Full Text Journal Articles by
Author Khalil Ahmed

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Identification and utilization of copy number information for correcting Hi-C contact map of cancer cell lines.

Ahmed Ibrahim Samir Khalil, Siti Rawaidah Binte Mohammad Muzaki, Anupam Chattopadhyay, Amartya Sanyal,

BACKGROUND:Hi-C and its variant techniques have been developed to capture the spatial organization of chromatin. Normalization of Hi-C contact map is essential for accurate modeling and interpretation of high-throughput chromatin conformation capture (3C) experiments. Hi-C correction tools were originally developed to normalize systematic biases of karyotypically normal cell lines. However, ... Read more >>

BMC Bioinformatics (BMC bioinformatics)
[2020, 21(1):506]

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Evaluation the effectiveness of Abridged IMNCI (7-Day) Course v standard (11-Day) Course in Pakistan

Shabina Ariff, Khalil Ahmed, Kamran Sadiq, Khadija Nuzhat, Shakeel Ahmed, Uswa Jiwani, Qamruddin Nizami, Iqtidar Khan, Nabila Ali, Sajid Bashir Soofi, Zulfiqar Bhutta,

Abstract Background: The conventional IMCI training for healthcare providers is delivered in 11 days, which can be expensive and disruptive to the normal clinical routines of the providers. An equally effective, shorter training course may address these difficulties. Methods: This was a quasi-experimental study that was conducted in two provinces ... Read more >>

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Genetic elucidation of interconnected antibiotic pathways mediating maize innate immunity.

Yezhang Ding, Philipp R Weckwerth, Elly Poretsky, Katherine M Murphy, James Sims, Evan Saldivar, Shawn A Christensen, Si Nian Char, Bing Yang, Anh-Dao Tong, Zhouxin Shen, Karl A Kremling, Edward S Buckler, Tom Kono, David R Nelson, Jörg Bohlmann, Matthew G Bakker, Martha M Vaughan, Ahmed S Khalil, Mariam Betsiashvili, Keini Dressano, Tobias G Köllner, Steven P Briggs, Philipp Zerbe, Eric A Schmelz, Alisa Huffaker,

Specialized metabolites constitute key layers of immunity that underlie disease resistance in crops; however, challenges in resolving pathways limit our understanding of the functions and applications of these metabolites. In maize (Zea mays), the inducible accumulation of acidic terpenoids is increasingly considered to be a defence mechanism that contributes to ... Read more >>

Nat Plants (Nature plants)
[2020, 6(11):1375-1388]

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Role of doxycycline, oral steroids, and nasal steroid in treatment of anosmia due to COVID-19 with the new insights into the doxycycline activity.

Parvez Husain, Shaheen Khalil Ahmed, Benazeer Husain,

Abstract Background All over the world, severe Acute Respiratory Syndrome coronavirus-2 (SARS-CoV-2) has been the most important public health issue this year; recently this was re-named as corona virus disease 2019 (COVID-19) by the World Health Organization (WHO). Olfactory or gustatory dysfunction is often reported as a symptom. Aims Aim ... Read more >>

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Methicillin-resistant Staphylococcus aureus urosepsis: A rare complication of neonatal circumcision.

Ahmed Khalil, Eiman Hamid, Khaled Siddiq, Manasik Hassan,

The role of circumcision and its benefits has received increased attention across several disciplines in recent years; however, there is increasing concern that some uncommon complications such as severe infections are being related to post-circumcision. We describe the clinical course of a 14-day-old boy who had Methicillin-resistant Staphylococcus aureus urosepsis ... Read more >>

SAGE Open Med Case Rep (SAGE open medical case reports)
[2020, 8:2050313X20966122]

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Gastrointestinal and Hepatobiliary Complications of Extensively Drug-Resistant Typhoid at a Tertiary Care Hospital in Pakistan.

Hala Mansoor, Khalil Ahmed, Samina Fida, Muhammad Uzair, Asma Asghar, Javed Iqbal,

INTRODUCTION:Typhoid fever is a major health problem in developing countries. Extensively drug-resistant (XDR) typhoid is an emerging threat to world health. The objectives of this study were to report our blood culture proven patients having XDR typhoid and compare the rate of gastrointestinal (GI) and hepatobiliary manifestations and complications of ... Read more >>

Cureus (Cureus)
[2020, 12(10):e11055]

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Correlation between E-Cadherin and Hormone Receptor Status among Breast Cancer Patients.

