Datasets:

electricsheepafrica
/

ssa-breast-ihc-profiles

sample_id stringlengths 16 16	population stringclasses 7 values	region stringclasses 5 values	is_SSA bool 2 classes	is_reference_panel bool 2 classes	sex stringclasses 2 values	age int64 18 90	er_status stringclasses 2 values	pr_status stringclasses 2 values	er_percent_positive float64 0 100	pr_percent_positive float64 0 100	her2_ihc_score stringclasses 4 values	her2_positive bool 2 classes	ki67_category stringclasses 3 values	ki67_percent float64 0 100	p53_pattern stringclasses 2 values	p53_aberrant bool 2 classes	egfr_status stringclasses 2 values	egfr_positive bool 2 classes	hr_status stringclasses 2 values	tnbc_like bool 2 classes
IHC_SAMPLE_00001	SSA_West	West	true	false	Female	53	Positive	Negative	70.6	0.8	2+	false	Low	5.2	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00002	SSA_West	West	true	false	Female	39	Negative	Positive	3	98	0	false	Low	18.7	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00003	SSA_West	West	true	false	Female	58	Negative	Positive	3.5	61.4	0	false	High	56.7	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00004	SSA_West	West	true	false	Female	60	Positive	Negative	63	1	2+	false	Low	5	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00005	SSA_West	West	true	false	Female	29	Negative	Negative	0	0	0	false	Intermediate	17.8	Wild_type	false	Negative	false	HR_negative	true
IHC_SAMPLE_00006	SSA_West	West	true	false	Female	36	Negative	Positive	6.7	86.7	1+	false	High	50.8	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00007	SSA_West	West	true	false	Female	51	Negative	Negative	0.9	3.7	3+	true	Low	6.9	Overexpression	true	Negative	false	HR_negative	false
IHC_SAMPLE_00008	SSA_West	West	true	false	Female	47	Positive	Positive	59.9	86.4	0	false	High	20	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00009	SSA_West	West	true	false	Female	50	Positive	Positive	80.7	89.7	3+	true	High	46.2	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00010	SSA_West	West	true	false	Female	41	Positive	Negative	76.9	2.8	3+	true	Low	13.2	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00011	SSA_West	West	true	false	Female	60	Negative	Negative	0	1	0	false	High	49.3	Wild_type	false	Negative	false	HR_negative	true
IHC_SAMPLE_00012	SSA_West	West	true	false	Female	59	Negative	Positive	0.7	76.6	0	false	High	54.6	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00013	SSA_West	West	true	false	Female	51	Negative	Positive	0	100	0	false	Low	8.6	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00014	SSA_West	West	true	false	Female	62	Positive	Positive	87.5	82.7	0	false	High	44.6	Wild_type	false	Positive	true	HR_positive	false
IHC_SAMPLE_00015	SSA_West	West	true	false	Female	55	Negative	Positive	0	86.1	2+	false	Low	6.1	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00016	SSA_West	West	true	false	Female	41	Negative	Positive	0.7	70.9	1+	false	High	64.9	Wild_type	false	Positive	true	HR_positive	false
IHC_SAMPLE_00017	SSA_West	West	true	false	Female	54	Positive	Positive	65.1	85	1+	false	Intermediate	20.9	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00018	SSA_West	West	true	false	Female	39	Positive	Positive	96.1	83.2	3+	true	Low	11.9	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00019	SSA_West	West	true	false	Female	60	Negative	Negative	0	3.5	1+	false	High	39.2	Wild_type	false	Negative	false	HR_negative	true
IHC_SAMPLE_00020	SSA_West	West	true	false	Female	49	Negative	Positive	0	91.6	3+	true	High	61.4	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00021	SSA_West	West	true	false	Female	48	Positive	Negative	76.3	0	2+	false	High	87.8	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00022	SSA_West	West	true	false	Female	43	Negative	Positive	1	81.8	1+	false	High	53.9	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00023	SSA_West	West	true	false	Female	63	Positive	Negative	74.6	2.6	0	false	Intermediate	23.4	Wild_type	false	Positive	true	HR_positive	false
