strategies (Cartesian, radial, spiral, partial Fourier), and the Fourier transform / resolution-SNR-scan-time relationship with its physical (not merely conventional) basis.
• Sourced from Ljunggren 1983 and Twieg 1983 (independent original k-space formalisations), reused Edelstein 1980, Lauterbur 1973 and Mansfield 1977 from the master page and prior cluster pages, plus Feinberg 1986 (partial Fourier, DOI not independently verified and explicitly flagged as such rather than guessed).
• Registered as a child of 9201 with explicit, textually-grounded reciprocal cross-links to siblings 9202 and 9204, and to the existing Parallel Imaging (9588) and Reconstruction Matrix (9587) parameter pages, since this page's own text explains the k-space physics those pages build on.

MRININJA 3.2.8 — RF Pulses and Pulse Sequence Physics (New Child Page)

Date: July 26, 2026

• Added new child page RF Pulses and Pulse Sequence Physics (ID 9204) under the MRI Physics — Fundamentals and Principles master page (9201) — third child page in the physics cluster, covering topic group 4.4 of the master page's roadmap. Title uses the cleaned-up convention introduced in v3.2.7 (no redundant type suffix).
• Covers flip angle and the Ernst angle (steady-state signal optimisation), the selective/non-selective/adiabatic RF pulse design taxonomy (with the B1-inhomogeneity-tolerance rationale for adiabatic pulses), a detailed physical comparison of spin-echo vs gradient-echo refocusing mechanisms (with a side-by-side property table), and magnetization transfer (bound/free pool exchange mechanism and its role as both a deliberate contrast mechanism and an incidental side effect of other RF choices).
• Sourced from Ernst & Anderson 1966 (Ernst angle), Silver/Joseph/Hoult 1985 (adiabatic pulse theory), Wolff & Balaban 1989 (magnetization transfer), Haase et al. 1986 (FLASH gradient-echo), and Hahn 1950 (reused from the companion Relaxation Phenomena page for the spin-echo comparison).
• Registered as a child of 9201 with explicit, textually-grounded reciprocal cross-links to both prior sibling child pages (9202, 9203), since this page's own text states it builds on both.

MRININJA 3.2.7 — Title Cleanup for Physics Cluster Child Pages

Date: July 26, 2026

• Removed the redundant '— Child Page' suffix from the listing title of 9202 (Fundamentals of Nuclear Magnetic Resonance) and 9203 (Relaxation Phenomena) — the page type is already conveyed by its placement in the site hierarchy and by the on-page intro note, so repeating it in the title shown in protocol listings was redundant clutter.
• Updated in both the routing record (content/protocols/*.php) and the relational registry (data/mrininja-relations.json) for consistency.
• Note: the existing PAES child page (2102) has an analogous suffix ('— Child Protocol') not addressed in this release — flagged for a decision on whether to apply the same cleanup there.

MRININJA 3.2.6 — Relaxation Phenomena (New Child Page)

Date: July 26, 2026

• Added new child page Relaxation Phenomena (ID 9203) under the MRI Physics — Fundamentals and Principles master page (9201) — second child page in the physics cluster, covering topic group 4.2 of the master page's roadmap.
• Covers T1 (spin-lattice) relaxation with BPP correlation-time theory, T2 (spin-spin) relaxation and the T1≥T2 constraint, the T2* decomposition into true-T2 and field-inhomogeneity (T2′) components with the spin-echo refocusing mechanism that recovers true T2, and tissue-/field-strength-dependence of relaxation times with a representative comparative value table (1.5T vs 3T) across six tissue types.
• Sourced from Bloembergen-Purcell-Pound 1948 (foundational relaxation theory), Hahn 1950 (reused from the companion NMR Fundamentals page, cited here specifically for T2 recovery), and three tissue-relaxometry studies (Stanisz 2005, O'Reilly 2022, Bojorquez 2017 — the latter explicitly cited to support an evidence-gap discussion on the substantial inter-study variability in reported tissue relaxation values, rather than presenting a single false-precision reference table).
• Registered as a sibling of, and explicitly cross-linked with, the Fundamentals of Nuclear Magnetic Resonance child page (9202), since this page's own text states it builds directly on that page's FID discussion.

