1. PUBLISHED ARTICLES


26.

M. N. Gondal, A. Rehman, A Arif, M. U. Sultan, H. A. Awan, Z. Arshad, M. F. A. Chaudhary, W. Ahmed, R Hussain, H. Khawar, S. Khan, B. Amina, R. N. Butt, F. Abbas, M. N. Jami, R. Akbar, Z. Nasir, O. S. Shah, H. Hameed, M. F. A. Butt, M. M. Ahmad, M. A. Talal, S. Ahmed, F. Ahmed, O. Ishaq, S. W. Nabi, W. Vanderbauwhede, B. Wajid, H. Shehwana, E. Uddin, M. Safdar, I. Javed, M. Tariq, A. Faisal, and S. U. Chaudhary,* "TISON: a Next-generation Multi-scale Modeling Theatre for in silico Systems Oncology", (In Preparation)

Pre-print [Link]

 

 

25.

 

A. Sabir¥, Z. Nasir¥, Z. Khalid¥, H. M. Salman, M. F. Khalid, M. B. Khalid, F. Arshad, K. Iman, M. U. Ashraf, A. Tahir, H. G. Ejaz, S. A., S. H. Liaqat, H. Khawar, R. Hussain, A. Rehman, N. Javaid, M. Saleem, S. N. Arshad, S. Mirza, N. Nisar, S. Sikander, Z. Ahmad, M. Abubakar, S. Hamera, A. Bashir, B. Wajid, M. Tariq, and S. U. Chaudhary*"Profiling microbial and heavy metal contamination of Hudiara drain and its adjoining areas in Lahore, Pakistan". (In Preparation)

 

 

 

24.

F. Ahmad, Z. Saghir, S. U. Chaudhary*, S. Bashir*, "Causality Mapping in Schizophrenia Patients using Resting-State fMRI Reveals Aberrant Functional and Causal Connectivity in the Brain". (In Preparation)

Preprint: [BiorXiv] 

   

23.

K. Iman, K. Kwon, S. H. Kim, K. H. Park, M. Hur, Y. S. Cho, H. S. Kim, S. U. Chaudhary*, J. S. Yoo*, "De novo-based Complementary Ion Search (COINS) Algorithm for Enhanced Proteoform Identification and Characterization in Top-Down Proteomics", Bioinformatics. (In Review)

 

SCImago Journal & Country Rank

22.

M. N. Gondal, S. U. Chaudhary*, "Navigating Multi-scale Cancer Systems Biology towards Model-driven Personalized Therapeutics", Frontiers in Oncology. (In Review)

Preprint: [BiorXiv]

 

SCImago Journal & Country Rank

21.

 

A. Z. Abbasi, M. Bilal, G. Khurshid, C. Yiotis, I. Zeb, J. Hussain, A. Baig, M. M. Shah, S. U. Chaudhary, B. Osborne*, R. Ahmad*, "Expression of Cyanobacterial Genes Enhanced CO2 Assimilation and Biomass Production in Transgenic Arabidopsis thaliana", PeerJJul. 2021. [I.F. 2.98], [Link]

 

SCImago Journal & Country Rank

20.

 

M. N. Gondal, R. N. Butt, O. S. Shah, U. Sultan, G. Mustafa, Z. Nasir, R. Hussain, H. Khawar, M. Tariq, A. Faisal, and S. U. Chaudhary*, "A personalized therapeutics approach using an in silico Drosophila Patient Model reveals optimal chemo- and targeted therapy combinations for colorectal cancer". Frontiers in Oncology, 11 (692592), Jul. 2021. [I.F. 6.2], [Link]

Preprint: [BiorXiv]

* Paper appeared in the "Special Issue" on "Combinatorial Approaches for Cancer Treatment: from Basic to Translational Research".

 

SCImago Journal & Country Rank

19.

M. T. Akhtar*, M. Samar, A. A. Shami, M. W. Mumtaz, H. Mukhtar, A. Tahir, S. Shahzad-ul-Hussan, S. U. Chaudhary, and U. Kaka*"1H-NMR-based metabolomics: An integrated approach for the detection of adulteration in chicken, mutton, beef and donkey meats", Molecules, Vol. 26, Issue 15, 4643,  Jun. 2021. [I.F. 4.4], [Link]

* Paper appeared in the "Special Issue" on "NMR-based Metabolomics".

 

SCImago Journal & Country Rank

18.