IHC_SAMPLE_00024	SSA_West	West	true	false	Female	48	Negative	Negative	1.8	0	1+	false	Low	11.8	Overexpression	true	Positive	true	HR_negative	true
IHC_SAMPLE_00025	SSA_West	West	true	false	Female	45	Positive	Positive	57.7	60.8	2+	false	Intermediate	28.4	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00026	SSA_West	West	true	false	Female	46	Negative	Negative	3	8.5	3+	true	Intermediate	22.3	Overexpression	true	Positive	true	HR_negative	false
IHC_SAMPLE_00027	SSA_West	West	true	false	Female	56	Positive	Negative	88.7	2.7	1+	false	Intermediate	37.3	Wild_type	false	Positive	true	HR_positive	false
IHC_SAMPLE_00028	SSA_West	West	true	false	Female	54	Positive	Negative	65.5	0	1+	false	Low	15.9	Wild_type	false	Positive	true	HR_positive	false
IHC_SAMPLE_00029	SSA_West	West	true	false	Female	55	Negative	Positive	0	95.6	0	false	Intermediate	15.9	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00030	SSA_West	West	true	false	Female	55	Positive	Positive	78.2	86.9	1+	false	High	31.6	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00031	SSA_West	West	true	false	Female	74	Positive	Positive	82.1	72.9	0	false	High	67	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00032	SSA_West	West	true	false	Female	46	Negative	Negative	5.4	0	2+	false	High	49	Wild_type	false	Positive	true	HR_negative	false
IHC_SAMPLE_00033	SSA_West	West	true	false	Female	44	Positive	Negative	67.4	4.9	1+	false	Intermediate	24.7	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00034	SSA_West	West	true	false	Female	41	Negative	Negative	4	1.1	2+	false	Low	17.4	Overexpression	true	Negative	false	HR_negative	false
IHC_SAMPLE_00035	SSA_West	West	true	false	Female	57	Positive	Negative	56.9	0.5	1+	false	High	53.3	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00036	SSA_West	West	true	false	Female	62	Positive	Negative	86.4	0	3+	true	Intermediate	39.8	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00037	SSA_West	West	true	false	Female	49	Positive	Positive	69.2	72.6	1+	false	Low	0.6	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00038	SSA_West	West	true	false	Female	41	Negative	Positive	0	90.6	1+	false	Low	6.8	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00039	SSA_West	West	true	false	Female	41	Positive	Negative	76.2	0	0	false	Low	13.5	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00040	SSA_West	West	true	false	Female	57	Positive	Positive	87.4	68.1	1+	false	High	41.5	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00041	SSA_West	West	true	false	Female	58	Negative	Negative	2	0	1+	false	Intermediate	21	Overexpression	true	Negative	false	HR_negative	true
IHC_SAMPLE_00042	SSA_West	West	true	false	Female	56	Positive	Negative	83.4	0	0	false	Intermediate	28.7	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00043	SSA_West	West	true	false	Female	43	Negative	Positive	6.3	61.7	1+	false	Low	16.2	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00044	SSA_West	West	true	false	Female	53	Positive	Negative	94	2.6	3+	true	Intermediate	16.7	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00045	SSA_West	West	true	false	Female	51	Negative	Positive	0	60.5	2+	false	Intermediate	27.6	Wild_type	false	Positive	true	HR_positive	false
IHC_SAMPLE_00046	SSA_West	West	true	false	Female	52	Positive	Negative	73.3	3.6	1+	false	High	48.2	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00047	SSA_West	West	true	false	Female	60	Positive	Negative	94.9	3	0	false	Intermediate	31	Wild_type	false	Positive	true	HR_positive	false
