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1

Whole exome sequencing reveals inherited and de novo variants in autism spectrum disorder: a trio study from Saudi families

Al-Mubarak, Bashayer, Abouelhoda, Mohamed, Omar, Aisha, AlDhalaan, Hesham, Aldosari, Mohammed, Nester, Michael, Alshamrani, Hussain. A., El-Kalioby, Mohamed, Goljan, Ewa, Albar, Renad, Subhani, Shazia

Journal:

Scientific Reports

Year:

2017

Language:

english

File:

PDF, 1.80 MB

english, 2017

2

Computing the Burrows–Wheeler transform of a string and its reverse in parallel

Ohlebusch, Enno, Beller, Timo, Abouelhoda, Mohamed I.

Journal:

Journal of Discrete Algorithms

Year:

2014

Language:

english

File:

PDF, 415 KB

english, 2014

3

ALIGNMENT OF MINISATELLITE MAPS BASED ON RUN-LENGTH ENCODING SCHEME

ABOUELHODA, MOHAMED I., GIEGERICH, ROBERT, BEHZADI, BEHSHAD, STEYAERT, JEAN-MARC

Journal:

Journal of Bioinformatics and Computational Biology

Year:

2009

Language:

english

File:

PDF, 595 KB

english, 2009

4

Using the Sadakane Compressed Suffix Tree to Solve the All-Pairs Suffix-Prefix Problem

Haj Rachid, Maan, Malluhi, Qutaibah, Abouelhoda, Mohamed

Journal:

BioMed Research International

Year:

2014

Language:

english

File:

PDF, 722 KB

english, 2014

5

Clinical genomics can facilitate countrywide estimation of autosomal recessive disease burden

Abouelhoda, Mohamed, Sobahy, Turki, El-Kalioby, Mohamed, Patel, Nisha, Shamseldin, Hanan, Monies, Dorota, Al-Tassan, Nada, Ramzan, Khushnooda, Imtiaz, Faiqa, Shaheen, Ranad, Alkuraya, Fowzan S.

Journal:

Genetics in Medicine

Year:

2016

Language:

english

File:

PDF, 596 KB

english, 2016

6

A null mutation in TNIK defines a novel locus for intellectual disability

Anazi, Shams, Shamseldin, Hanan E., AlNaqeb, Dhekra, Abouelhoda, Mohamed, Monies, Dorota, Salih, Mustafa A., Al-Rubeaan, Khalid, Alkuraya, Fowzan S.

Journal:

Year:

2016

Language:

english

File:

PDF, 1.40 MB

english, 2016

7

Relative reduction of biological and phylogenetic diversity of the oral microbiota of diabetes and pre-diabetes patients

Saeb, Amr T.M., Al-Rubeaan, Khalid A., Aldosary, Khalid, Udaya Raja, G.K., Mani, Balavenkatesh, Abouelhoda, Mohamed, Tayeb, Hamsa T.

Journal:

Microbial Pathogenesis

Year:

2019

Language:

english

File:

PDF, 3.00 MB

english, 2019

8

IonCRAM: a reference-based compression tool for ion torrent sequence files

Shokrof, Moustafa, Abouelhoda, Mohamed

Journal:

BMC Bioinformatics

Year:

2020

File:

PDF, 1.89 MB

2020

9

Correction to: IonCRAM: a reference-based compression tool for ion torrent sequence files

Shokrof, Moustafa, Abouelhoda, Mohamed

Journal:

BMC Bioinformatics

Year:

2020

File:

PDF, 791 KB

2020

10

A linear time algorithm for the inversion median problem in circular bacterial genomes

Enno Ohlebusch, Mohamed I. Abouelhoda, Kathrin Hockel

Journal:

Journal of Discrete Algorithms

Year:

2007

Language:

english

File:

PDF, 275 KB

english, 2007

11

Replacing suffix trees with enhanced suffix arrays

Mohamed Ibrahim Abouelhoda, Stefan Kurtz, Enno Ohlebusch

Journal:

Journal of Discrete Algorithms

Year:

2004

Language:

english

File:

PDF, 425 KB

english, 2004

12

Chaining algorithms for multiple genome comparison

Mohamed Ibrahim Abouelhoda, Enno Ohlebusch

Journal:

