MicroarrayDesigner: an online search tool and repository for near-optimal microarray experimental designs. - Ahmet Sacan; Nilgun Ferhatosmanoglu; Hakan Ferhatosmanoglu (BMC Bioinform., 2009)

Vector space search engines that maximise expected user utility. - Nilgun Ferhatosmanoglu; Theodore T. Allen; Guadalupe Canahuate (Int. J. Math. Oper. Res., 2009)

LineKing: Crowdsourced Line Wait-Time Estimation Using Smartphones. - Muhammed Fatih Bulut; Yavuz Selim Yilmaz; Murat Demirbas; Nilgun Ferhatosmanoglu; Hakan Ferhatosmanoglu (MobiCASE, 2012)

Mitigating bias in planning two-colour microarray experiments. - Nilgun Ferhatosmanoglu; Theodore T. Allen; Ümit V. Çatalyürek (Int. J. Data Min. Bioinform., 2015)

Incorporating Explanatory Effects of Neighbour Airports in Forecasting Models for Airline Passenger Volumes. - Nilgun Ferhatosmanoglu; Betul Macit (ICORES, 2016)

Forecasting Flight Delays Using Clustered Models Based on Airport Networks. - Mehmet Güvercin; Nilgun Ferhatosmanoglu; Bugra Gedik (IEEE Trans. Intell. Transp. Syst., 2021)