IHC_SAMPLE_00048	SSA_West	West	true	false	Female	52	Positive	Positive	100	63.5	1+	false	High	46.3	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00049	SSA_West	West	true	false	Female	57	Positive	Positive	74.7	83.2	1+	false	Intermediate	15.1	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00050	SSA_West	West	true	false	Female	51	Positive	Negative	68.1	4.1	0	false	High	48.5	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00051	SSA_West	West	true	false	Female	53	Negative	Positive	4	98.9	1+	false	Intermediate	32	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00052	SSA_West	West	true	false	Female	57	Positive	Positive	75.6	86.6	3+	true	High	27	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00053	SSA_West	West	true	false	Female	34	Positive	Negative	72	2.1	2+	false	Low	4.9	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00054	SSA_West	West	true	false	Female	46	Negative	Negative	1.6	0	0	false	Intermediate	29.9	Wild_type	false	Negative	false	HR_negative	true
IHC_SAMPLE_00055	SSA_West	West	true	false	Female	45	Positive	Positive	61.4	83.4	3+	true	High	52.2	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00056	SSA_West	West	true	false	Female	43	Negative	Negative	0	5	3+	true	Low	10.8	Wild_type	false	Positive	true	HR_negative	false
IHC_SAMPLE_00057	SSA_West	West	true	false	Female	47	Negative	Positive	1.3	89	3+	true	Low	20	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00058	SSA_West	West	true	false	Female	66	Positive	Negative	74.5	2.4	0	false	High	49.9	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00059	SSA_West	West	true	false	Female	40	Positive	Negative	95.5	6.8	3+	true	Low	10.2	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00060	SSA_West	West	true	false	Female	61	Positive	Positive	84.7	75.9	0	false	High	36.4	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00061	SSA_West	West	true	false	Female	31	Positive	Negative	62.3	1.5	0	false	High	47.5	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00062	SSA_West	West	true	false	Female	46	Positive	Negative	78.8	6.2	2+	false	Low	10.5	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00063	SSA_West	West	true	false	Male	52	Positive	Positive	69.6	100	3+	true	High	28.9	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00064	SSA_West	West	true	false	Female	56	Positive	Negative	70.6	0	1+	false	High	33	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00065	SSA_West	West	true	false	Female	58	Positive	Negative	81.9	3.8	2+	false	Intermediate	26.2	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00066	SSA_West	West	true	false	Female	59	Negative	Negative	3.4	6.5	0	false	Intermediate	21.2	Overexpression	true	Positive	true	HR_negative	true
IHC_SAMPLE_00067	SSA_West	West	true	false	Female	46	Positive	Positive	81.5	84.9	0	false	Intermediate	21.3	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00068	SSA_West	West	true	false	Female	45	Positive	Negative	100	0	1+	false	High	57.3	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00069	SSA_West	West	true	false	Female	59	Positive	Negative	86.9	2	0	false	Intermediate	29.2	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00070	SSA_West	West	true	false	Female	48	Negative	Negative	0.2	0.5	0	false	High	29.8	Wild_type	false	Negative	false	HR_negative	true
IHC_SAMPLE_00071	SSA_West	West	true	false	Female	36	Negative	Negative	0	2.3	3+	true	High	64.2	Overexpression	true	Negative	false	HR_negative	false
IHC_SAMPLE_00072	SSA_West	West	true	false	Female	38	Positive	Negative	99.5	0	1+	false	High	66.1	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00073	SSA_West	West	true	false	Female	40	Positive	Positive	100	93.2	2+	false	High	54.5	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00074	SSA_West	West	true	false	Female	55	Negative	Negative	0	1.9	3+	true	High	24.5	Overexpression	true	Negative	false	HR_negative	false