Journal of Discrete Algorithms

Year:

2005

Language:

english

File:

PDF, 270 KB

english, 2005

13

A fast algorithm for the multiple genome rearrangement problem with weighted reversals and transpositions

Martin Bader, Mohamed I Abouelhoda, Enno Ohlebusch

Journal:

BMC Bioinformatics

Year:

2008

Language:

english

File:

PDF, 353 KB

english, 2008

14

WAMI: a web server for the analysis of minisatellite maps

Mohamed Abouelhoda, Mohamed El-Kalioby, Robert Giegerich

Journal:

BMC Evolutionary Biology

Year:

2010

Language:

english

File:

PDF, 977 KB

english, 2010

15

Tavaxy: Integrating Taverna and Galaxy workflows with cloud computing support

Mohamed Abouelhoda, Shadi Alaa Issa, Moustafa Ghanem

Journal:

BMC Bioinformatics

Year:

2012

Language:

english

File:

PDF, 1.52 MB

english, 2012

16

A hybrid method for the exact planted (l, d) motif finding problem and its parallelization

Mostafa M Abbas, Mohamed Abouelhoda, Hazem M Bahig

Journal:

BMC Bioinformatics

Year:

2012

Language:

english

File:

PDF, 358 KB

english, 2012

17

Personalized cloud-based bioinformatics services for research and education: use cases and theelasticHPCpackage

Mohamed El-Kalioby, Mohamed Abouelhoda, Jan Krüger, Robert Giegerich…

Journal:

BMC Bioinformatics

Year:

2012

Language:

english

File:

PDF, 761 KB

english, 2012

18

[ACM Press the 1st International Workshop - Indianapolis, Indiana (2010.06.06-2010.06.06)] Proceedings of the 1st International Workshop on Workflow Approaches to New Data-centric Science - Wands '10 - Meta-workflows

Abouelhoda, Mohamed, Alaa, Shady, Ghanem, Moustafa

Year:

2010

Language:

english

File:

PDF, 787 KB

english, 2010

19

[IEEE 2012 Cairo International Biomedical Engineering Conference (CIBEC) - Giza, Egypt (2012.12.20-2012.12.22)] 2012 Cairo International Biomedical Engineering Conference (CIBEC) - Efficient alignment of next generation sequencing data using MapReduce on the cloud

AlSaad, Rawan, Malluhi, Qutaibah, Abouelhoda, Mohamed

Year:

2012

Language:

english

File:

PDF, 246 KB

english, 2012

20

Parallelizing exact motif finding algorithms on multi-core

Abbas, Mostafa M., Bahig, Hazem M., Abouelhoda, Mohamed, Mohie-Eldin, M. M.

Journal:

The Journal of Supercomputing

Year:

2014

Language:

english

File:

PDF, 2.11 MB

english, 2014

21

[IEEE 2014 Middle East Conference on Biomedical Engineering (MECBME) - Doha, Qatar (2014.02.17-2014.02.20)] 2nd Middle East Conference on Biomedical Engineering - A space-efficient solution to find the maximum overlap using a compressed suffix array

Rachid, Maan Haj, Malluhi, Qutaibah, Abouelhoda, Mohamed

Year:

2014

Language:

english

File:

PDF, 328 KB

english, 2014

22

[IEEE 2014 Middle East Conference on Biomedical Engineering (MECBME) - Doha, Qatar (2014.02.17-2014.02.20)] 2nd Middle East Conference on Biomedical Engineering - Cloud-based parallel suffix array construction based on MPI

Abdelhadi, Ahmed, Kandil, A. H., Abouelhoda, Mohamed

Year:

2014

Language:

english

File:

PDF, 245 KB

english, 2014

23

[IEEE 2010 5th Cairo International Biomedical Engineering Conference (CIBEC 2010) - Cairo (2010.12.16-2010.12.18)] 2010 5th Cairo International Biomedical Engineering Conference - Parallel suffix sorting based on bucket pointer refinement

Mohamed, H, Abouelhoda, M

Year:

2010

Language:

english

File:

PDF, 147 KB

english, 2010

24

[IEEE 2009 IEEE International Conference on Cluster Computing and Workshops - New Orleans, LA, USA (2009.08.31-2009.09.4)] 2009 IEEE International Conference on Cluster Computing and Workshops - WinBioinfTools: Bioinformatics tools for Windows cluster

