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Publication Metadata only A distinctive stromal reaction as the herald of uncertain carcinoma foci in the peritoneal frozen sections of post-neoadjuvant gastric poorly cohesive /signet ring cell carcinomas(Elsevier Science Inc, 2023) Aktaş, Berk Kaan; Esmer, Rohat; Tezcan, Nuray; Taşkın, Orhun Çığ; Armutlu, Ayşe; Saka, Burcu; Kapran, Yersu; Gürses, Bengi; Rencüzoğulları, Ahmet; Özoran, Emre; Buğra, Dursun; Özcan, Gülnihal; Balık, Emre; Adsay, Nazmi Volkan; School of MedicineN/APublication Metadata only A family from Turkey with congenital myasthenia and hereditary(Wiley, 2023) Tezen, D.; Gündüz, A.; Demirbilek, V.; Khojakulov, Zakhiriddin; Başak, Ayşe Nazlı; Koç University Research Center for Translational Medicine (KUTTAM) / Koç Üniversitesi Translasyonel Tıp Araştırma Merkezi (KUTTAM); Graduate School of Health Sciences; School of MedicinePublication Metadata only A fatal progeroid syndrome caused by a recessive RAF1 loss-of-function mutation(Springernature, 2023) Wong, Samantha; Tan, Yu Xuan; Tan, Kiat Yi; Loh, Abigail; Ozkan, Engin; Kayserili, Hülya; Reversade, Bruno; Beillard, Nathalie Sonia Escande; School of Medicine; Koç University HospitalPublication Metadata only A potential biomarker for individuals of chronic subjective tinnitus with normal hearing: serum prestin levels(Wiley, 2023) Bulut, Erdogan; Budak, Metin; Guven, Selis Gulsevin; Atilgan, Emre; Uzun, Cem; School of MedicinePublication Metadata only A progeroid syndrome with severe osteogenesis imperfecta segregates with an intronic TAPT1 homozygous variant that creates a knockout allele(Springernature, 2023) Bressin, Annkatrin; Chia, PohHui; Traspas, Ricardo Moreno; Bonnard, Carine; Hojat, Zohreh; Drutman, Scott; Casanova, Jean-Laurent; Shboul, Mohammad; Mayor, Andreas; Nabavizadeh, Nasrinsadat; Beillard, Nathalie Sonia Escande; Reversade, Bruno; School of MedicinePublication Metadata only A retrospective cross-sectional analysis of familial adenomatous polyposis coli cases(Springernature, 2023) Yılmaz, Elanur; Börklü Yücel, Esra; Saraçoğlu, Hilal Pırıl; Balık, Emre; Avcı, Şahin; Eraslan, Serpil; Buğra, Dursun; Kayserili, Hülya; Koç University Research Center for Translational Medicine (KUTTAM) / Koç Üniversitesi Translasyonel Tıp Araştırma Merkezi (KUTTAM); Graduate School of Health Sciences; School of Medicine; Koç University HospitalPublication Metadata only A simplified grid method of camera-captured images may be a practical alternative if validated ai-assisted counting is inaccessible(Elsevier Science Inc, 2023) Adsay, David; Eren, Ozgur; Basturk, Olca; Department of Computer Engineering; Esmer, Rohat; Armutlu, Ayşe; Taşkın, Orhun Çığ; Koç, Soner; Tezcan, Nuray; Aktaş, Berk Kaan; Kulaç, İbrahim; Kapran, Yersu; Demir, Çiğdem Gündüz; Saka, Burcu; Department of Computer Engineering; School of Medicine; Graduate School of Sciences and Engineering; College of EngineeringN/APublication Metadata only Access to formal abortion services and demand for medical abortion in Turkey(Wiley, 2023) Dedeoğlu, Bilge Eylem; Atay, Hazal; Balkancı, Uğur Berkay; Gomperts, Rebecca; Sadak, Efekan; Graduate School of Social Sciences and HumanitiesObjective: To analyse perceived barriers to access to formal abortion services and the demand for medical abortion in Turkey Design: Mixed-method study Population sample: Pregnant women in Turkey who filled the consultation survey on Women on Web website between 1 January 2013 and 12 October 2020 Method: Our dataset includes anonymized responses of 620 women to the online consultation survey and anonymized email correspondences of 138 women with the WoW help desk. We conducted a cross-sectional analysis of the survey data and a content analysis of email correspondences. Main outcome measures: Perceived barriers to formal abortion services in Turkey Results: The surveyors listed various reasons for requesting an abortion; while 59.68% of them mentioned that they just cannot have a child at this point, financial constraints (49.84%), wanting to finish school (31.77%) and being too young (31.29%) were among the leading reasons. Several barriers to access to formal abortion services were reported; the most frequently cited barriers include cost (48.31%), the need to keep abortion secret from partner or family (42.69%) and unavailability of abortion pills (44.94%). Our qualitative analysis of women’s