IHC_SAMPLE_00075	SSA_West	West	true	false	Female	52	Positive	Positive	51.9	77.4	1+	false	High	46.4	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00076	SSA_West	West	true	false	Female	58	Positive	Positive	79.1	80.6	2+	false	High	36.7	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00077	SSA_West	West	true	false	Female	45	Negative	Positive	2.4	84.4	3+	true	Intermediate	22.4	Wild_type	false	Positive	true	HR_positive	false
IHC_SAMPLE_00078	SSA_West	West	true	false	Female	52	Positive	Positive	82.5	98.6	3+	true	High	49.8	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00079	SSA_West	West	true	false	Female	57	Positive	Negative	73.1	0	3+	true	High	34.6	Wild_type	false	Positive	true	HR_positive	false
IHC_SAMPLE_00080	SSA_West	West	true	false	Female	47	Negative	Negative	4.4	0.8	1+	false	Intermediate	30	Wild_type	false	Positive	true	HR_negative	true
IHC_SAMPLE_00081	SSA_West	West	true	false	Female	55	Positive	Negative	62	2.3	0	false	High	44.6	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00082	SSA_West	West	true	false	Female	43	Positive	Negative	89	7.3	1+	false	High	59.7	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00083	SSA_West	West	true	false	Female	46	Positive	Positive	100	100	0	false	Intermediate	34.5	Wild_type	false	Positive	true	HR_positive	false
IHC_SAMPLE_00084	SSA_West	West	true	false	Female	46	Negative	Negative	1.4	1.8	3+	true	High	55.2	Wild_type	false	Negative	false	HR_negative	false
IHC_SAMPLE_00085	SSA_West	West	true	false	Female	37	Positive	Positive	74.5	100	0	false	Intermediate	31.2	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00086	SSA_West	West	true	false	Female	55	Positive	Positive	69.8	81.2	3+	true	Intermediate	14	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00087	SSA_West	West	true	false	Female	45	Negative	Positive	0	81.4	2+	false	Intermediate	27.5	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00088	SSA_West	West	true	false	Male	50	Positive	Positive	49.1	73.2	0	false	High	53.7	Wild_type	false	Negative	false	HR_positive	false
IHC_SAMPLE_00089	SSA_West	West	true	false	Female	55	Positive	Negative	90.7	0.4	1+	false	High	60.1	Overexpression	true	Positive	true	HR_positive	false
IHC_SAMPLE_00090	SSA_West	West	true	false	Female	55	Negative	Negative	1.7	0	1+	false	Intermediate	19.7	Overexpression	true	Negative	false	HR_negative	true
IHC_SAMPLE_00091	SSA_West	West	true	false	Female	57	Negative	Negative	7	0	0	false	High	39.6	Overexpression	true	Negative	false	HR_negative	true
IHC_SAMPLE_00092	SSA_West	West	true	false	Female	49	Negative	Negative	2.7	0.3	0	false	High	49.3	Wild_type	false	Positive	true	HR_negative	true
IHC_SAMPLE_00093	SSA_West	West	true	false	Female	45	Positive	Negative	63.7	0	0	false	High	49.4	Wild_type	false	Positive	true	HR_positive	false
IHC_SAMPLE_00094	SSA_West	West	true	false	Female	49	Negative	Positive	4.7	100	1+	false	Intermediate	34.9	Wild_type	false	Positive	true	HR_positive	false
IHC_SAMPLE_00095	SSA_West	West	true	false	Female	31	Positive	Positive	81.4	95.7	0	false	High	32.3	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00096	SSA_West	West	true	false	Female	34	Negative	Negative	0	3.1	2+	false	Low	7.4	Overexpression	true	Negative	false	HR_negative	false
IHC_SAMPLE_00097	SSA_West	West	true	false	Female	35	Negative	Positive	0	72.3	2+	false	High	63.1	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00098	SSA_West	West	true	false	Female	39	Negative	Negative	0.4	0.3	1+	false	Intermediate	20.4	Overexpression	true	Positive	true	HR_negative	true
IHC_SAMPLE_00099	SSA_West	West	true	false	Female	54	Positive	Negative	70.3	0	1+	false	Intermediate	7	Overexpression	true	Negative	false	HR_positive	false
IHC_SAMPLE_00100	SSA_West	West	true	false	Female	40	Negative	Negative	3.7	5.7	1+	false	High	43.2	Wild_type	false	Positive	true	HR_negative	true