Mohamed, Hisham, Abouelhoda, Mohamed

Year:

2009

Language:

english

File:

PDF, 134 KB

english, 2009

25

Association of a Mutation in LACC1 With a Monogenic Form of Systemic Juvenile Idiopathic Arthritis

Wakil, Salma M., Monies, Dorota M., Abouelhoda, Mohamed, Al-Tassan, Nada, Al-Dusery, Haya, Naim, Ewa A., Al-Younes, Banan, Shinwari, Jameela, Al-Mohanna, Futwan A., Meyer, Brian F., Al-Mayouf, Sulaima

Journal:

Arthritis & Rheumatology

Year:

2015

Language:

english

File:

PDF, 583 KB

english, 2015

26

[IEEE ICASSP 2013 - 2013 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP) - Vancouver, BC, Canada (2013.05.26-2013.05.31)] 2013 IEEE International Conference on Acoustics, Speech and Signal Processing - Estimation of the myocardium rotation from standard cine Magnetic Resonance Imaging sequences

Ahmed, Amro, Abouelhoda, Mohamed, Khalifa, Ayman, Fahmy, Ahmed S.

Year:

2013

Language:

english

File:

PDF, 535 KB

english, 2013

27

New insight into HCV E1/E2 region of genotype 4a

Hussein, Nehal, Zekri, Abdel-Rahman N, Abouelhoda, Mohamed, Alam El-din, Hanaa M, Ghamry, Ahmed, Amer, Mahmoud A, sherif, Ghada M, Bahnassy, Abeer A

Journal:

Virology Journal

Year:

2014

Language:

english

File:

PDF, 2.09 MB

english, 2014

28

[IEEE 2014 IEEE International Parallel & Distributed Processing Symposium Workshops (IPDPSW) - Phoenix, AZ, USA (2014.5.19-2014.5.23)] 2014 IEEE International Parallel & Distributed Processing Symposium Workshops - Extracting Maximal Exact Matches on GPU

Abu-Doleh, Anas, Kaya, Kamer, Abouelhoda, Mohamed, Catalyurek, Umit V.

Year:

2014

Language:

english

File:

PDF, 392 KB

english, 2014

29

Expanding Phenotypic and Allelic Heterogeneity of Tricho-Hepato-Enteric Syndrome

Monies, Dorota M., Rahbeeni, Zuhair, Abouelhoda, Mohamed, Naim, Ewa A., Al-Younes, Banan, Meyer, Brian F., Al-Mehaidib, Ali

Journal:

Journal of Pediatric Gastroenterology & Nutrition

Year:

2015

Language:

english

File:

PDF, 212 KB

english, 2015

30

Streaming Support for Data Intensive Cloud-Based Sequence Analysis

Issa, Shadi A., Kienzler, Romeo, El-Kalioby, Mohamed, Tonellato, Peter J., Wall, Dennis, Bruggmann, Rémy, Abouelhoda, Mohamed

Journal:

BioMed Research International

Year:

2013

Language:

english

File:

PDF, 1.78 MB

english, 2013

31

Identification of a novel MKS locus defined by TMEM107 mutation

Shaheen, Ranad, Almoisheer, Agaadir, Faqeih, Eissa, Babay, Zainab, Monies, Dorota, Tassan, Nada, Abouelhoda, Mohamed, Kurdi, Wesam, Al Mardawi, Elham, Khalil, Mohamed M.I., Seidahmed, Mohammed Zain, A

Journal:

Human Molecular Genetics

Year:

2015

Language:

english

File:

PDF, 569 KB

english, 2015

32

Unbiased targeted next-generation sequencing molecular approach for primary immunodeficiency diseases

Al-Mousa, Hamoud, Abouelhoda, Mohamed, Monies, Dorota M., Al-Tassan, Nada, Al-Ghonaium, Abdulaziz, Al-Saud, Bandar, Al-Dhekri, Hasan, Arnaout, Rand, Al-Muhsen, Saleh, Ades, Nazema, Elshorbagi, Sahar,

Journal:

Journal of Allergy and Clinical Immunology

Year:

2016

Language:

english

File:

PDF, 235 KB

english, 2016

33

CoCoNUT: an efficient system for the comparison and analysis of genomes

Abouelhoda, Mohamed I, Kurtz, Stefan, Ohlebusch, Enno

Journal:

BMC Bioinformatics

Year:

2008

Language:

english

File:

PDF, 1.12 MB

english, 2008

34

Confirming the candidacy of THOC6 in the etiology of intellectual disability

Anazi, Shamsa, Alshammari, Muneera, Moneis, Dorota, Abouelhoda, Mohamed, Ibrahim, Niema, Alkuraya, Fowzan S.