 

M. F. Khalid, K. Iman, A. Ghafoor, M. Saboor, A. Ali, U. Muaz, A. R. Basharat, T. Tahir, M. Abubakar, M. A. Akhter, W. Nabi, W. Vanderbauwhede, F. Ahmad, B. Wajid, S. U. Chaudhary*, "PERCEPTRON - An open-source GPU-accelerated proteoform identification pipeline for top-down proteomics", Nucleic Acids Research, 49(W1), pp 510-515, May 2021. [I.F. 16.9], [Link]

 

SCImago Journal & Country Rank

17.

 

A. Ambreen, A. Khalid, S. Z. H. Naqvi, A. Tahir, M. Mustafa, S. U. Chaudhary, S. Mirza, T. Mustafa*, "Host Biomarkers for Monitoring Therapeutic Response in Extra-Pulmonary Tuberculosis", Cytokine, Vol. 142, No. 155499, Jun. 2021. [I.F. 3.8], [Link]

 

SCImago Journal & Country Rank

16.

 

N. Javaid, Q. Sultana, K. Rasool, S. Gandra, F. Ahmad, S. U. ChaudharyS. Mirza*, "Trends in antimicrobial resistance amongst invasive pathogens in Pakistan (2011-2015): A retrospective cross-sectional study", PLOS One, Apr. 2021. [I.F. 3.2], [Link]

Preprint: [ResearchSquare]

 

SCImago Journal & Country Rank

15.

M. U. Ashraf, H. M. Salman, M. F. Khalid, M. H. F. Khan, S. Anwar, S. Afzal, I. Khan, S. U. Chaudhary*"CRISPR-Cas13a Mediated Targeting of Hepatitis C Virus Internal-Ribosomal Entry Site (IRES) as an Effective Antiviral Strategy", Biomedicine & Pharmacotherapy, Vol. 136, No. 111239, Apr. 2021. [I.F. 6.5], [Link]

 

SCImago Journal & Country Rank

14.

A. Tahir, P. J. Martinez, F. Ahmad, S. P. Fisher-Hoch, J. L. Gay, S. Mirza*, S. U. Chaudhary*, "An Evaluation of Lipid Profile and Pro-inflammatory Cytokines as Determinants of Cardiovascular Disease in Diabetics", Scientific Reports - Nature, Vol. 11, No. 2435, Jan. 2021. [I.F. 4.38], [Link]

 

SCImago Journal & Country Rank

13.

G. Khurshid, A. Z. Abbassi, M. F. Khalid, M. N. Gondal, T. A. Naqvi, M. M. Shah, S. U. Chaudhary*, R. Ahmad*, "An integrated model of cyanobacterial decarboxylation and C3 photosynthetic pathways to bypass photorespiration for enhancing photosynthesis", Scientific Reports - Nature, Vol. 10, No. 20879, Nov. 2020. [I.F. 4.38], [Link]

 

 

 

 

SCImago Journal & Country Rank

 

12. 

 

A. R. Basharat, K. Iman, Z. Bibi, R. Hussain, H. G. Kabir, A. Shahid, M. Humayun, H. A. Hayat, M. Mustafa, M. Shoaib, Z. Ullah, S. Zarina, S. Ahmed, E. Uddin, S. Hamera,  F. Ahmad, S. U. Chaudhary*, "SPECTRUM - A MATLAB Toolbox for Identifying Proteins from Top-down Proteomics Data", Scientific Reports - Nature, Vol. 9, No. 11267, Jun. 2019. [I.F. 4.38], [Link]

 

SCImago Journal & Country Rank

11.

M. U. Ashraf♱, K. Iman♱, M. F. Khalid, H. M. Salman, T. Shafi, M. Rafi, N. Javaid, R. Hussain, F. Ahmad, S. Shahzad-ul-Hussan, S. Mirza, M. Shafiq, S. Afzal, M. Idrees, S. Hamera, S. Anwar, R. Qazi, S. A. Qureshi, S. U. Chaudhary*, "Evolution of Efficacious Pan-Genotypic HCV Therapies", Medicinal Research Reviews, Vol. 39, Issue 3, pp. 1091-1136, May 2019. [I.F. 12.94], [Link]

 

SCImago Journal & Country Rank

10.

 

A. Ahsan; A. Z. Khan; H. Javed; S. Mirza; S. U. Chaudhary, S. Shahzad-ul-Hussan*, "Estimation of hepatitis C prevalence in the Punjab province of Pakistan: A retrospective study on general population", PLOS One,  Apr. 2019. [I.F. 3.2], [Link]

 

SCImago Journal & Country Rank

9.

 

N. Nisar*, K. Cheema, G. Powell, M. Bennett, S. U. Chaudhary, R. Qadri, Y. Yang, M. Azam, J. Rossiter, "Reduced metabolites of nitroaromatics are distributed in the environment via the food chain", Journal of Hazardous Materials, Vol. 355, pp. 170-179, Aug. 2018, [I.F. 7.6], [Link]

 

SCImago Journal & Country Rank

8.

