IPM Positions

Senior Researcher, School of Biological Sciences (2006 - Present )

Past IPM Positions

Associate Researcher (non-resident), School of Mathematics (2005 - 2006) Associate Researcher (non-resident), School of Mathematics (2000 - 2001)

Non IPM Affiliations

Professor of Shahid Beheshti University

Research Interests

Applications of Graph Algorithms in Bioinformatics, System Biology, Precision Medicine, Graph Theory.

Related Papers

1.	S.F. Khezri, A. Ebrahimi and C. Eslahchi Target Controllability: a Feed-Forward Greedy Algorithm in Complex Networks, Meeting Kalman's Rank Condition Bioinformatics (2024),   [abstract]

2.	P. Niloofar, R. Aghdam and C. Eslahchi GAEM: Genetic Algorithm based Expectation-Maximization for inferring Gene Regulatory Networks from incomplete data Computers in Biology and Medicine 183 (2024),   [abstract]

3.	A. Darabi, S. Sobhani, R. Aghdam and C. Eslahchi AFITbin: a metagenomic contig binning method using aggregate l-mer frequency based on initial and terminal nucleotides BMC Bioinformatics (2024),   [abstract]

4.	N. Babaiha, R. Aghdam, S. Ghiam and C. Eslahchi NN-RNALoc: Neural network-based model for prediction of mRNA sub-cellular localization using distance-based sub-sequence profiles PLOS ONE (2023),   [abstract]

5.	R. Masumshah and C. Eslahchi DPSP: a multimodal deep learning framework for polypharmacy side effects prediction Bioinformatics Advances (2023),   [abstract]

6.	M. Maghsoudi, R. Aghdam and C. Eslahchi Removing the association of random gene sets and survival time in cancers with positive random bias using fixed-point gene set Scientific Reports (2023),   [abstract]

7.	S. Ghiam, C. Eslahchi, K. Shahpasand, M. Habibi-Rezaei and S. Gharaghani Identification of repurposed drugs targeting significant long non-coding RNAs in the cross-talk between diabetes mellitus and Alzheimers disease Scientific Reports (2022),   [abstract]

8.	A. Shahir Sadr, Z. Abdollahpour, A. Aliahmadi, Ch. Eslahchi, M. Nekouei, L. Kiaei, M. Kiaei and A. Ghassempour Detection of structural and conformational changes in ALS-causing mutant profilin-1 with hydrogen/deuterium exchange mass spectrometry and bioinformatics techniques Metabolic Brain Disease 37 (2022), 229-241  [abstract]

9.	Sh. Ghiam, Ch. Eslahchi, K. Shahpasand, M. Habibi-Rezaei and S. Gharaghani Exploring the role of non-coding RNAs as potential candidate biomarkers in the cross-talk between diabetes mellitus and Alzheimer’s disease Frontiers in Aging Neuroscience (2022),   [abstract]

10.	A. Emdadi and Ch. Eslahchi Clinical drug response prediction from preclinical cancer cell lines by logistic matrix factorization approach Journal of bioinformatics and computational biology 20 (2022),   [abstract]

11.	M. Taheri-Ledari, A. Zandieh, S. P. Shariatpanahi and Ch. Eslahchi Assignment of structural domains in proteins using diffusion kernels on graphs BMC Bioinformatics 23 (2022), 369   [abstract]

12.	Sh. Ghiam, Ch. Eslahchi, K. Shahpasand, M. Habibi-Rezaei and S. Gharaghani Identification of repurposed drugs targeting significant long non-coding RNAs in the cross-talk between diabetes mellitus and Alzheimer’s disease Scientific Reports 12 (2022), 18332  [abstract]

13.	A. Shahir Sadr, Z. Abdollahpour, A. Aliahmadi, C. Eslahchi, M. Nekouei, L. Kiaei, M. Kiaei and A. Ghassempour Detection of structural and conformational changes in ALS-causing mutant profilin-1 with hydrogen/deuterium exchange mass spectrometry and bioinformatics techniques Metabolic Brain Disease (2021),   [abstract]