Anusha Hassan Ali, Ghulam Haider, Khalil Ahmed, Madiha Hashmi, Perwasha Kerio, Razia Irshad,

OBJECTIVE:To determine the association between E-cadherin expression and hormone receptors status in patients with breast cancer. STUDY DESIGN:Cross-sectional study. PLACE AND DURATION OF STUDY:Department of Medical Oncology, Jinnah Postgraduate Medical Centre, Karachi, Pakistan, from March to December 2019. METHODOLOGY:Two hundred and forty-eight women, aged 18-65 years with histologically proven diagnosis ... Read more >>

J Coll Physicians Surg Pak (Journal of the College of Physicians and Surgeons--Pakistan : JCPSP)
[2020, 30(10):1030-1034]

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Telemedicine during COVID-19: a survey of Health Care Professionals' perceptions.

Abdula Elawady, Ahmed Khalil, Omar Assaf, Samirah Toure, Christopher Cassidy,

The National Health Service (NHS) has rapidly adopted telemedicine solutions as an alternative to face-to-face consultations during the COVID-19 pandemic. The majority of HCPs (Healthcare Professionals) were unfamiliar with Telemedicine prior to the current pandemic. Remote consultation is expected to continue for the foreseeable future, thus we designed this survey. ... Read more >>

Monaldi Arch Chest Dis (Monaldi archives for chest disease = Archivio Monaldi per le malattie del torace)
[2020, 90(4):]

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Refractory Multi-inflammatory Syndrome in a two weeks old neonate with COVID-19 Treated Successfully with Intravenous Immunoglobulin, Steroids and Anakinra

Samar Magboul, Ahmed Khalil, Ahmad Alshami, Mohamed Alaido, Abdulla Alhothi, khaled Ellithy, Mohamed Al Amri, Manasik Hassan,

Abstract Background: World Health Organization (WHO) and other Health officials alert clinicians about a rare but severe inflammatory condition seen in children and linked to Corona Virus Disease 2019(COVID-19). The WHO is describing the condition as a multisystem inflammatory syndrome in children (MIS-C) and is recommending clinicians to report those ... Read more >>

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Evaluation of vancomycin initial trough levels in children: A 1-year retrospective study.

Muhammad Salem, Ahmed Khalil, Asmaa Mohamed, Ahmed Elmasoudi,

Background and objectives:Achieving vancomycin therapeutic levels is essential for antibacterial success and resistance prevention. Multiple studies have shown that most of the children fail to reach therapeutic trough levels (10-20 µg/mL). This study aims to determine the frequency of achieving therapeutic vancomycin initial trough levels in children, evaluate the effect of ... Read more >>

SAGE Open Med (SAGE open medicine)
[2020, 8:2050312120951058]

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Interactive Impact of Arbuscular Mycorrhizal Fungi and Elevated CO2 on Growth and Functional Food Value of Thymus vulgare.

Talaat H Habeeb, Mohamed Abdel-Mawgoud, Ramy S Yehia, Ahmed Mohamed Ali Khalil, Ahmed M Saleh, Hamada AbdElgawad,

Arbuscular mycorrhizal fungi (AMF) and elevated CO2 (eCO2) have been effectively integrated to the agricultural procedures as an ecofriendly approach to support the production and quality of plants. However, less attention has been given to the synchronous application of AMF and eCO2 and how that could affect the global plant ... Read more >>

J Fungi (Basel) (Journal of fungi (Basel, Switzerland))
[2020, 6(3):]

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The efficacy of colchicine in the management of coronavirus disease 2019: A protocol for systematic review and meta-analysis.

Mohamed Nabil Elshafei, Ahmed Khalil, Ahmed El-Bardissy, Mohammed Danjuma, Mohamed Badie Ahmed, Mouhand F H Mohamed,

BACKGROUND:Severe acute respiratory syndrome coronavirus 2 (SARS-COV2) infection is a recently emerged viral infection causing predominantly mild upper respiratory symptoms. However, in some instances, it might result in acute respiratory distress syndrome (ARDS) that poses a significant mortality risk. ARDS is postulated to be mediated by a surge of pro-inflammatory ... Read more >>

Medicine (Madr) (Medicine)
[2020, 99(36):e21911]

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A novel approach for assessing hypoperfusion in stroke using spatial independent component analysis of resting-state fMRI data