MRININJA 3.2.5 — Fundamentals of Nuclear Magnetic Resonance (New Child Page)

Date: July 26, 2026

• Added new child page Fundamentals of Nuclear Magnetic Resonance (ID 9202) under the MRI Physics — Fundamentals and Principles master page (9201) — the first child page published in the physics cluster, covering the first of the eleven planned topic groups (Section 4.1 of the master page's roadmap).
• Covers nuclear spin and the Larmor equation (with a gyromagnetic-ratio comparison table across five clinically/research-relevant nuclei), the B0 field and net magnetization (Boltzmann statistics), RF excitation in the rotating reference frame, and the physical origin of the FID signal — including a brief presentation of the Bloch equations and a quadrupolar-nuclei note in the advanced technical section.
• Sourced from four independently verified landmark historical physics papers (Rabi 1939, Bloch 1946, Purcell 1946, Hahn 1950), deliberately scoped to avoid duplicating relaxation-phenomena content reserved for a future, separate child page in the same cluster.
• Registered as a child of 9201 in the relational registry; the master page's 'Child Protocols' listing updates automatically from this page's parent_id field, no static edit to 9201's body was required.

MRININJA 3.2.4 — Inline Page-ID References Converted to Hyperlinks

Date: July 25, 2026

• Site-wide sweep for bare page-ID citations in prose text (e.g. "MRI Parameters Overview (9501)"), distinct from bibliography citations, which were left untouched. Replaced with proper hyperlinks to the referenced page in 11 pages: 1106, 1181, 9201, 9501, 9582, 9583, 9584, 9585, 9586, 9587, 9589.
• Found and fixed an unrelated pre-existing defect while reviewing this text: two pages (9588, 9589) had a broken, unconverted Markdown closing block (literal asterisks and a raw "---" divider instead of proper HTML) left over from an earlier conversion; 9588 additionally had this broken block fully duplicating a second, correctly-formatted closing paragraph elsewhere on the same page — the broken duplicate was removed (after confirming its one non-duplicated piece of information, the "Related child pages" list, was preserved in the remaining clean paragraph) and 9589's single copy was repaired in place.
• Also fixed three instances of unconverted Markdown emphasis asterisks in the introductory banner of 1181 (all three parts of the DSC MR Perfusion series).
• No scientific content was altered anywhere; verified via word-count comparison and full
  tag-balance comparison against the previous version on every file touched.

MRININJA 3.2.3 — MRI Physics Fundamentals (New Master Reference Page + Cluster Roadmap)

Date: July 23, 2026

• Added new master reference page MRI Physics — Fundamentals and Principles (ID 9201) under OTHER / Technical MRI Physics, as an architectural hub distinct from 9501 (which covers practical acquisition parameters, not underlying physics).
• Covers NMR fundamentals, relaxation (T1/T2/T2*), spatial encoding and k-space, RF pulse physics, and a brief landmark history (Bloch/Purcell 1946 → Lauterbur 1973 → Mansfield 1977 → Edelstein spin-warp 1980 → SENSE/GRAPPA 1999-2002).
• Includes an explicit 11-group roadmap (Section 4) of planned child pages covering the full physics cluster in depth: NMR fundamentals, relaxation, spatial encoding/k-space, RF pulse physics, chemical shift/fat-water physics, flow/motion/diffusion physics, hardware/field homogeneity, artefact physics, SAR/bioeffects/safety physics, high-field physics, and reconstruction physics.
• Integrated reciprocal registry links with 9003 (MRI Sequences Overview), 9501 (MRI Parameters Overview), and 9101 (Contrast Media in MRI); added a static related-card link from 9501's own Related Master Pages block.

MRININJA 3.2.2 — Contrast Media in MRI (New Master Reference Page)

Date: July 23, 2026

• Added new master reference page Contrast Media in MRI (ID 9101) under OTHER / Contrast Media — the first page to populate this existing-but-empty navigation subsection.
• Covers GBCA classification (macrocyclic/linear, ionic/nonionic), relaxivity and stability comparisons, organ-specific hepatobiliary agents (gadoxetate, gadobenate), historical non-gadolinium agents (manganese, SPIO), full regulatory/history timeline (1988 approval through the June 2026 gadoquatrane/Ambelvist approval), dosing and elimination kinetics, and safety/special-population guidance.
• Integrated reciprocal registry links with the two existing OTHER-section hub pages (9003 MRI Sequences Overview, 9501 MRI Parameters Overview) and with the two organ-specific master pages whose protocols depend most on hepatobiliary contrast agents (5101 Liver, 5201 Biliary Tree/MRCP); added a static related-card link from 9501's own Related Master Pages block.
• Follows the ‘Master / Reference Page’ template (numbered heading ids, clickable breadcrumb, related-grid card layout) established by 9003/9501, distinct from the anatomical master-page template.