14.	R. Masumshah, R. Aghdam and C. Eslahchi A neural network‑based method for polypharmacy side efects prediction BMC Bioinformatics 22 (2021),   [abstract]

15.	A. Shahir Sadr, C. Eslahchi, A. Ghassempour and M. Kiaei In silico studies reveal structural deviations of mutant profilin-1 and interaction with riluzole and edaravone in amyotrophic lateral sclerosis Scientific Reports 11 (2021), 1-14  [abstract]

16.	F. Ahmadi Moughari and C. Eslahchi A computational method for drug sensitivity prediction of cancer cell lines based on various molecular information Plos One 16 (2021),   [abstract]

17.	F. Yassayee and C. Eslahchi Predicting Anti-Cancer Drug Response by Finding Optimal Subset of Drugs Bioinformatics (Accepted) [abstract]

18.	N. Rohani and C. Eslahchi Classifying Breast Cancer Molecular Subtypes using Deep Clustering Approach Frontiers in Genetics (Preprint) [abstract]

19.	N. Rohani, F. Ahmadi Moughari and C. Eslahchi DisCoVering potential candidates of RNAi-based therapy for COVID-19 using computational methods PeerJ 10.7717/peerj.10505 (2021),   [abstract]

20.	S. H. Mahmoodi, R. Aghdam and C. Eslahchi An order independent algorithm for inferring gene regulatory network using quantile value for conditional independence tests Scientific Reports 11 (2021), 1-15  [abstract]

21.	A. Emdadi and C. Eslahchi Auto-HMM-LMF: feature selection based method for prediction of drug response via autoencoder and hidden Markov model BMC Bioinformatics (2021), 1-22  [abstract]

22.	A. Emdadi and Ch. Eslahchi DSPLMF: A Method for Cancer Drug Sensitivity Prediction Using a Novel Regularization Approach in Logistic Matrix Factorization Frontiers in Genetics 11 (2020), 75  [abstract]

23.	F. Ahmadi Moughari and Ch. Eslahchi ADRML: anticancer drug response prediction using manifold learning Scientific Reports 10 (2020), 1-18  [abstract]

24.	N. Rohani, C. Eslahchi and A. Katanforoush ISCMF: Integrated similarity-constrained matrix factorization for drug–drug interaction prediction Network Modeling Analysis in Health Informatics and Bioinformatics 9 (2020), 1-8 https://doi.org/10.1007/s13721-019-0215-3  [abstract]

25.	F. Yassaee Meybodi, A. Emdadi, A. Rezvan and C. Eslahchi CAMND: Comparative analysis of metabolic network decomposition based on previous and two new criteria, a web based application Biosystems 189 (2020), https://doi.org/10.1016/j.biosystems.2019.104081  [abstract]

26.	E. Saberi Ansari, Ch. Eslahchi, M. Rahimi, L. Geranpayeh, M. Ebrahimi, R. Aghdam and G. Kerdivel Significant Random Signatures Reveals New Biomarker for Breast Cancer BMC Medical Genomics 12 (2019), https://doi.org/10.1186/s12920-019-0609-1  [abstract]

27.	S. M. Razavi, F. Rami, S. H. Razavi and Ch. Eslahchi TOPDRIVER: the novel identifier of cancer driver genes in Gastric cancer and Melanoma Applied Network Science 4 (2019), https://doi.org/10.1007/s41109-019-0200-x  [abstract]

28.	N. Rohani and Ch. Eslahchi Drug-Drug Interaction Predicting by Neural Network Using Integrated Similarity Scientific Reports 9 (2019), 1 - 11 DOI https://doi.org/10.1038/s41598-019-50121-3  [abstract]

29.	Ch. Eslahchi, A. M. Ali Maddi, F. Ahmadi Moughari and M. M. Balouchi CDAP: An Online Package for Evaluation of Complex Detection Methods Scientific Reports 9 DOI https://doi.org/10.1038/s41598-019-49225-7 (2019), 1-13   [abstract]

