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Background: Chlorinated paraffins (CPs) are contaminants ubiquitously detected in environmental samples, and reports addressing CPs in human samples are expanding. While CP exposure was suggested to impair kidney function by in vivo/in vitro experiments, epidemiological evidence is lacking. Objective: To examine the associations between serum total short-chain CP and medium-chain CP concentrations (∑SCCPs and ∑MCCPs) with human kidney function. Methods: The study samples were obtained from 387 participants living in Jinan, North China. We quantified ∑SCCPs and ∑MCCPs in serum samples and evaluated the kidney function of included subjects by estimated glomerular filtration rate (eGFR). The associations between serum ∑SCCPs, ∑MCCPs and eGFR were estimated using multivariable linear regression and logistic regression. The possible gender-dependent effects were studied by stratified analysis. Results: After adjusting for age, education, smoking status, drinking status, body mass index (BMI), family history of chronic kidney disease (CKD), fasting serum glucose, systolic blood pressure and diastolic blood pressure, higher concentrations of serum ∑SCCPs and ∑MCCPs were associated with higher male eGFR (β = 3.13 mL/min/1.73 m2 per one ln-unit increase of serum ∑SCCPs, 95%CI: 1.72, 4.54, p = 0.016; β = 3.52 mL/min/1.73 m2 per one ln-unit increase of serum ∑MCCPs, 95%CI: 1.89, 5.17, p = 0.011). Associations between serum ∑SCCPs, ∑MCCPs and female eGFR were null. Comparing higher (above the median serum CP levels) vs. lower exposure groups, serum ∑SCCPs and ∑MCCPs were associated with an elevated risk of glomerular hyperfiltration (GH, eGFR ≥ 135 mL/min/1.73 m2), which was associated with glomerular damage and represented as an early stage of chronic kidney disease (OR = 2.98; 95% CI: 1.24, 4.71 for SCCPs; OR = 3.25; 95% CI: 1.20, 5.29 for MCCPs). Conclusions: Our study suggests that male serum ∑SCCPs and ∑MCCPs are associated with an increased risk of GH, indicating early-stage kidney impairment.