Lifera∞Omics
User guide · Physicians & Laboratory
Genomic Data Reanalysis Request
How to sign in, raise a reanalysis request, and follow it through to a decision — screen by screen.
Sign in→
Fill the form→
Submit→
Triage→
Decision
Document control
| Portal | request.int.liferaomics.com.sa |
|---|---|
| Form reference | LO-F-GR-01 — Genomic Data Reanalysis Request Form, Revision 1.1 |
| Audience | Requesting physicians and Lifera Omics laboratory staff |
| Screens shown | The live portal. All patient, physician and account details are synthetic demo data — no real patient information appears in this guide. |
| Replies to | request.reanalysis@liferaomics.com.sa |
| Document no. | assigned by QA |
Approval
| Role | Name | Signature | Date |
|---|---|---|---|
| Prepared byPortal author | |||
| Reviewed byLaboratory lead | |||
| Reviewed byQuality manager | |||
| Approved byLaboratory director |
Revision history
| Version | Date | Description of change | Author |
|---|---|---|---|
| 1.0 | date | Initial reanalysis request portal and short in-app guide. | name |
| 1.1 | 08 October 2026 | Illustrated user manual: annotated screenshots for sign-in and two-factor, the request form (sections 1–6), laboratory triage (sections 7–8), the auto-filed Jira ticket and account management; added quick reference and troubleshooting. | Medical Genomics |
Contents
Chapter A
Getting in
In this chapter you will learn to
- sign in with your username, password and authenticator code
- set your password the first time from an invitation email
- set up two-factor authentication
Access is limited to registered physicians and laboratory staff. Every account uses a password and a 6-digit code from an authenticator app. There is no self sign-up — the laboratory registers you, and you set your own password from an emailed link.
Where The portal address, before sign-in
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Figure A1. The sign-in screen.
What the numbers mean
- Username — the short name the laboratory gave you (e.g.
dr.ahmed), not an email. - Password — the password you set from your invitation link.
- Sign in — takes you to the two-factor step.
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Figure A2. Entering your authenticator code.
What the numbers mean
- Code — the current 6-digit number from your authenticator app. It changes every 30 seconds.
- Sign in — confirms the code and opens the portal.
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Figure A3. First time only — setting your password from the invitation email.
What the numbers mean
- Username — filled in for you.
- New password — at least 12 characters.
- Repeat — type it again to confirm.
- Set password — the link works once and expires after 72 hours.
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Figure A4. Setting up two-factor — required once, after your first sign-in.
What the numbers mean
- QR code — scan with Google/Microsoft Authenticator, 1Password or any app.
- Manual key — can't scan? Type this key in by hand.
- Code from the app — enter the 6-digit code it shows.
- Turn on two-factor — finishes setup.
!
Lost your phone?
The laboratory can switch two-factor off for you, so you can sign in with your password and set it up again.Chapter B
Around the portal
The top bar is on every screen. It switches between views, shows whether you're connected, and holds your account menu and the on-screen help.
Where Always visible once you are signed in
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Figure B1. The top bar.
What the numbers mean
- Lifera Omics — the laboratory letterhead; you're on the reanalysis portal.
- Tabs — Request form, Requests (the register), Accounts (administrators only).
- Connection — green Connected means your work is being saved.
- Guide & theme — ? opens on-screen help; the half-circle switches light/dark.
- Your account — your name and role; opens the account menu.
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Figure B2. The account menu.
What the numbers mean
- Your account — click your name to open the menu.
- Password — change your password.
- Two-factor — check your authenticator status.
- Sign out — ends your session on this device.
Figure B3. On-screen help.
The ? button opens short, context-aware help — it changes with the view you're in, so physicians and laboratory staff each see advice for what's in front of them.
Chapter C
The request form
In this chapter you will learn to
- read the form masthead and jump between sections
- complete sections 1–6 for the index patient
- attach documents, then save or submit
Physicians complete sections 1–6. Sections 7–8 belong to the laboratory and stay hidden on the form. Use a separate form for each index patient, attach the signed consent, and fill every field marked *.
Where The Request form tab
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Figure C1. The form masthead.
What the numbers mean
- Document control — the form number, revision and SOP it follows.
- Form title — the Genomic Data Reanalysis Request Form.
- Who fills what — sections 1–6 physician; 7–8 laboratory, on receipt.
Figure C2. Section 1 — Requesting physician. Your name, institution, department and contact details. The email and phone are where the laboratory reaches you.
