| --- |
| license: cc-by-nc-3.0 |
| task_categories: |
| - image-segmentation |
| tags: |
| - medical |
| - ct |
| - lung |
| - nsclc |
| - lung-cancer |
| - tumor-segmentation |
| - gtv |
| - inter-observer |
| - radiotherapy |
| - dicom |
| - tcia |
| pretty_name: NSCLC-Radiomics-Interobserver1 |
| size_categories: |
| - n<1K |
| dataset_info: |
| features: |
| - name: patient_id |
| dtype: string |
| - name: ct_series_uid |
| dtype: string |
| - name: rt_series_uid |
| dtype: string |
| - name: num_ct_slices |
| dtype: int32 |
| - name: slice_index |
| dtype: int32 |
| - name: n_observers |
| dtype: int32 |
| - name: consensus_voxels |
| dtype: int64 |
| - name: mean_pairwise_dice |
| dtype: float32 |
| - name: obs1_voxels |
| dtype: int64 |
| - name: obs2_voxels |
| dtype: int64 |
| - name: obs3_voxels |
| dtype: int64 |
| - name: obs4_voxels |
| dtype: int64 |
| - name: obs5_voxels |
| dtype: int64 |
| - name: image |
| dtype: image |
| - name: mask |
| dtype: image |
| - name: overlay |
| dtype: image |
| - name: agreement |
| dtype: image |
| splits: |
| - name: preview |
| num_bytes: 5181371 |
| num_examples: 21 |
| download_size: 5201009 |
| dataset_size: 5181371 |
| configs: |
| - config_name: default |
| data_files: |
| - split: preview |
| path: data/preview-* |
| --- |
| |
| # NSCLC-Radiomics-Interobserver1 |
|
|
| Multiple-delineation **inter-observer / inter-method variability** study of |
| gross-tumour-volume (GTV) contouring on pre-treatment thoracic CT of |
| non-small-cell lung cancer (NSCLC). For each tumour, **five radiation |
| oncologists** independently delineated the GTV **twice** — once **manually** |
| (`vis`) and once **auto-segmentation-assisted then edited** (`auto`) — giving up |
| to **10 GTV delineations per patient**. The collection exists specifically to |
| quantify contouring variability, so **there is no single gold-standard mask** by |
| design; all delineations are retained. |
|
|
| > ⚠️ **This is NOT the main NSCLC-Radiomics ("Lung1", n=422) collection.** |
| > It is the separate *Interobserver1* sub-collection (22 patients) from the same |
| > Maastricht/Dana-Farber radiomics programme. It is also distinct from the |
| > *RIDER-LungCT-Seg* test/retest arm. See "Relationship to other collections". |
|
|
| ## Dataset Details |
|
|
| | Field | Value | |
| |---|---| |
| | Modality | CT (pre-treatment, radiotherapy-planning thorax; mostly contrast-enhanced) | |
| | Body part | Thorax / lung | |
| | Task | 3D tumour (GTV) segmentation; inter-observer variability study | |
| | Patients | 22 (21 with delineations; **interobs09** is CT-only) | |
| | Series | 64 total — 22 CT, 21 RTSTRUCT, 21 DICOM SEG | |
| | CT slices | 3,844 | |
| | Observers | 5 radiation oncologists (obs **1 & 3 = trainees**; **2, 4, 5 = experienced**) | |
| | Methods | 2 per observer: `vis` (manual) and `auto` (auto-assisted + manual edit) | |
| | Format | DICOM (CT + RTSTRUCT). DICOM SEG omitted from this mirror — see below | |
| | License | **CC BY-NC 3.0 Unported** (Data Citation Required) | |
| | Source | The Cancer Imaging Archive (TCIA), official author upload | |
|
|
| This HuggingFace mirror is a **LEAN raw-DICOM** copy: it contains the **CT images |
| (`images/`)** and the **RTSTRUCT contour objects (`segmentations/`)**. The |
| collection's DICOM **SEG** objects — a rasterised duplicate of the same RTSTRUCT |
| contours — are **not** included here; RTSTRUCT carries every delineation |
| losslessly. A v3 (2020-08-31) revision of the original collection fixed an |
| inadvertent label mismatch between the DICOM SEG and RTSTRUCT objects; this |
| mirror was downloaded after that fix (REST API serves the current version). |
|
|
| ## Annotation structure (RTSTRUCT ROI names) |
|
|
| Each patient's RTSTRUCT encodes the delineations in its ROI names: |
|
|
| | ROI name pattern | Meaning | |
| |---|---| |
| | `GTV-1vis-{1..5}` | **Primary/index tumour**, **manual** delineation by observer 1–5 — present for **all 21** annotated patients | |
| | `GTV-1auto-{1..5}` | Primary tumour, **auto-assisted** delineation by observer 1–5 (20/21; `interobs19` has none) | |
| | `GTV-2{vis|auto}-{1..5}` | **Second tumour** (multi-lesion patients only); observer coverage varies | |