email correspondences has demonstrated some additional barriers to and concerns over the formal abortion services. These include censorship of abortion information and misinformation, denial of care, concerns over spousal consent, cost, abortion method, trust, and confidentiality. Conclusions: We conclude that despite the legal framework, abortion remains difficult to access and approach for women in Turkey due to legal barriers and concerns over formal abortion services.Publication Metadata only Add-ons in the art clinic(Oxford University Press, 2023) Pinborg, A.; Bentzen, J.; Ebner, T.; Harper, J.; Le Clef, N.; Moffett, A.; Norcross, S.; Polyzos, N. P.; Rautakallio-Hokkanen, S.; Sfontouris, I.; Sermon, K.; Vermeulen, N.; Lundin, K.; Bozdağ, Gürkan; ; School of Medicine;N/APublication Metadata only Add-ons in the art lab(Oxford University Press, 2023) Lundin, K.; Bentzen, J.; Ebner, T.; Harper, J.; Le Clef, N.; Moffett, A.; Norcross, S.; Polyzos, N. P.; Rautakallio-Hokkanen, S.; Sfontouris, I.; Sermon, K.; Vermeulen, N.; Pinborg, A.; Bozdağ, Gürkan; ; School of Medicine;N/APublication Metadata only Analysis of safety in maralixibat-treated participants with progressive familial intrahepatic cholestasis: data from MARCH-PFIC(Elsevier, 2023) Miethke, Alexander; Moukarzel, Adib; Porta, Gilda; Esquer, Joshue Covarrubias; Czubkowski, Piotr; Ordonez, Felipe; Candusso, Manila; Aqul, Amal A.; Squires, Robert H.; Sokal, Etienne; D'Agostino, Daniel; Baumann, Ulrich; D'Antiga, Lorenzo; Kasi, Nagraj; Laborde, Nolwenn; Lin, Chuan-Hao; Gilmour, Susan; Mittal, Naveen; Chiou, Fang Kuan; Horslen, Simon P.; Huber, Wolf-Dietrich; David-Feliciano, Susan; Chien, Elaine; Mogul, Douglas; Garner, Will; Nunes, Tiago; Lascau, Anamaria; Vig, Pamela; Hupertz, Vera; Gonzalez-Peralta, Regino; Ekong, Udeme; Hartley, Jane; Laverdure, Noemie; Ovchinsky, Nadia; Thompson, Richard; Arıkan, Çiğdem; School of MedicineN/APublication Metadata only Application of HLA molecular mismatch algorithms to predict primary alloimmunity risk and rejection in paediatric kidney transplantation(Springer, 2023) Kim, Jon Jin; Fichtner, Alexander; Copley, Hannah; Krupka, Kai; Pape, Lars; Toenshoff, Burkhard; Kosmoliaptsis, Vasilis; Süsal, Caner; Koç Üniversitesi Organ Nakli İmmünoloji Araştırma Mükemmeliyet Merkezi (TIREX) / Transplant Immunology Research Centre of Excellence (TIREX); School of Medicine; Koç University Hospital[No abstract available]Publication Metadata only Assessing risk of prostate cancer metastasis by deep learning in surgically-treated patients(Elsevier Science Inc, 2023) Oliveira, Lia DePaula; Erak, Eric; Mendes, Adrianna A.; Gomes-Alexandre, Carolina; Salles, Daniela; Ertunc, Onur; Baena-Del Valle, Javier; Jones, Tracy; Hicks, Jessica; Glavaris, Stephanie; Guner, Gunes; Vidal, Igor Damasceno; Han, Misop; Trock, Bruce; Joshi, Uttara; Kondragunta, Chaith; Chattopadhyay, Nilanjan; Bonthu, Saikiran; Singhal, Nitin; De Marzo, Angelo; Lotan, Tamara; Kulaç, İbrahim; School of MedicineN/APublication Metadata only Assessment of HLA incompatibility at the molecular compared to antigenic HLA level enables better prediction of graft function deterioration in paediatric kidney transplantation(Springer, 2023) Kim, Jon Jin; Fichtner, Alexander; Copley, Hannah; Susal, Caner; Krupka, Kai; Pape, Lars; Burkhard, Toenshoff; Kosmoliaptsis, Vasilis; Süsal, Caner; Koç Üniversitesi Organ Nakli İmmünoloji Araştırma Mükemmeliyet Merkezi (TIREX) / Transplant Immunology Research Centre of Excellence (TIREX); School of Medicine; Koç University Hospital[No abstract available]Publication Metadata only Association of TNF-α (-308 G/A) gene polymorphism with the changes in circulating TNF-a levels over 12 months in response to CPAP treatment in the RICCADSA cohort(American Thoracic Society, 2023) Yucel-Lindberg, T.; Behboudi, A.; Peker, Yüksel; Çelik, Yeliz; School of Medicine; Graduate School of Health SciencesPublication Metadata only Attitudes towards futile treatments, moral distress and intention to leave job in nurses(Cambridge Univ Press, 2023) Kasim, D. S.; Oflaz, Fahriye; School of NursingPublication Metadata only BioVirtualPed: a biofeedback based virtual reality game for pediatric patients(Elsevier, 2023) Sayın, A.; Dinçer, B.; Department of Electrical and Electronics Engineering; Umaç, Eyşan Hanzade; Semerci, Remziye; Gürsoy, Beren Semiz; Department of Electrical and Electronics