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Figure C3. Section 2 — Patient information. Identify the index patient.
What the numbers mean
- Sex assigned at birth — Female, Male or Unknown.
- Affected status — Affected or Unaffected.
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Figure C4. Section 3 — Original genomic test.
What the numbers mean
- Previous test — WES, WGS, or Other.
- Analysis configuration — Solo, Duo, Trio or More.
- Previous findings — genes, variants, zygosity and classification as reported before.
- Family members — when the configuration is not Solo, a block appears per relative.
- Add / Remove — one block per family member; fill every field.
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Figure C5. Section 4 — Reason for reanalysis.
What the numbers mean
- Reasons — tick all that apply.
- Rationale — the specific question the reanalysis should answer.
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Figure C6. Section 5 — Family information & attachments.
What the numbers mean
- New family information — Yes or No.
- New segregation results — Yes or No.
- Family details — consanguinity, affected relatives, prior testing.
- Attachments — four slots: consent, previous report, pedigree, other.
- Choose files — visible to the laboratory only.
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Figure C7. Section 6 — Updated clinical information.
What the numbers mean
- Clinical summary — relevant new results, positive or negative.
- Search 209 terms — find HPO phenotype terms.
- Selected — running count and chips (remove with
[x]). - Categories — open one and tick terms; Expand all / Clear help.
- Additional HPO — free text (e.g.
HP:0001250 Seizure).
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Figure C8. The action bar, fixed at the bottom of the form.
What the numbers mean
- Clear form — empties the form to start fresh.
- Print — a clean printable copy.
- Save progress — saves a draft to the register so you can finish later. Until you save, answers live only in this browser.
- Submit request — sends it to the laboratory and locks it; you can't edit it yourself afterwards.
✓
Save or submit?
Save progress keeps a private draft you can return to. Submit request hands it to the laboratory — do this only when the form is complete.Chapter D
Submitting & tracking
Submitted and saved requests live in the register. Physicians see their own; the laboratory sees every one. You're emailed whenever a decision changes — replies go to request.reanalysis@liferaomics.com.sa.
Where The Requests tab
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Figure D1. The requests register. Click any row to open it.
What the numbers mean
- Request ID — the portal's reference.
- Patient — the index patient's name.
- Requesting physician — who raised it, and where.
- Received — when it was submitted.
- Status — where it stands (key below).
- Report — a download link once released.
- New request — start a fresh form.
What the statuses mean
DraftNot submitted yet — open it to finish.
Awaiting triageSubmitted; not reviewed yet.
Awaiting raw dataAccepted; pending the raw data.
ApprovedAccepted for reanalysis.
ReturnedMore information needed — read the notes.
RejectedNot accepted; reason is in the email.
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Figure D2. A request opened from the register.
What the numbers mean
- Request details — ID, received date, status and, once released, the report.
- Patient & physician — the index patient with the requesting physician and institution.
- The answers — sections 1–6 read-only. A Returned request shows Edit & resubmit here.
Chapter E
Laboratory triage
In this chapter you will learn to
- complete section 7 triage and record a decision
- read the auto-computed readiness checklist
- recognise the Jira ticket the portal files automatically
These sections are visible to laboratory staff only, inside an opened request.
Where Open a request · laboratory accounts only
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Figure E1. Section 7 — Laboratory triage.
What the numbers mean
- Index Lifera Omics ID — becomes the Jira task title on approval.
- Other IDs — lab IDs for other family members.
- Documents received — consent, clinical, family, previous report.
- Raw data — Available or Awaiting. Check files a raw-data ticket; marking it Available later closes that ticket.
- Final decision — Approved marks the case Reanalysis Ready and files the run ticket.
- Decision notes — emailed to the physician; mandatory for Returned/Rejected.
✦
Emails on change only
Saving with a decision selected emails the physician — but only when the decision changes, so re-saving the same decision won't re-send.
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Figure E2. Section 8 — Readiness checklist.
What the numbers mean
- Auto-ticked items — filled from section 7 automatically.
- Clinical eligibility — the one item ticked manually.
- Save triage — records it and sends any decision email.
- Print / Save as JSON — a printable copy, or the full record.
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Figure E3. The ticket the portal files in Jira automatically (demo IDs).
What the numbers mean
- Where it lands — under the operations epic, in a story for the month.
- Title — the index Lifera Omics ID, or “Request raw data — <ID>”.
