little DOMS — Database Findings¶
Note: This is a temporary planning document that will be deleted when the investigation is complete.
Date: 2026-03-07
Investigator accounts:
- Althea: althea.tomas@gmail.com (F5XWaUIex06j3KycXnpSUA==)
- Maria: maria.arroyo@charite.de (xr22lv0TQESE9BNC69axeA==)
Project: little DOMS¶
Created: 2021-02-02
Stages¶
| # | Name | Extraction | Questions |
|---|---|---|---|
| 1 | Data extraction | true |
128 |
| 2 | Risk of bias assessment | false |
18 (17 shared with Stage 1) |
Althea's 6 Affected Studies — Sessions + Annotations¶
All annotations currently have Stage 1 stageId provenance.
| Study (abbreviated) | S1 Session Created | S2 Session Created | Annotations Written | Ann Count |
|---|---|---|---|---|
| Low-dose nifedipine | 2026-02-03 16:55 completed | 2026-02-18 19:20 completed | 2026-02-25 17:51 | 52 root + 134 non-root = 186 |
| NLRP3 Inflammasome | 2026-02-03 16:50 completed | 2026-02-18 19:11 completed | 2026-02-25 17:31 | 47 root + 97 non-root = 144 |
| Contralesional angiotensin | 2026-02-05 12:04 completed | 2026-02-18 18:17 completed | 2026-02-25 16:11 | 55 root + 213 non-root = 268 |
| Huang-Lian-Jie-Du | 2026-02-05 15:57 completed | 2026-02-19 12:01 completed | 2026-03-05 10:29 | 48 root + 97 non-root = 145 |
| New alternative approaches | 2026-02-09 12:46 completed | 2026-02-18 19:01 completed | 2026-03-05 10:42 | 56 root + 225 non-root = 281 |
| DPP-4 Linagliptin | 2026-02-09 15:53 completed | 2026-02-18 19:31 completed | 2026-03-05 10:59 | 52 root + 193 non-root = 245 |
Critical: every study has a single annotation timestamp — all annotations were written in one atomic submission per study.
Maria's 7 Studies — Sessions + Annotations¶
Maria has no Stage 2 sessions anywhere.
| Study (abbreviated) | S1 Session Created | Annotations Written | Ann Count |
|---|---|---|---|
| ESO-WSO 2020 | 2026-02-18 14:38 completed | 2026-02-18 14:38 | 31+1 = 32 (excluded study) |
| Carvedilol | 2026-02-19 15:32 in-progress | 2026-02-19 15:32 | 15+1 = 16 (partial) |
| Huang-Lian-Jie-Du | 2026-02-18 15:19 completed | 2026-02-24 12:19 | 46+88 = 134 |
| FGF21 | 2026-02-24 12:35 completed | 2026-02-24 12:36 | 39+1 = 40 (excluded study) |
| Lauric acid | 2026-02-24 12:50 completed | 2026-02-24 12:50 | 39+1 = 40 (excluded study) |
| Contralesional angiotensin | 2026-02-24 14:08 completed | 2026-02-25 14:55 | 45+88 = 133 |
| New alternative approaches | 2026-02-26 13:15 completed | 2026-02-26 14:38 | 56+216 = 272 |
Annotation Question Tree Structure¶
The tree, derived from the annotation root/non-root relationships:
ROOT (study-level)
├── [Metadata] English study, Is the study excluded?*, Conflict of interest,
│ Has a protocol been published?, How many animals were used...
│
├── [Stage 1 procedure labels — each has many children]
│ ├── Cohort label?
│ │ └── [children] Species, Strain, Animal Sex, Weight [g] (upper/lower),
│ │ Age of animals, Source of animals, Type/Was comorbidity confirmed,
│ │ How is diabetes mellitus induced?, Reported excluded animals...
│ │
│ ├── Experiment label?
│ │ └── [children] Disease Models, Cohorts, Treatments (with further nesting)
│ │ └── [within Treatments] Treatment name, Dose, Route, Intervention type,
│ │ Number of interventions, Co-treatment...
│ │
│ ├── Outcome assessment procedure label?
│ │ └── [children] What is the name of the neurobehavioral outcome?,
│ │ Outcome measure, Outcome measure units, Type, average/error type,
│ │ Greater is worse, Reference group, Function addressed...
│ │ ├── Item 6 – Detection bias: Random outcome assessment <- per outcome
│ │ ├── Item 7 – Detection bias: Blinding <- per outcome
│ │ └── Item 8 – Attrition bias: Incomplete outcome data <- per outcome
│ │
│ └── Disease model induction procedure label?
│ └── [children] Model used to induce diabetes?, Type of diabetes modelled?,
│ Was timing of disease induction random?...
│
├── [Stage 1 reporting questions]
│ Reporting of excluded animals?, Were investigators blinded?,
│ Were the animals randomly housed?, Animal housing pre/post-stroke?,
│ Prespecification of in-/exclusion criteria?, etc.