MRININJA 3.2.1 — Bibliography Standardisation and Keyword Emphasis

Date: July 23, 2026

• Standardised the Evidence-Based References format across the ENTIRE site to a single canonical structure (badge + reference-title + reference-meta): fixed 5 different legacy formats found in the wild (descriptive badge labels, plain <ol> sub-bibliographies, an old focus-bibliography div format, and fully unstyled paragraph references) across 26 pages.
• Corrected 34 pre-existing badge/CSS-class mismatches (badge text and colour class disagreeing, e.g. text 'Technical' rendered with the 'Moderate' colour) across 11 pages, plus 15 abbreviated/duplicated badges on the Sequences Overview page (9003).
• Applied targeted bold emphasis (numeric decision thresholds, named classification/scoring systems, red-flag/emergency phrases) across 68 clinical pages — 539 new <strong> tags added, zero words of scientific text altered, added or removed anywhere (verified by exact word-count comparison on every file).
• No scientific content, citation, DOI/PMID, or bibliography entry was reworded, summarised or removed — this release only changes markup/formatting.

MRININJA 3.1.29 — Structural Audit and Cleanup (Phase 1)

Date: July 22, 2026

• Disabled debug mode in production (index.php): $debug was left true, exposing PHP errors publicly; set to false.
• Fixed orphaned page MRI Paranasal Sinuses — Generic Standard Protocol (ID 1701): the routing record (content/protocols/1701-...php) was missing since the page’s creation, even though its body HTML, sitemap entry and registry node already existed — the page was silently unreachable. Reconstructed the routing record from the existing body/registry content; added the missing sitemap entry.
• Registered MRI Liver — Generic Standard Protocol (ID 5101) in the central relational registry, where it was previously absent despite being fully routable — it had zero semantic cross-links to Biliary/MRCP (5201) and Pancreas (5301). Added reciprocal links with both.
• Removed five dangling references to ID 9100 (from the Sequences Overview, STIR, GRE/FLASH, DWI and Inversion Recovery pages), which pointed to a page that has never had body or routing content on this site.
• Corrected a stale legacy ID reference (1001 → 1101, the current Brain master protocol ID) in the Cranial Nerves (1801) and Paranasal Sinuses (1701) registry entries.
• Archived four orphaned legacy body files from the pre-renumbering Brain cluster (1010, 1011, 1013, 1014) into content/bodies/trash/ — they were no longer referenced by any routing record after the 2026 Brain ID migration to 1101–1107.
• Removed an unused, unreferenced duplicate sitemap file (content/bodies/sitemap.xml) — not linked from any code path; the authoritative sitemap remains the root sitemap.xml.
• No scientific content on any page was altered, corrected, rewritten or removed.

MRININJA 3.1.28 — Popliteal Artery Entrapment Syndrome Child Protocol

Date: July 22, 2026

• Added new child page LEGS MRI for Popliteal Artery Entrapment Syndrome — Child Protocol as ID 2102, under the Muscle Trauma and Mechanical Disorders master protocol (2101).
• First child page published under the MUSCLE macrocategory.
• Integrated parent-page link, registry entry, reading path and a soft cross-link from the Neuromuscular Disorders master page (2301), reflecting the source document's own framing of shared calf/gastrocnemius anatomical content, without creating a second formal parent relationship.
• No scientific content was altered, corrected, simplified or removed from the supplied Markdown.

MRININJA 3.1.27 — Muscle Metabolic and Systemic Disorders Master Protocol

Date: July 22, 2026

• Added new master page MRI Muscle in Metabolic and Systemic Muscle Disorders — Generic Standard Protocol as ID 2401.
• Completed the four-branch MUSCLE master architecture: trauma/mechanical, tumour/infection, neuromuscular and metabolic/systemic disorders.
• Added the 'Metabolic / Systemic Disorders' subsection to the MUSCLE branch of the site navigation tree.
• Integrated reciprocal semantic relationships among all four MUSCLE master pages, plus sequence (TSE, STIR, DWI) and MRI-parameter links.
• No scientific content was altered, corrected, simplified or removed from the supplied Markdown.

MRININJA 3.1.26 — Muscle Neuromuscular Disorders Master Protocol

Date: July 20, 2026

• Added new master page MRI Muscle in Neuromuscular Disorders — Generic Standard Protocol as ID 2301.
• Completed the three-branch MUSCLE master architecture: trauma/mechanical, tumour/infection and neuromuscular disorders.
• Integrated reciprocal semantic relationships, reading paths, sequence and MRI-parameter links.
• Corrected the requested architectural classification from HEAD to MUSCLE without altering the supplied scientific content.