Journal:

American Journal of Medical Genetics Part A

Year:

2016

Language:

english

File:

PDF, 319 KB

english, 2016

35

A first-line diagnostic assay for limb-girdle muscular dystrophy and other myopathies

Monies, Dorota, Alhindi, Hindi N., Almuhaizea, Mohamed A., Abouelhoda, Mohamed, Alazami, Anas M., Goljan, Ewa, Alyounes, Banan, Jaroudi, Dyala, AlIssa, Abdulelah, Alabdulrahman, Khalid, Subhani, Shazi

Journal:

Year:

2016

Language:

english

File:

PDF, 349 KB

english, 2016

36

Revisiting the morbid genome of Mendelian disorders

Abouelhoda, Mohamed, Faquih, Tariq, El-Kalioby, Mohamed, Alkuraya, Fowzan S.

Journal:

Year:

2016

Language:

english

File:

PDF, 407 KB

english, 2016

37

[IEEE 2016 8th Cairo International Biomedical Engineering Conference (CIBEC) - Cairo, Egypt (2016.12.15-2016.12.17)] 2016 8th Cairo International Biomedical Engineering Conference (CIBEC) - Distributed suffix array construction algorithms: Comparison of two algorithms

Metwally, Ahmed A., Kandil, Ahmed H., Abouelhoda, Mohamed

Year:

2016

Language:

english

File:

PDF, 4.57 MB

english, 2016

38

[IEEE 2016 8th Cairo International Biomedical Engineering Conference (CIBEC) - Cairo, Egypt (2016.12.15-2016.12.17)] 2016 8th Cairo International Biomedical Engineering Conference (CIBEC) - Visualization of multiple experiment gene set analysis

Ali, Ahmed, Abouelhoda, Mohamed

Year:

2016

Language:

english

File:

PDF, 8.28 MB

english, 2016

39

MC-GenomeKey: a multicloud system for the detection and annotation of genomic variants

Elshazly, Hatem, Souilmi, Yassine, Tonellato, Peter J., Wall, Dennis P., Abouelhoda, Mohamed

Journal:

BMC Bioinformatics

Year:

2017

Language:

english

File:

PDF, 1.48 MB

english, 2017

40

The landscape of genetic diseases in Saudi Arabia based on the first 1000 diagnostic panels and exomes

Monies, Dorota, Abouelhoda, Mohamed, AlSayed, Moeenaldeen, Alhassnan, Zuhair, Alotaibi, Maha, Kayyali, Husam, Al-Owain, Mohammed, Shah, Ayaz, Rahbeeni, Zuhair, Al-Muhaizea, Mohammad A., Alzaidan, Hama

Journal:

Year:

2017

Language:

english

File:

PDF, 545 KB

english, 2017

41

[IEEE 2017 Fourth International Conference on Advances in Biomedical Engineering (ICABME) - Beirut (2017.10.19-2017.10.21)] 2017 Fourth International Conference on Advances in Biomedical Engineering (ICABME) - The emerging field of clinical Bioinformatics: Infrastructure, analytical tools, and knowledge bases

Abouelhoda, Mohamed

Year:

2017

Language:

english

File:

PDF, 212 KB

english, 2017

42

Clinical heterogeneity of PLA2G6-related Parkinsonism: analysis of two Saudi families

Bohlega, Saeed A., Al-Mubarak, Bashayer R., Alyemni, Eman A., Abouelhoda, Mohamed, Monies, Dorota, Mustafa, Abeer E., Khalil, Dania S., Al Haibi, Sara, Abou Al-Shaar, Hussam, Faquih, Tariq, El-Kalioby

Journal:

BMC Research Notes

Year:

2016

Language:

english

File:

PDF, 1.37 MB

english, 2016

43

Genome sequencing and analysis of the first spontaneous Nanosilver resistant bacterium Proteus mirabilis strain SCDR1

Saeb, Amr T. M., Al-Rubeaan, Khalid A., Abouelhoda, Mohamed, Selvaraju, Manojkumar, Tayeb, Hamsa T.