30.	A. Emdadi, F. Ahmadi Moughari, F. Yassaee Meybodi and Ch. Eslahchi A novel algorithm for parameter estimation of Hidden Markov Model inspired by Ant Colony Optimization Heliyon 5 (2019), https://doi.org/10.1016/j.heliyon.2019.e01299  [abstract]

31.	E. Mirzaei Mehrabad, R. Hassan Zadeh and C. Eslahchi PMLPR: A novel method for predicting subcellular localization based on recommender systems Scientific Reports 1 (2018), 8  [abstract]

32.	N. Sammaknejad, H. Pouretemad, C. Eslahchi, A. Salahirad and A. Alinejad Gender Classification Based on Eye Movements: A Processing Effect during Passive Face Viewing Journal Advances in Cognitive Psychology 13 (2017), 232-240  [abstract]

33.	A. Maddi and C. Eslahchi Discovering overlapped protein complexes from weighted PPI networks by removing inter-module hubs Scientific Reports doi:10.1038/s41598-017-03268-w (2017), 7: 3247  [abstract]

34.	R. Khosrowabadi, M. Sadeghi, F. Bakouie, H. Mahdavi, C. Eslahchi and H. Pouretemad Screening of autism based on task-free fMRI using graph theoretical approach Psychiatry Research: Neuroimaging 10.1016/j.pscychresns.2017.02.004 (2017), 48-56  [abstract]

35.	R. Aghdam. , M. Alijanpour. , M. Azadi. , A. Ebrahimi. , C. Eslahchi. and A. Rezvan. Inferring Gene Regulatory Networks by PCA-CMI Using Hill Climbing Algorithm Based on MIT Score and SORDER Method Int. J. Biomath. DOI: 10.1142/S1793524516500406 (2016), 18  [abstract]

36.	R. Aghdam, M. Ganjali. , P. Niloofar. and C. Eslahchi. Inferring gene regulatory networks by an order independent algorithm using incomplete data sets J. Appl. Statist. DOI:10.1080/02664763.2015.1079307 (2016), 1-21  [abstract]

37.	R. Aghdam. , M. Ganjali. , X. Zhang. and C. Eslahchi. CN: A Consensus Algorithm for Inferring Gene Regulatory Networks Using SORDER Algorithm and Conditional Mutual Information Test Molecular BioSystems DOI: 10.1039/C4MB00413B (2015), 942-949  [abstract]

38.	H. Poormohammadi, C. Eslahchi and R. Tusserkani TripNet: A Method for Constructing Rooted Phylogenetic Networks from Rooted Triplets Plos One (2014), http://dx.doi.org/10.1371/journal.pone.0106531  [abstract]

39.	A. Rezvan. , S. A. Marashi. and C. Eslahchi. FCDECOMP: Decomposition of metabolic networks based on flux coupling relations Bioinformatics and Computational Biology 12 (2014), 21  [abstract]

40.	R. Aghdam. , M. Ganjali. and C. Eslahchi. A Hybrid Algorithm for Inferring Gene Regulatory Networks Iranian Statistical Conference( In: ) [abstract]

41.	H. Poormohammadi. , C. Eslahchi. and R. Tusserkani. TripNet: A Method for Constructing Rooted Phylogenetic Networks from Triplets Plos One 9 (2014), 1-12  [abstract]

42.	R. Aghdam. , M. Alijanpour. , M. Azadi. , A. Ebrahimi. and C. Eslahchi. Applying a Hybrid Method based on PC algorithm-based approach and MIT Score to Infer Gene Regulatory Networks Iranian Conference on Bioinformatics (Accepted) [abstract]

43.	R. Hassanzadeh. , C. Eslahchi. and W. Sung. Do Triplets Have Enough Information to Construct the Multi-Labeled Phylogenetic Tree? Plos One DOI: 10.1371/journal.pone.0103622 (2014),   [abstract]

44.	C. Eslahchi. , H.R. Maimani. , R. Torabi. and R. Tuserkani. Proper nearly perfect sets in graphs Ars Combinatoria (Accepted) [abstract]

