Lung Cancer

For analysts who are familiar with routinely collected national NHS data and provides a data dictionary, data quality and summary of methods for defining cohorts, characteristics and outcomes of lung cancer patients.

Introduction

Some text here

Stage 3 lung cancer

NSCLC TNM8 Staging

Show code

  df=read.csv("data/lung_NSCLC_TNM8_staging.csv",row.names=1,header=T,sep="\t")
  df[3:4,1] = kableExtra::cell_spec(df[3:4,1], color="black", background="#a9d18e")
  df[1:3,2] = kableExtra::cell_spec(df[1:3,2], color="black", background="#a9d18e")
  df[1:5,3] = kableExtra::cell_spec(df[1:5,3], color="red", background="#ffff00")
  df[1:5,4] = kableExtra::cell_spec(df[1:5,4], color="red", background="#ffff00")
  df[4,2]   = kableExtra::cell_spec(df[4,2],   color="red", background="#ffff00")
  df[5,1:2] = kableExtra::cell_spec(df[5,1:2], color="red", background="#ffff00")
  knitr::kable(df, booktabs=TRUE, escape=FALSE)

	N0	N1	N2	N3
T1	IA	IIB	IIIA	IIIB
T2a	IB	IIB	IIIA	IIIB
T2b	IIA	IIB	IIIA	IIIB
T3	IIB	IIIA	IIIB	IIIC
T4	IIIA	IIIA	IIIB	IIIC
M1a	IVA	IVA	IVA	IVA
M1b	IVA	IVA	IVA	IVA
M1c	IVB	IVB	IVB	IVB

Biomarker Time Points

Show code

 df=read.csv("data/lung_biomarker_time_points.csv",header=T,sep="\t")
 df %>%
   kable(booktabs=TRUE) %>%
   kable_styling() %>%
   row_spec(row=c(1,9),        color="black", background="#a9d18e") %>%
   row_spec(row=c(2:8,10:13),   color="black", background="#ffe699")

Time.Point	Reference.Date	Time.Limits
Diagnosis	diag_date_1	within 28 days
Pre-surgery	date_of_1st_surgical_treatment or date_of_first_radical_surgery(06)	within 28 days prior
Post-surgery (1)	date_of_1st_surgical_treatment or date_of_first_radical_surgery(06) + 6 months	within 42 days
Post-surgery (2)	date_of_1st_surgical_treatment or date_of_first_radical_surgery(06) + 12 months	within 42 days
Pre-radiotherapy	rsrtdate	within 28 days prior
Post-radiotherapy (1)	rcompdate	within 28 days post
Post-radiotherapy (2)	rsrtdate + 6 months	within 42 days
Post-radiotherapy (3)	rsrtdate + 12 months	within 42 days
Pre-adjuvant durvalumab	durvdat	within 28 days prior
On treated durvalumab	durvdat + 6 months	within 28 days
End of adjuvant durvalumab	durvendate	within 28 days
Progression	pd_date	within 28 days
Death	dod	within 28 days