Journal:

Antimicrobial Resistance and Infection Control

Year:

2017

Language:

english

File:

PDF, 3.00 MB

english, 2017

44

De novo truncating variants in WHSC1 recapitulate the Wolf–Hirschhorn (4p16.3 microdeletion) syndrome phenotype

Derar, Nada, Al-Hassnan, Zuhair N, Al-Owain, Mohammed, Monies, Dorota, Abouelhoda, Mohamed, Meyer, Brian F, Moghrabi, Nabil, Alkuraya, Fowzan S

Journal:

Genetics in Medicine

Year:

2018

Language:

english

File:

PDF, 506 KB

english, 2018

45

The Use of Next-Generation Sequencing in the Identification of a Fastidious Pathogen: A Lesson From a Clinical Setup

Saeb, Amr TM, Abouelhoda, Mohamed, Selvaraju, Manojkumar, Althawadi, Sahar I, Mutabagani, Maysoon, Adil, Mohammad, Al Hokail, Abdullah, Tayeb, Hamsa T

Journal:

Evolutionary Bioinformatics

Year:

2017

Language:

english

File:

PDF, 1.09 MB

english, 2017

46

Unique Features of Germline Variation in Five Egyptian Familial Breast Cancer Families Revealed by Exome Sequencing

Kim, Yeong C., Soliman, Amr S., Cui, Jian, Ramadan, Mohamed, Hablas, Ahmed, Abouelhoda, Mohamed, Hussien, Nehal, Ahmed, Ola, Zekri, Abdel-Rahman Nabawy, Seifeldin, Ibrahim A., Wang, San Ming, Chaudhur

Journal:

Year:

2017

Language:

english

File:

PDF, 1.21 MB

english, 2017

47

Novel CARMIL2 Mutations in Patients with Variable Clinical Dermatitis, Infections, and Combined Immunodeficiency

Alazami, Anas M., Al-Helale, Maryam, Alhissi, Safa, Al-Saud, Bandar, Alajlan, Huda, Monies, Dorota, Shah, Zeeshan, Abouelhoda, Mohamed, Arnaout, Rand, Al-Dhekri, Hasan, Al-Numair, Nouf S., Ghebeh, Haz

Journal:

Frontiers in Immunology

Year:

2018

Language:

english

File:

PDF, 2.74 MB

english, 2018

48

High Incidence of Severe Combined Immunodeficiency Disease in Saudi Arabia Detected Through Combined T Cell Receptor Excision Circle and Next Generation Sequencing of Newborn Dried Blood Spots

Al-Mousa, Hamoud, Al-Dakheel, Ghadah, Jabr, Amal, Elbadaoui, Fahd, Abouelhoda, Mohamed, Baig, Mansoor, Monies, Dorota, Meyer, Brian, Hawwari, Abbas, Dasouki, Majed

Journal:

Frontiers in Immunology

Year:

2018

Language:

english

File:

PDF, 815 KB

english, 2018

49

Integrated Analysis of Whole Exome Sequencing and Copy Number Evaluation in Parkinson’s Disease

Yemni, Eman Al, Monies, Dorota, Alkhairallah, Thamer, Bohlega, Saeed, Abouelhoda, Mohamed, Magrashi, Amna, Mustafa, Abeer, AlAbdulaziz, Basma, Alhamed, Mohamed, Baz, Batoul, Goljan, Ewa, Albar, Renad,

Journal:

Scientific Reports

Year:

2019

File:

PDF, 1.53 MB

2019

50

Efficient parallel implementation of the SHRiMP sequence alignment tool using MapReduce

AlSaad, Rawan, Malluhi, Qutaibah, Abouelhoda, Mohamed

Journal:

Qatar Foundation Annual Research Forum Proceedings

Year:

2012

Language:

english

File:

PDF, 120 KB

english, 2012