│
└── [RoB items — study-level, shared with Stage 2]
├── Item 1 – Selection bias: Sequence generation
├── Item 2 – Selection bias: Baseline characteristics (two variants)
├── Item 3 – Selection bias: Allocation concealment
├── Item 4 – Performance bias: Random housing
├── Item 5 – Performance bias: Blinding
├── Item 9 – Reporting bias: Selective outcome reporting
├── Item 10 - Other: Other sources of bias
└── Is this study reconciled
* "Is the study excluded?" root annotation has 1 non-root child (the exclusion reason).
Chronology — What Actually Happened¶
2021-02-02 Project "little DOMS" created
2026-02-03 Althea starts Stage 1 (Data Extraction) on NLRP3 and Low-dose nifedipine
2026-02-05 Althea starts Stage 1 on Contralesional angiotensin and Huang-Lian-Jie-Du
2026-02-09 Althea starts Stage 1 on New alternative approaches and DPP-4 Linagliptin
-> At this point Althea has ~268-281 annotations per study saved under Stage 1
2026-02-12 * Althea files #2335 — wide format export crashes with ArgumentNullException
(null StringArrayAnnotation — separate bug, latent since ~2021)
2026-02-18 Althea completes Stage 2 (RoB) for 5 studies within the same evening:
18:17 — Contralesional angiotensin Stage 2 session created (completed)
19:01 — New alternative approaches Stage 2 session created (completed)
19:11 — NLRP3 Stage 2 session created (completed)
19:20 — Low-dose nifedipine Stage 2 session created (completed)
19:31 — DPP-4 Linagliptin Stage 2 session created (completed)
-> Stage 2 submission tree-shakes Stage 1's 17 shared-question annotations
and replaces them with Stage 2 RoB answers
Maria starts Stage 1:
14:38 — ESO-WSO 2020 (completed, excluded study, 32 annotations)
15:19 — Huang-Lian-Jie-Du session created (annotations written later)
2026-02-19 Althea completes Stage 2 for Huang-Lian-Jie-Du (12:01)
* Althea files #2337 — "Outcome assessment level inputs have disappeared"
-> She completed Stage 2 yesterday/today and the outcome-level annotations
are now missing when she views Stage 2
Maria starts Stage 1 on Carvedilol (15:32) — still in-progress today
2026-02-20 * Maria files #2339 — "same export crash + completing RoB corrupts outcome
annotations in Data Extraction"
-> Maria has no Stage 2 sessions: she is either reporting what she observed
happening to the project, or tried Stage 2 but it didn't save a session
2026-02-24 Maria annotates three more Stage 1 studies:
12:19 — Huang-Lian-Jie-Du annotations written (session from 18 Feb)
12:35 — FGF21 session created + 40 annotations (excluded)
12:50 — Lauric acid session + 40 annotations (excluded)
14:08 — Contralesional angiotensin session created
2026-02-25 Maria writes annotations for Contralesional angiotensin at 14:55 (133 total)
** Althea re-saves Stage 1 for 3 studies — ALL annotations completely
rewritten in single submissions (Stage 1 form, all 128 questions):
16:11 — Contralesional angiotensin: 268 annotations rewritten
17:31 — NLRP3: 144 annotations rewritten
17:51 — Low-dose nifedipine: 186 annotations rewritten
2026-02-26 Maria writes New alternative approaches annotations (272 total)
2026-03-05 ** Althea re-saves Stage 1 for remaining 3 studies:
10:29 — Huang-Lian-Jie-Du: 145 annotations rewritten
10:42 — New alternative approaches: 281 annotations rewritten
10:59 — DPP-4 Linagliptin: 245 annotations rewritten
What This All Means¶
The most significant finding is that every one of Althea's 6 affected studies has a single annotation timestamp — meaning ALL annotations (not just the 17-18 shared questions) were completely overwritten in a single Stage 1 submission per study, roughly 6–14 days after Stage 2 was completed.
This points to Althea manually going back into Stage 1 and re-submitting everything — not an auto-save. She did 3 studies in one session on 25 Feb (over ~1.5 hours), then the other 3 on 5 Mar (over ~30 minutes). She was clearly working through the list deliberately.
What happened to the original Stage 2 annotations? Between Stage 2 completion (18-19 Feb) and Althea's re-annotation (25 Feb / 5 Mar), the outcome-level annotations were in an unknown state — this is exactly what Althea reported as missing on 19 Feb. The 25 Feb / 5 Mar data is Althea's second attempt, not the original Stage 2 work.
The question you cannot answer from the current database: whether Althea's re-entered RoB values match her original Stage 2 work. The Atlas backup from 21 Feb would show what state the annotations were in immediately after Stage 2 completed (and potentially after they disappeared) — and comparing that to the current data would tell you whether anything was actually lost or altered.
Maria's data is unaffected — she only ever did Stage 1, her 7 studies all have consistent single-timestamp annotations, and her data looks structurally complete for the studies she finished.