End of preview. Expand in Data Studio

SSA Breast Immunohistochemistry (IHC) Profiles Dataset (Women, Multi-ancestry, Synthetic)

Dataset summary

This dataset provides a synthetic cohort of invasive breast cancers in women across multiple ancestry groups, with emphasis on sub-Saharan Africa (SSA) and comparable reference populations.

Each tumor is characterized by a realistic panel of immunohistochemistry (IHC) markers:

Estrogen receptor (ER) and progesterone receptor (PR) expression
- Binary status (negative/positive)
- Approximate percentage of positive tumor cells (er_percent_positive, pr_percent_positive).
HER2 IHC score (0, 1+, 2+, 3+) and derived HER2-positivity flag.
Ki-67 proliferation index
- Category (Low, Intermediate, High)
- Approximate percentage of positive nuclei.
p53 expression pattern (Wild_type, Overexpression, Null) and aberrant flag.
EGFR expression (negative/positive), with higher frequencies in TNBC-enriched populations.

Distributions by population are qualitatively anchored to global and SSA-focused literature on IHC-defined subtypes, HER2 testing, Ki-67, p53, and EGFR expression, while ensuring that all records are fully synthetic.

Cohort design

Sample size and populations

Total N: 10,000 synthetic invasive breast cancers.
Populations:
- SSA_West: 2,000
- SSA_East: 2,000
- SSA_Central: 1,500
- SSA_Southern: 1,500
- AAW (African American women): 1,500
- EUR (European reference): 1,000
- EAS (East Asian reference): 500
Sex:
- Predominantly Female, with a small fraction of male breast cancers (~1%).
Age:
- 18–90 years.
- Older mean age in reference populations (EUR/EAS/AAW) relative to SSA clusters, reflecting registry trends.

IHC markers

ER and PR

Variables:

er_status, pr_status – Negative vs Positive.
er_percent_positive, pr_percent_positive – approximate percentage of tumor nuclei positive (0–100).
Derived: hr_status – HR_positive if ER or PR is positive, else HR_negative.

Anchoring:

Based on ASCO/CAP receptor testing guidelines and large IHC subtype series.
HR-positive prevalence:
- Lower and more heterogeneous in several SSA cohorts, with higher TNBC fractions.
- Higher HR-positive fractions in EUR/EAS reference cohorts.
Percentages for positive cases are centered around high values (≈70–90%), while negative cases have values close to 0, respecting the ≥1% positivity cut-off.

HER2

Variables:

her2_ihc_score – one of 0, 1+, 2+, 3+.
her2_positive – True for IHC 3+ (strong, complete membranous staining).

Anchoring:

ASCO/CAP HER2 testing guidelines and large HER2 IHC series.
HER2-positive (3+) rates targeted around 15–25% overall, with modest variation by population.
Scores 0 and 1+ represent HER2-negative disease; 2+ represents equivocal/indeterminate by IHC.

Ki-67 proliferation index

Variables:

ki67_category – Low, Intermediate, or High.
ki67_percent – approximate percentage of Ki-67–positive tumor nuclei.

Anchoring:

St Gallen consensus recommendations and cohorts stratifying Ki-67 across luminal, HER2+, and TNBC tumors.
Populations with higher proportions of aggressive or TNBC-like disease (e.g., several SSA and AAW cohorts) have higher fractions of High Ki-67, while EUR/EAS groups have more Low and Intermediate Ki-67.

p53 expression patterns

Variables:

p53_pattern – Wild_type, Overexpression, or Null.
p53_aberrant – True if pattern is Overexpression or Null.

Anchoring:

p53 IHC–mutation correlation studies in breast cancer.
Aberrant p53 patterns (overexpression or complete loss) are more frequent in triple-negative/basal-like and high-grade tumors.
SSA and AAW populations, enriched for aggressive subtypes, are modeled with higher aberrant p53 fractions compared with EUR/EAS.

EGFR expression

Variables:

egfr_status – Negative or Positive.
egfr_positive – boolean indicator.

Anchoring:

EGFR (HER1) expression series in TNBC, including African and African-descended cohorts.
EGFR positivity is substantially more frequent in TNBC-like tumors, which are more common in SSA and AAW populations.
EUR/EAS reference groups have lower EGFR-positive rates overall.