Engineering; Graduate School of Health Sciences; School of Nursing; College of EngineeringPublication Metadata only Can endometrial compaction predict live birth/ongoing pregnancy rates in assisted reproductive technology cycles? A systematic review and meta-analysis(Oxford University Press, 2023) ; Türkgeldi, Engin; Kalafat, Erkan; Yıldız, Şule; Keleş, İpek; Ata, Mustafa Barış; Bozdağ, Gürkan; ; School of Medicine; Koç University HospitalN/APublication Metadata only Clinicopathologic correlations of urinary proteomic and metabolomic analysis in patients with renal aa amyloidosis and membranous nephropathy(Oxford Univ Press, 2023) Ozbek, Deniz Aral; Koc, Sila; Yet, Idil; Kablan, Sevilay; Uner, Meral; Lay, Incilay; Yıldırım, Tolga; Yılmaz, Seref Rahmi; Altun, Bulent; Küçük, Nazlı Ezgi Özkan; Koç University Research Center for Translational Medicine (KUTTAM) / Koç Üniversitesi Translasyonel Tıp Araştırma Merkezi (KUTTAM); ;Background and Aims AA Amyloidosis is a multisystemic amyloidosis subtype that develops on the background of various chronic inflammatory etiologies. Urinary omics studies have become a promising tool for elucidating pathophysiology and prognosis of glomerular diseases. However, no urinary omics analysis has been performed focusing on renal AA amyloidosis in literature to the best of our knowledge. Our main aim in this study is to perform a comparative urine proteomic and metabolomic analysis of recently diagnosed renal AA amyloidosis and to investigate the correlation of bioinformatic results with clinical and pathological data. Method Urine samples of 8 recently diagnosed AA amyloidosis (AA), 8 membranous nephropathy (MN) and 6 healthy control group patients were collected before kidney biopsy procedure. Proteomic analyzes were performed with nLC/Q-TOF MS/MS and metabolomic analyzes were performed by GC/MS in all patients. Biopsy specimens were scored according to glomerulosclerosis (G), tubular atrophy (TA) and interstitial fibrosis (IF) grades by two pathologists. Raw spectroscopic data was analyzed using MaxQuant and MS-DIAL programs for proteomic and metabolomic studies, respectively. Statistical analysis of the differences in molecules between study groups were performed with ANOVA and HSD-Tukey tests. Principal component (PCA) and heatmap analyzes were made in R language, while gene ontology (GO), network and functional enrichment analysis of bioinformatic results were performed with PANTHER, STRING and MetaboAnalyst databases. Results In comparison between AA and MN groups, median eGFR values tend to be lower in the AA group (67.6 vs 112 ml/min/1.73 m2 respectively, p = 0.08). Median 24-hour urine protein levels did not show statistically significant difference (9499 vs 9512 mg/day respectively, p = 0.9). Percentage of patients with moderate/severe IF/TA was higher and G score was tend to be in AA group compared to MN group (p values 0.02 and 0.07 for IF/TA and G scores, respectively). As a result of proteomic analysis, a total of 859 proteins were determined. Statistical analysis showed 51 proteins that were significantly differ in AA group compared to the control group. GO and functional enrichment analyzes showed that statistically most significant sub-domains were mainly related with cell-cell adhesion (Figure 1 & 2). In comparative analysis between AA and MN patients, uromodulin (UMOD) was lower in the AA group than in the MN group (log2FC -3.37), whereas ribonuclease 1 (RNASE1) and α-1-microglobulin/bikunin precursor protein (AMBP) were higher in the AA group (log2FC 3.41 and 3.07, respectively). In Spearman correlation analyzes, significant negative correlations were demonstrated between UMOD-proteinuria (r = -0.48, p = 0.03) and between AMBP-eGFR (r = -0.69, p = 0.003) variables. Metabolomic analysis showed 9 metabolites that were significantly different between AA and other study groups. Myo-inositol and urate were higher in AA group compared to MN group, while D-mannitol and N-acetylglutamate were higher in AA group compared to the control group. Significant positive correlation independent of GFR was detected between RNASE1 and urate (r = 0.63, p = 0.01).Publication Metadata only CN51 psychometric properties of the Turkish version of the nurse spiritual therapeutic scale for oncology patients and caregivers(Elsevier, 2023) Kudubes, Akdeniz Aslı; Uğur, Özlem.; Yasa, Yağmur; Semerci, Remziye; School of Nursing