- Description — the request reference and index ID only. No patient-identifiable information is put in Jira.
Chapter F
Managing accounts
The Accounts tab is for administrators. It is where physicians and laboratory staff are registered and managed. No one signs up on their own.
Where The Accounts tab · administrators only
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Figure F1. Accounts (administrators only).
What the numbers mean
- Register a user — name, username, email and role (physician or laboratory).
- Register and email — creates the account and emails a one-time link (72 hours).
- The account list — everyone registered, with role, two-factor, status and last sign-in.
- Row actions — resend link, reset password, change role, reset two-factor (lost device), or disable.
Chapter G
Quick reference
Form sections at a glance
Sections 1–6 are the physician's; 7–8 are the laboratory's.
| Section | Completed by | Covers |
|---|---|---|
| 1 · Requesting physician | Physician | Name, institution, department, email and phone. |
| 2 · Patient information | Physician | Index patient: name, MRN, National ID / Iqama, DOB, sex, affected status. |
| 3 · Original genomic test | Physician | Previous test (WES/WGS), analysis configuration, original lab, report date, previous findings, family members. |
| 4 · Reason for reanalysis | Physician | Reasons (tick all that apply) and the rationale. |
| 5 · Family information & attachments | Physician | New family info, segregation, family details, and four attachment slots. |
| 6 · Updated clinical information | Physician | Updated clinical summary, HPO checklist (209 terms), additional HPO. |
| 7 · Laboratory triage | Laboratory | Index / other IDs, documents received, raw-data status, final decision, notes. |
| 8 · Readiness checklist | Laboratory | Auto-computed readiness; Approved marks the case Reanalysis Ready. |
Request statuses
| Status | Meaning | Who acts next |
|---|---|---|
| Draft | Saved but not submitted. | Physician finishes and submits. |
| Awaiting triage | Submitted; not reviewed yet. | Laboratory triages the request. |
| Awaiting raw data | Accepted; pending the genomic raw data. | Laboratory / data team. |
| Approved | Accepted for reanalysis. | Laboratory runs the case. |
| Returned | More information needed. | Physician edits and resubmits. |
| Rejected | Not accepted (reason in the email). | — |
Buttons & actions
| Control | Where | What it does |
|---|---|---|
| Save progress | Request form | Saves a private draft to the register so you can finish later. |
| Submit request | Request form | Sends the request to the laboratory and locks the form. |
| New request | Requests | Starts a fresh form. |
| Check | §7 · Raw data | Files a raw-data request ticket for the data team. |
| Save triage | §7 / §8 | Records the triage and emails the decision (when it changes). |
| Edit & resubmit | A Returned request | Physician revises the answers and sends them back. |
| Edit answers | Open request · lab | Laboratory corrects a submission; the change is logged. |
| Release report | Open request · lab | Uploads the final PDF and emails the physician it is ready. |
| Register and email | Accounts · admin | Creates an account and emails a one-time set-password link. |
Chapter H
Troubleshooting
| What you see | Likely cause | What to do |
|---|---|---|
| “Invalid username or password”. | Wrong username or password. | Usernames are not emails. If forgotten, contact the laboratory to have it reset. |
| The 6-digit code is rejected. | The code expired or was mistyped. | Enter the current code (it changes every 30 seconds). Still failing? Re-enter your password to get a fresh attempt. |
| Can't sign in after changing phone. | Two-factor is tied to the old device. | Ask the laboratory to switch two-factor off; sign in with your password and set it up again. |
| The invitation link doesn't work. | It was already used, or is older than 72 hours. | Ask the laboratory to resend the link. |
| Submit request does nothing. | A mandatory field (*) is empty. | Fill every field marked *; the form flags the ones that are missing. |
| My draft isn't in the register. | It was never saved — answers were kept only in this browser. | Open the form and use Save progress. Drafts are private to you until you submit. |
| I can't see sections 7–8. | They are laboratory-only. | Physicians don't fill triage; the laboratory completes it after your request arrives. |
| No decision email arrived. | The decision hasn't changed, or the email on file is wrong. | Email sends only when the decision changes. Check spam, and confirm your email with the laboratory. |
| Save triage is blocked. | Returned or Rejected was chosen without decision notes. | Enter decision notes — they are quoted to the physician. |
| The connection dot is not green. | The link to the request store dropped. | Check your network and reload; don't submit until it shows Connected. |
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