TNBC-like indicator

Derived variable:

tnbc_like – True if hr_status is HR_negative and her2_ihc_score is 0 or 1+.

This is a phenotypic approximation of triple-negative breast cancer based solely on IHC; it is not linked to underlying gene expression data in this dataset.

File and schema

`immunohistochemistry_data.parquet` / `immunohistochemistry_data.csv`

Each row represents a synthetic invasive breast cancer with demographics and IHC markers:

Demographics
- sample_id
- population
- region
- is_SSA
- is_reference_panel
- sex
- age
Primary IHC markers
- er_status, er_percent_positive
- pr_status, pr_percent_positive
- her2_ihc_score, her2_positive
- ki67_category, ki67_percent
- p53_pattern, p53_aberrant
- egfr_status, egfr_positive
Derived phenotype
- hr_status (HR-positive vs HR-negative)
- tnbc_like (approximate triple-negative phenotype)

Generation

The dataset is generated using:

immunohistochemistry/scripts/generate_immunohistochemistry.py

with configuration in:

immunohistochemistry/configs/immunohistochemistry_config.yaml

and literature inventory in:

immunohistochemistry/docs/LITERATURE_INVENTORY.csv

Key steps:

Cohort sampling – construct a multi-ancestry invasive breast cancer cohort with age and sex distributions by population.
Assign ER/PR status – sample er_status and pr_status by population; derive approximate expression percentages using different distributions for positive vs negative tumors.
Assign HER2 score – sample her2_ihc_score (0/1+/2+/3+) by population; derive her2_positive for IHC 3+.
Assign Ki-67 – sample ki67_category by population and generate ki67_percent values consistent with each category.
Assign p53 and EGFR – sample p53_pattern and egfr_status by population, with higher aberrant p53 and EGFR positivity in TNBC-enriched settings.
Derive composite markers – compute hr_status and tnbc_like based on ER/PR and HER2.

Validation

Validation is performed with:

immunohistochemistry/scripts/validate_immunohistochemistry.py

and summarized in:

immunohistochemistry/output/validation_report.md

Checks include:

C01–C02 – Sample size and population counts vs config.
C03 – ER status distributions by population.
C04 – PR status distributions by population.
C05 – HER2 IHC score distributions by population.
C06 – Ki-67 category distributions by population.
C07 – p53 pattern distributions by population.
C08 – EGFR status distributions by population.
C09 – Missingness in key variables.

The released version is configured to pass all checks within a predefined deviation threshold (10% absolute deviation for categorical distributions), yielding an overall status of PASS.

Intended use

This dataset is intended for:

Simulation and methods development in breast cancer IHC profiling across ancestries.
Integrative modeling together with other Electric Sheep Africa synthetic datasets (e.g., pathology & histology, comorbidities, environmental exposures) to construct multi-modal disease models.
Educational use in teaching IHC interpretation, subtype classification, and population differences in marker profiles.

It is not intended for:

Estimating exact prevalence of receptor-defined subtypes in any specific registry, country, or hospital.
Direct clinical decision-making, laboratory quality control, or benchmarking.

All records are synthetic and non-identifiable.

Ethical considerations

No real patient-level data are used; all tumors are algorithmically simulated.
Differences in IHC profiles between populations should be interpreted in the context of known registry and molecular epidemiology data, not as deterministic or stigmatizing characteristics.
Users should avoid over-interpreting subtle differences between populations beyond the resolution supported by the literature.

License

License: CC BY-NC 4.0.
Free for non-commercial research, methods development, and education with attribution.

Citation

If you use this dataset, please cite:

Electric Sheep Africa. "SSA Breast Immunohistochemistry (IHC) Profiles Dataset (Women, Multi-ancestry, Synthetic)." Hugging Face Datasets.

and, as appropriate, key literature on ER/PR, HER2, Ki-67, p53, and EGFR IHC in breast cancer, including studies from sub-Saharan Africa and African-descended populations.