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Background  Sudan falls in the meningitis belt where most global cases of bacterial meningitis are reported. Highly accurate decision support tools have been developed by international specialized societies to guide the diagnosis and limit unnecessary hospital admissions and prolonged antibiotic use that have been frequently reported from countries around the world. The goals of this study are to critically evaluate the clinical decision of bacterial meningitis in children in Sudan using clinical prediction rules and to identify the current bacterial aetiology.    Methods  This cross-sectional hospital-based study was conducted in October to July of 2010 in a major referral pediatric hospital in Khartoum, Sudan. Febrile children age 1 day to 15 years who were provisionally diagnosed as having meningitis on admission were included ( n  = 503). Cerebrospinal fluid (CSF) specimens were obtained from all patients while clinical and demographic data were available for only 404. Conventional laboratory investigations were performed. The clinical decision was evaluated by the International Classification of Diseases–Clinical Modification code 320.9 and the Bacterial Meningitis Score. Ethical clearance and permissions were obtained.    Results  Out of 503 provisionally diagnosed bacterial meningitis patients, the final clinical confirmation was assigned to 55.9%. When codes were applied; 5.7% (23/404) with CSF pleocytosis were re-classified as  High Risk  for bacterial meningitis and 1.5% (6/404) with confirmed bacterial aetiology as  Proven Bacterial Meningitis. Neisseria meningitidis  was identified in 0.7% (3/404) and  Streptococcus pneumoniae  in another 0.7%. Typical laboratory findings (i.e. CSF pleocytosis and/or low glucose and high protein concentrations, Gram positive or Gram negative diplococcic, positive bacterial culture) were seen in 5 (83%). Clinically, patients showed fever, seizures, chills, headache, vomiting, stiff neck and bulging fontanelle. All confirmed cases were less than 5 years old and were admitted in summer. All patients were prescribed with antibiotics; they were all recovered and discharged.    Conclusions  Bacterial meningitis is over-diagnosed in hospitals in Khartoum therefore clinical prediction rules must be adopted and applied to guide the clinical decision. The sole bacterial aetiology in this selected group of Sudanese children remain  N. meningitidis  and  S. pneumoniae , but with significant decrease in prevalence. Some cases showed atypical clinical and laboratory findings.    Electronic supplementary material  The online version of this article (10.1186/s12887-019-1684-3) contains supplementary material, which is available to authorized users.

Bacterial meningitis in Sudanese children; critical evaluation of the clinical decision using clinical prediction rules