| | `suv2,5` / `suv_2.5` | Auxiliary PET SUV-2.5 threshold auto-contour (not an observer delineation) | |
| | `treshold0,34` / `treshhold0,34` / `tresh_34%` | Auxiliary PET 34%-SUVmax threshold auto-contour | |
| | `treshold-pr` / `treshold-ln` | Auxiliary PET threshold contour (primary / lymph node) | |
|
|
| The auxiliary PET-threshold ROIs are part of the original radiotherapy-planning |
| structure sets but are **not** the manual observer delineations and should be |
| excluded from inter-observer analyses. |
|
|
| ## Recommended ground truth |
|
|
| Because the study is about variability, **all observer delineations are kept**. |
| For benchmarking that needs a single reference mask, the recommended default is |
| the **STAPLE consensus of the five manual delineations of the index tumour** |
| (`GTV-1vis-1` … `GTV-1vis-5`) — a principled probabilistic consensus across all |
| five experts, using the pure-manual (not auto-assisted) contours, available for |
| every annotated patient. Individual per-observer (`vis`/`auto`) contours remain |
| available in the RTSTRUCT for variability studies; second-tumour (`GTV-2*`) and |
| PET-threshold ROIs are present but excluded from the default reference. |
|
|
| ## Relationship to other collections |
|
|
| - **NSCLC-Radiomics ("Lung1", n=422)** — *different cohort*. Interobserver1 |
| PatientIDs use the `interobsNN` namespace (e.g. `interobs01`), disjoint from |
| Lung1's `LUNG1-xxx`, and use a different CT protocol (contrast-enhanced |
| RT-planning vs. Lung1 non-contrast). No ID-level collision. Still, dedup by |
| `PatientID` / `SeriesInstanceUID` before any joint benchmark. |
| - **RIDER-LungCT-Seg** — the test/retest arm of the same parent radiomics |
| programme; potential shared provenance if both are used together. |
| - `series_to_patient.json` preserves `PatientID`, `SeriesInstanceUID`, |
| `StudyInstanceUID`, `Modality`, and per-series metadata for cross-referencing. |
|
|
| ## Structure |
|
|
| ``` |
| images/<PatientID>/<SeriesInstanceUID>/*.dcm # 22 CT series |
| segmentations/<PatientID>/<SeriesInstanceUID>/*.dcm # 21 RTSTRUCT (Modality=RTSTRUCT) |
| series_to_patient.json # per-series metadata + cross-ref IDs |
| ``` |
|
|
| `PatientID` ranges over `interobs01` … `interobs33` (non-contiguous). Each |
| RTSTRUCT references its source CT series via |
| `ReferencedFrameOfReferenceSequence → RTReferencedStudySequence → |
| RTReferencedSeriesSequence → SeriesInstanceUID`. |
|
|
| ## Splits |
|
|
| The collection does not prescribe train/val/test splits. |
|
|
| ## Source |
|
|
| - TCIA collection: https://www.cancerimagingarchive.net/collection/nsclc-radiomics-interobserver1/ |
| - DOI: `10.7937/tcia.2019.cwvlpd26` |
| - Fully public — no registration required. |
|
|
| ## Citation |
|
|
| ```bibtex |
| @misc{wee2019nsclcinterobserver1, |
| author = {Wee, Leonard and Aerts, Hugo J. W. L. and Kalendralis, Petros and Dekker, Andre}, |
| title = {Data From NSCLC-Radiomics-Interobserver1 [Data set]}, |
| year = {2019}, |
| publisher = {The Cancer Imaging Archive}, |
| doi = {10.7937/tcia.2019.cwvlpd26} |
| } |
| |
| @article{kalendralis2020fair, |
| author = {Kalendralis, Petros and Shi, Zhenwei and Traverso, Alberto and others}, |
| title = {FAIR-compliant clinical, radiomics and DICOM metadata of RIDER, |
| interobserver, Lung1 and head-Neck1 TCIA collections}, |
| journal = {Medical Physics}, |
| volume = {47}, |
| number = {11}, |
| pages = {5931--5940}, |
| year = {2020}, |
| doi = {10.1002/mp.14322} |
| } |
| |
| @article{aerts2014decoding, |
| author = {Aerts, Hugo J. W. L. and Velazquez, Emmanuel Rios and Leijenaar, Ralph T. H. and others}, |
| title = {Decoding tumour phenotype by noninvasive imaging using a |
| quantitative radiomics approach}, |
| journal = {Nature Communications}, |
| volume = {5}, |
| pages = {4006}, |
| year = {2014}, |
| doi = {10.1038/ncomms5006} |
| } |
| |
| @article{clark2013tcia, |
| author = {Clark, Kenneth and Vendt, Bruce and Smith, Kirk and others}, |
| title = {The Cancer Imaging Archive (TCIA): Maintaining and Operating a |
| Public Information Repository}, |
| journal = {Journal of Digital Imaging}, |
| volume = {26}, |
| number = {6}, |
| pages = {1045--1057}, |
| year = {2013}, |
| doi = {10.1007/s10278-013-9622-7} |
| } |
| ``` |
|
|