Jiun-Yiing Hu, Evgeniya Kirilina, Till Nierhaus, Smadar Ovadia-Caro, Michelle Livne, Kersten Villringer, Daniel Margulies, Jochen Fiebach, Arno Villringer, Ahmed Khalil,

Abstract Objective To identify, characterize, and automatically classify hypoperfusion-related changes in the blood oxygenation level dependent (BOLD) signal in acute stroke using spatial independent component analysis of resting-state functional MRI data. Methods We applied spatial independent component analysis to resting-state functional MRI data of 37 stroke patients scanned within 24 ... Read more >>

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Frequency Of Hormone Receptors And Her-2/Neu Receptor Positivity In Different Histology In Breast Cancer Patients.

Ramchandani Ravi, Ghulam Haider, Khalil Ahmed, Saima Zahoor, Abdus Sami, Ramchandani Lata,

BACKGROUND:This study was conducted to see the frequency of hormone receptors and Her-2/Neu positivity in different histology in breast cancer patients. METHODS:It was a cross-sectional study conducted at the Department of Medical Oncology, Jinnah Postgraduate Medical Centre from June 2018- March 2019. Total 373 patients of age 22-81 years of ... Read more >>

J Ayub Med Coll Abbottabad (Journal of Ayub Medical College, Abbottabad : JAMC)
[2020, 32(3):323-326]

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Normal reference ranges for fetal cardiac function: Assessed by modified Doppler myocardial performance index (Mod MPI) in the Egyptian population.

Sief Ali, Ahmed Okasha, Sherif Elsirgany, Mazen Abdel-Rasheed, Ahmed Khalil, Sherif El-Anwary, Ahmad Elsheikhah,

AIM:To develop gestational age-based reference ranges for the modified Doppler myocardial performance index (Mod MPI) and to examine the maternal characteristics that affect this measurement. METHODS:This was a cross-sectional study, comprised of 1021 healthy pregnancies between 20+0 to 35+6 weeks' gestation. They were all undergoing ultrasound examination in Cairo Fetal ... Read more >>

Eur J Obstet Gynecol Reprod Biol (European journal of obstetrics, gynecology, and reproductive biology)
[2020, 251:66-72]

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Substantial and sustained reduction in under-5 mortality, diarrhea, and pneumonia in Oshikhandass, Pakistan: evidence from two longitudinal cohort studies 15 years apart

Chelsea Hansen, Benjamin JJ McCormick, Syed Iqbal Azam, Khalil Ahmed, Julia Baker, Ejaz Hussain, Assis Jahan, Alexandra Jamison, Stacey Knobler, Nahida Samji, Wasiat Shah, David Spiro, Elizabeth Thomas, Cecile Viboud, Zeba Rasmussen,

Abstract Background: Oshikhandass is a rural village in northern Pakistan where a verbal autopsy study from 1989-1991 showed that diarrhea and pneumonia were the top causes of under-5 mortality. Intensive surveillance, active community health education and child health interventions were delivered in 1989-1996; here we assess improvements in under-5 mortality, ... Read more >>

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Protein kinase CK2 impact on intracellular calcium homeostasis in prostate cancer.

Muhammad Afzal, Betsy T Kren, A Khaliq Naveed, Janeen H Trembley, Khalil Ahmed,

Protein kinase CK2 plays multiple roles in cell function in normal and disease states. CK2 is elevated in numerous types of cancer cells, and CK2 suppression of apoptosis represents a key link to the cancer cell phenotype. CK2 regulation of cell survival and death involves diverse processes, and our previous ... Read more >>

Mol Cell Biochem (Molecular and cellular biochemistry)
[2020, 470(1-2):131-143]

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Severe Intraoperative Bradycardia during Laparoscopic Cholecystectomy due to Rapid Peritoneal Insufflation.

Mohammed Heyba, Ahmed Khalil, Yasser Elkenany,

Laparoscopy is becoming increasingly popular in gynecological and general surgical operations. There are complications that are inherent to the laparoscopy techniques; amongst them is intraoperative vagal-mediated bradycardia that results from peritoneal stretching. This can occur due to high flow rate of gas during peritoneal insufflation, a practice still happening nowadays. ... Read more >>

Case Rep Anesthesiol (Case reports in anesthesiology)
[2020, 2020:8828914]

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Message from our President.