MRININJA 3.1.24 — Muscle Trauma and Mechanical Disorders Master Protocol

Date: July 20, 2026

• Added new master page MRI Muscle in Trauma and Mechanical Disorders — Generic Standard Protocol as ID 2101.
• Created the new MUSCLE architecture with future Tumour / Infection and Neuromuscular branches.
• Integrated reciprocal semantic relationships with shoulder, hip, knee, ankle, TSE, STIR, DWI and MRI parameter pages.
• Updated central registry, navigation, sitemap and reading paths while preserving the supplied scientific content.

MRININJA 3.1.21 — Cranial Nerves Master Protocol

2026-06-05 — Added new HEAD master page 1801-cranial-nerves-generic-standard-protocol and integrated it into the cranial nerves / skull base semantic cluster.

MRININJA 3.1.14 — Phase Oversampling Parameter Deep Dive

Date: 2026-06-03

• Added new MRI Parameters deep dive: Phase Oversampling — Fold-over Suppression / No Phase Wrap.
• Updated MRI Parameters master page with semantic link and related-content path.
• Updated semantic registry, sitemap and bidirectional parameter relationships.

MRININJA 3.1.13 — MRI Parameter Deep Dive: 2D vs 3D Acquisition

Added the new technical deep dive 2D vs 3D Acquisition linked to the MRI Parameters master page. Updated semantic registry, related parameter links, sitemap and technical notes. Deep dive remains accessible through related content and reading paths, not as a primary protocol-index entry.

MRININJA 3.1.12 — Slice Thickness parameter deep dive

Added the new MRI parameter deep dive Slice Thickness, linked to the MRI Parameters Overview and Classification master page.

• Converted the Claude Markdown source into MRIninja HTML without scientific rewriting.
• Preserved the source citation numbering and converted the final bibliography into MRIninja EBM reference cards.
• Updated semantic relations, reading paths, sitemap and related parameter links.

MRININJA 3.1.11 — MRI Parameter Deep Dive: Acquisition Matrix

Date: June 2026

• Added new parameter deep dive page: Acquisition Matrix.
• Updated MRI Parameters Overview related content and reading path with a bidirectional link to Acquisition Matrix.
• Updated FOV deep dive related content with the reciprocal Matrix relation.
• Updated central semantic registry and sitemap.
• Preserved source scientific content and converted the bibliography into final MRIninja EBM reference-card format.

MRININJA 3.1.9 — MRI Parameter Deep Dive: FOV

Date: June 2026

• Added new parameter deep dive page: FOV — Field of View.
• Updated MRI Parameters Overview related content and reading path with a bidirectional link to FOV.
• Updated central semantic registry and sitemap.
• Preserved source scientific content and converted the bibliography into final MRIninja EBM reference-card format.

MRININJA 3.1.8 — MRI Parameters Bibliography Consolidation

Regenerated 9501-mri-parameters-overview-classification with a single final MRIninja EBM bibliography section, removed the intermediate bibliography block, corrected section numbering after bibliography relocation, and preserved scientific content without alteration.

MRININJA 3.1.7 — MRI Parameters Master Reference

Added the new master technical reference page MRI Parameters — Overview and Classification, integrated with MRI Sequences Overview, sequence pages, semantic registry, sitemap and reading paths.

Version 3.1.6 — Alzheimer’s Disease dedicated child protocol

Added: new child pathology page 1107-brain-alzheimers-disease-protocol under HEAD / Brain, linked to 1101-brain-generic-standard-protocol.

Included: MRIninja child-page HTML conversion, Brain-style special formatting for section 4.4, collapsible advanced technical parameters, graphical EBM bibliography formatting, semantic breadcrumb, related content block, registry integration and sitemap update.

Semantic integration: connected to MPRAGE, FLAIR, SWI and DWI sequence pages, plus brain perfusion deep dives where appropriate as contextual technical references.

Integrity: source scientific content was converted without intentional scientific rewriting, deletion or correction.

Version 3.1.5 — Parotid glands master protocol

Added: new master page 4201-parotid-glands-generic-standard-protocol under NECK / Salivary Glands.

Included: Brain-style MRIninja HTML conversion, collapsible slice-positioning reference, collapsible advanced technical parameters, graphical EBM bibliography formatting, semantic breadcrumb, related content block, registry integration and sitemap update.