O. S. Shah, M. F. A. Chaudhary, H. A. Awan, F. Fatima, Z. Arshad, A. Bibi, M. Ahmed, H. Hameed, M. Furqan, S. Khalid, A. Faisal, S. U. Chaudhary*, "ATLANTIS-Attractor Landscape Analysis Toolbox for Cell Fate Discovery & Reprogramming", Scientific Reports - Nature, Vol. 8, No. 3554, Feb. 2018. [I.F. 4.2], [Link]

 

SCImago Journal & Country Rank

7.

H. Abid, F. Ahmad*, S.-Y. Lee, H. Park, D. Im, I. Ahmed, and S. U. Chaudhary*, "An fMRI Investigation of Visual Hallucination in Human Visual Cortex", Behavioral and Brain Functions, Vol. 12, Issue 21, Nov. 2016. [I.F. 3.75], [Link]
 

* Editor's choice as a "Featured Article" for the issue

 

SCImago Journal & Country Rank

6.

S. Hamera*, Y. Yan, X. Song, S. U. Chaudhary, I. Murtaza, L. Su, M. Tariq, X. Chen*, and R. Fang*, "Expression of Cucumber mosaic virus suppressor 2b alters FWA methylation and its siRNA accumulation in Arabidopsis thaliana", Biology Open, Vol. 5, pp. 1727-1734, Sep. 2016. [I.F. 2.4], [Link]

 

SCImago Journal & Country Rank

5.

F. Ahmad*, A. Hussain, S. U. Chaudhary, I. Ahmad, S. M. Ramay,  "A Novel  Method for  Detection of Voxels for Decision Making: an fMRI Study",  International Journal of Imaging Systems and Technology, Vol. 26, Issue. 2, Jun. 2016. [I.F. 2.0], [Link]

 

SCImago Journal & Country Rank

4.

M. Ahmed, S. U. Chaudhary, A. J. Afzal*, and M. Tariq*, "Starvation-Induced Dietary Behaviour in Drosophila Melanogaster Larvae and Adults", Scientific Reports - Nature, Vol. 5, No. 14285, Sep. 2015. [I.F. 5.2], [Link]

 

SCImago Journal & Country Rank

3. 

F. Ahmad, S. U. Chaudhary, S. Kim, and H. Park*, "A Slice-wise Latent Structure Regression Method for Analysis of Functional Magnetic Resonance Imaging Data", Concepts in Magnetic Resonance Part A, Vol. 42, Issue 4, pp. 130-139, ISSN 1552-5023, Aug. 2013. [I.F. 1.1], [Link]

 

SCImago Journal & Country Rank

2.

S. U. Chaudhary, S.-Y. Shin, D. W. Lee, J.-H. Song and K.-H. Cho*, "ELECANS-An Integrated Model Development Environment for Multiscale Cancer Systems Biology", Bioinformatics, Vol. 29, Issue 7, pp. 957-959, ISSN 1460-2059 (Online),1367-4803 (Print), Apr. 2013. [I.F. 5.3], [Link]
 

* Paper also selected and featured in the World Biomedical Frontiers (ISSN: 2328-0166) due to its potentially significant impact in biomedical and cancer research. [Link]

For videos, please click: [ELECANS Videos]

 

SCImago Journal & Country Rank

 

 

 

 

 

 

 

 

 

 

1.

 

 

 

S. U. Chaudhary, S.-Y. Shin, J.-K. Won, and K.-H. Cho*, "Multi-Scale Modeling of Tumorigenesis Induced by Mitochondrial Incapacitation in Cell Death", IEEE Transactions on Biomedical Engineering, Vol. 58, Issue 10, pp. 3028-3032, ISSN 0018-9294, Oct. 2011. [I.F. 4.28], [Link]
 

* Paper appeared in the "Special Issue" on “Multi-Scale Modeling and Analysis in Computational Biology and Medicine".

 

 

SCImago Journal & Country Rank

       

2. PUBLISHED ABSTRACTS


1.  

 

 

 

 

 

K. H. Kwon, S. U. Chaudhary, M. H. Hur, S. H. Kim, H. S. Kim, and J. S. Yoo*, "Database Search Analysis using Flipped Mass Spectrum in Top-down Proteomics", Molecular and Cellular Proteomics,  Vol. HUPO2007, pp. 38, Oct. 2007. [I.F. 8.83]

 

 

 

 

 

SCImago Journal & Country Rank