Can Urol Assoc J (Canadian Urological Association journal = Journal de l'Association des urologues du Canada)
[2020, 14(6 Suppl 2):S21-S167]

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t-Butyl calixarene/[email protected] composite-based potentiometric sensor for determination of ivabradine hydrochloride in pharmaceutical formulations.

Fatehy M Abdel-Haleem, Eman Gamal, Mahmoud S Rizk, Rasha M El Nashar, Badawi Anis, Hussam M Elnabawy, Ahmed S G Khalil, Ahmed Barhoum,

Ivabradine hydrochloride (IVB) has shown high medical importance as it is a medication for lowering the heart rate for the symptomatic chronic heart failure and symptomatic management of stable angina pectoralis. The high dose of IVB may cause severe and prolonged bradycardia, uncontrolled blood pressure, headache, and blurred vision. In ... Read more >>

Mater Sci Eng C Mater Biol Appl (Materials science & engineering. C, Materials for biological applications)
[2020, 116:111110]

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The Effect of Scan Length on the Assessment of BOLD Delay in Ischemic Stroke.

Ayse Ceren Tanrıtanır, Kersten Villringer, Ivana Galinovic, Ulrike Grittner, Evgeniya Kirilina, Jochen B Fiebach, Arno Villringer, Ahmed A Khalil,

Objectives: To evaluate the impact of resting-state functional MRI scan length on the diagnostic accuracy, image quality and lesion volume estimation of BOLD delay maps used for brain perfusion assessment in acute ischemic stroke. Methods: Sixty-three acute ischemic stroke patients received a 340 s resting-state functional MRI within 24 h ... Read more >>

Front Neurol (Frontiers in neurology)
[2020, 11:381]

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Hierarchical discovery of large-scale and focal copy number alterations in low-coverage cancer genomes.

Ahmed Ibrahim Samir Khalil, Costerwell Khyriem, Anupam Chattopadhyay, Amartya Sanyal,

BACKGROUND:Detection of DNA copy number alterations (CNAs) is critical to understand genetic diversity, genome evolution and pathological conditions such as cancer. Cancer genomes are plagued with widespread multi-level structural aberrations of chromosomes that pose challenges to discover CNAs of different length scales, and distinct biological origins and functions. Although several ... Read more >>

BMC Bioinformatics (BMC bioinformatics)
[2020, 21(1):147]

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Opening the black box of artificial intelligence for clinical decision support: A study predicting stroke outcome.

Esra Zihni, Vince Istvan Madai, Michelle Livne, Ivana Galinovic, Ahmed A Khalil, Jochen B Fiebach, Dietmar Frey,

State-of-the-art machine learning (ML) artificial intelligence methods are increasingly leveraged in clinical predictive modeling to provide clinical decision support systems to physicians. Modern ML approaches such as artificial neural networks (ANNs) and tree boosting often perform better than more traditional methods like logistic regression. On the other hand, these modern ... Read more >>

PLoS One (PloS one)
[2020, 15(4):e0231166]

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The Frequency of Left Atrial Thrombus on Transthoracic Echocardiogram in Patients with Mitral Stenosis.

Khalil Ahmed, Aziz Rehman Memon, Hussain Liaquat, Mustajab Mujtaba, Chander Parkash, Fateh Ali Tipoo Sultan, Musa Karim,

Background Patients with mitral stenosis (MS) are more prone to develop left atrial (LA) thrombus. This cross-sectional study was conducted to determine the frequency of LA thrombus on transthoracic echocardiography (TTE) in patients with MS. Methods In this study, we included patients diagnosed with MS undergoing TTE at the echocardiography department of the National Institute ... Read more >>

Cureus (Cureus)
[2020, 12(3):e7453]

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BRAVE-NET: Fully Automated Arterial Brain Vessel Segmentation In Patients with Cerebrovascular Disease

Adam Hilbert, Vince Madai, Ela Akay, Orhun Aydin, Jonas Behland, Jan Sobesky, Ivana Galinovic, Ahmed Khalil, Abdel Taha, Jens Wuerfel, Petr Dusek, Thoralf Niendorf, Jochen Fiebach, Dietmar Frey, Michelle Livne,

Abstract Introduction Arterial brain vessel assessment is crucial for the diagnostic process in patients with cerebrovascular disease. Noninvasive neuroimaging techniques such as time-of-flight (TOF) magnetic resonance angiography (MRA) imaging are applied in the clinical routine to depict arteries. They are, however, only visually assessed. Fully automated vessel segmentation integrated into ... Read more >>

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