Integrity: source scientific content was converted without intentional scientific rewriting, deletion or correction.

MRININJA 3.1.4 — Soft Tissues Neck MRI Master Protocol

Added the new master page Soft Tissues Neck MRI — Generic Standard Protocol with MRIninja master-page structure, semantic relationships, registry integration, sitemap update and bidirectional relation with the Brachial Plexus master page.

Version 3.1.1 — Whole-Body MRI in Multiple Myeloma master page

Added: new master page 9300-whole-body-mri-multiple-myeloma-master-protocol under OTHER / Site / General Educational Pages.

Integrated: semantic registry, sitemap, related sequence relationships, reading path, and MRIninja graphical bibliography formatting.

Integrity: source scientific content was converted from Markdown to HTML without intentional scientific rewriting, summarisation, correction, or deletion.

Version 3.1.0 — Biliary MRI / MRCP master protocol

Added: new master page Biliary MRI / MRCP – Generic Standard Protocol as canonical protocol ID 5201 under Abdomen / Biliary Tree / MRCP.

Included: MRIninja-compatible HTML conversion from the supplied Markdown source, Human Verified marker, semantic breadcrumbs, collapsible slice-positioning reference, collapsible advanced technical parameters, graphical MRIninja EBM bibliography, registry integration and bidirectional semantic relationship with the Pancreas master protocol.

Integrity: source scientific content was converted from Markdown to HTML without intentional scientific rewriting, summarisation, deletion or correction.

Version 3.0.12 — GRE/FLASH diagram rendering update

Updated only the interactive GRE/FLASH magnetisation diagram asset with the revised Claude-generated version. The new diagram zooms the Mz steady-state region, improves visibility of small GRE steady-state differences, and keeps the existing page text, bibliography, registry and scientific content unchanged.

Version 3.0.11 — GRE/FLASH Sequence Page

Updated the full Gradient Echo (GRE/FLASH) sequence child page with complete scientific content, pulse diagram SVG, interactive magnetisation diagrams, MRIninja graphical bibliography, semantic registry updates and strong sequence-family links to SWI and the MRI Sequences overview.

Version 3.0.10 — SWI Sequence Page

Updated the SWI sequence child page with full MRIninja sequence-page content, pulse diagram, interactive T2* magnetisation diagrams, graphical EBM bibliography, semantic registry integration and related content links.

Version 3.0.9 — FLAIR sequence child page

Added the full FLAIR (Fluid-Attenuated Inversion Recovery) sequence child page with pulse diagram, interactive magnetisation diagrams, MRIninja graphical bibliography, semantic registry integration and reciprocal links with the MRI Sequences master page and the Inversion Recovery parent sequence page.

Version 3.0.5 — Mid-Foot master protocol

Added the new master page 8601-mid-foot-generic-standard-protocol under LOWER LIMB / Foot / Toes, converted from the Claude-generated Markdown source using the historical MRIninja master-page structure.

• Applied the special collapsible 4.6 Slice Positioning section structure.
• Applied the special collapsible 10. Advanced Technical Parameters section structure.
• Converted the final bibliography into graphical MRIninja EBM reference cards.
• Updated data/mrininja-relations.json, sitemap and semantic reading-path integration.

Integrity: source scientific content was converted without intentional scientific rewriting, summarisation or correction.

Version 3.0.3 — Pancreas master protocol

Added the new master page 5301-pancreas-generic-standard-protocol and integrated it into the MRIninja semantic relationship system.

• New Abdomen → Pancreas master/generic protocol page.
• Updated mrininja-relations.json with abdomen-pancreas-mri cluster, sequence relationships and reading path.
• Updated sitemap and upgrade notes.

Version 3.0.1 — Semantic relation architecture

Added: central relation registry data/mrininja-relations.json for page IDs, slugs, page types, master-child hierarchy, semantic clusters, related sequence pages and recommended reading paths.

Implemented: semantic breadcrumbs and standardised Related Content blocks on protocol pages, generated dynamically from the registry before the final bibliography/references section when present.

Scope: no protocol scientific content, bibliographies, DOI, PMID, tables, SVG/diagram assets or canonical slugs were intentionally modified.

Version 2.7.22 — Spin Echo interactive diagram layout fix

Updated: improved the embedded magnetisation diagrams on 9004-conventional-spin-echo-se-sequence by converting the four iframe diagrams from a two-column grid into full-width stacked panels.

Included: larger iframe display height, clearer panel headers, and direct Open fullscreen links for each interactive diagram.

Integrity: no scientific text, bibliography, references, metadata or diagram source files were modified.

Version 2.7.21 — Spin Echo sequence child page upgrade

Updated: rebuilt the existing sequence child page 9004-conventional-spin-echo-se-sequence from placeholder status into a complete MRIninja sequence reference page for Spin Echo (SE) and Turbo Spin Echo (TSE/FSE).

Included: full Markdown-to-HTML conversion, Human Verified marker placement, MRIninja EBM bibliography formatting, pulse sequence SVG diagram, four embedded magnetisation diagrams for T1/T2 weighting at 1.5T and 3T, updated protocol metadata and sitemap timestamps.

Integrity: source scientific content was converted without intentional scientific rewriting, summarisation, deletion or correction. Technical/refusi observations are documented in README_UPGRADE.txt.

Version 2.7.19 — Sequence child-page scaffold and internal sequence links

Added: twelve placeholder child pages for the main MRI sequence families under OTHER / Site / General Educational Pages, all linked to the master reference page 9003-mri-sequences-overview-classification.

Included: stable canonical slugs for Conventional Spin Echo, TSE, STIR, FLAIR, GRE/FLASH, MPRAGE, EPI, SWI, DWI, Spin Echo DWI, Echo Planar DWI and bSSFP.

Internal linking: existing content pages were scanned for explicit sequence names and enriched with internal links to the new child pages plus a concise sequence-level reading prompt where appropriate. Existing scientific content was not deleted or intentionally rewritten.

Integrity: this upgrade adds scaffolding, metadata, sitemap entries, changelog notes and internal links only; it does not remove existing scientific text.

Version 2.7.18 — MRI sequence overview master reference page

Added: new master/reference page MRI Sequences and Pulse Sequences — Overview and Classification as ID 9003 in OTHER / Site / General Educational Pages, with body file 9003-mri-sequences-overview-classification.html.

Included: sequence taxonomy, signal readout architecture, contrast classification, 2D/3D classification, vendor naming cross-reference, key acquisition parameters, acquisition modifiers, sequence-selection framework, future sequence-family child-page roadmap, and MRIninja graphical EBM bibliography formatting.

Integrity: source scientific content was converted from Markdown to HTML without intentional scientific rewriting, summarisation, deletion, or correction.

Version 2.7.17 — Brain headache child protocol

Updated: rebuilt the Brain child protocol MRI Brain – Dedicated Protocol for Headache as canonical protocol ID 1106 with body file 1106-brain-headache-protocol.html.

Included: headache-specific protocol stratification, thunderclap pathway, SIH/IIH imaging logic, MRA/MRV/vessel-wall conditional additions, disease-specific semiotics, structured reporting framework, QC checklist, collapsible advanced technical parameters, and MRIninja graphical EBM bibliography formatting.

Integrity: source scientific content was converted from Markdown to HTML without intentional scientific rewriting, summarisation, deletion, or correction.

Version 2.7.15 — Brain acute stroke child protocol

Updated: rebuilt the Brain child protocol MRI Brain – Acute Ischemic Stroke Dedicated Child Protocol as canonical protocol ID 1103 with body file 1103-brain-acute-stroke-protocol.html.

Included: acute stroke workflow delta, DWI-first acquisition logic, DWI-FLAIR mismatch decision-making, SWI/GRE haemorrhage exclusion, TOF MRA and DSC perfusion conditional pathways, DWI-ASPECTS reporting framework, disease-specific QC checklist, collapsible advanced technical parameters, and MRIninja graphical EBM bibliography formatting.

Integrity: source scientific content was converted from Markdown to HTML without intentional scientific rewriting, summarisation, or correction.

Version 2.7.14 — Brain MS child protocol

Updated: rebuilt the Brain child protocol MRI Brain – Multiple Sclerosis Dedicated Child Protocol as canonical protocol ID 1102 with body file 1102-brain-multiple-sclerosis-protocol.html.

Included: MAGNIMS-CMSC-NAIMS protocol deltas, McDonald criteria-oriented reporting framework, CVS/PRL susceptibility biomarkers, MS-specific QC checklist, collapsible advanced technical parameters, and MRIninja graphical EBM bibliography formatting.

Integrity: source scientific content was converted from Markdown to HTML without intentional scientific rewriting, summarisation, or correction.

Version 2.7.13 — Prostate master protocol

Added: new master page 6101-prostate-generic-standard-protocol in Pelvis / Prostate.

Updated: sitemap and protocol metadata. Bibliography converted to MRIninja EBM visual reference format.