45.	C. Eslahchi. , H.R. Maimani. , R. Torabi. and R. Tuserkani. Dynamical 2-domination in graphs Ars Combinatoria (Accepted) [abstract]

46.	R. Aghdam. , M. Ganjali. and C. Eslahchi. IPCA-CMI: An algorithm for Inferring Gene Regulatory Networks Based on a Combination of PCA-CMI and MIT Score Plos One 9 (2014), e92600  [abstract]

47.	E. S. Ansari. , H. Pezeshk. , M. Sadeghi. and C. Eslahchi. ProDomAs; Protein Domain Assignment Algorithm using Centre-Based Clustering and Independent Dominating Set Proteins: Structure, Function and Bioinformatics 82 (2014), 1937â??1946  [abstract]

48.	C. Eslahchi. and E. S. Ansari. A New Protein Domain Assignment Algorithm Communications in Mathematical and Computer Chemistry 71 (2014), 445-456  [abstract]

49.	V.Rezaei. , S. Naghizadeh. , H. Pezeshk. , M. Sadeghi. and C. Eslahchi. Comparison of the bidirectional Baum-Welch algorithm and the Baum-Welch algorithm on regular lattice Progress in Biological Sciences 2 (2013), 14-22  [abstract]

50.	C.Eslahchi. Discovering domain mediating protein interactions IRANIAN JOURNAL of BIOTECHNOLOGY 1 (2013), 22-31  [abstract]

51.	V.Rezaei. , H. Pezeshk. , M. Sadeghi. and C. Eslahchi. Assignment Of Protein Sequences To Protein Family Profiles Using Spatial Statistics. MATCH Communication in Methematical and in Computer Chemistry 69 (2013), 7-24  [abstract]

52.	G. Taheri. , M. Habibi. , L. Wong. and C. Eslahchi. Disruption of Protein Complexes Bioinformatics and Computational Biology 11 (2013),   [abstract]

53.	G. Taheri. , M. Ayati. , S. Arab. , L. Wong. and C. Eslahchi. Two Scenarios for Overcoming Drug Resistance by Co-Targeting Bioinformatics Research and Applications (2013), 198 - 202  [abstract]

54.	Z. Safikhani. , M. Sadeghi. , H. Pezeshk. and C. Eslahchi. SSP: An interval integer linear programming for de novo transcriptome assembly and isoform discovery of RNA-seq reads Genomics 102 (2013), 507-514  [abstract]

55.	R. Aghdam. , H. Pezeshk. , S.A. Malekpour. , S. Shemehsavar. , M. Sadeghi. and C. Eslahchi. A Clustering Approach for Estimating Parameters of a Profle Hidden Markov Model International Journal of Data Mining and Bioinformatics 8 (2012), 66-82  [abstract]

56.	C. Eslahchi. and F. Movahedi. Calculation Of Transition Probabilities In The Birth And Death Markov Process In The Epidemic Model Math. Comput. Model 55 (2012), 810-815  [abstract]

57.	R. Hassanzadeh. , C. Eslahchi. and W. K. Sung. Constructing Phylogenetic Supernetworks Based On Simulated Annealing Molecular Phylogenetics and Evolution 63 (2012), 738-744  [abstract]

58.	C. Eslahchi. , R. Hassanzadeh. , E. Mottaghi. , M. Habibi. , H. Pezeshk. and M. Sadeghi. Constructing Circular Phylogenetic Networks From Weighted Quartets Using Simulated Annealing Mathematical Biosciences 235 (2012), 123-127  [abstract]

59.	H. Poormohammadi. and C. Eslahchi. Constructing Rooted Phylogenetic Networks From Triplets Based On Height Function Emerging Technology and Advanced Engineering 2 (2012), 389-393  [abstract]

60.	A. Ebrahimi. , R. Aghdam. , N. Parisa. , M. ganjali. and C. Eslahchi. An Algorithm for Inference of Gene Networks UsingBayesian Network Emerging Trends in Computing and information Science 5 (2012), 774-782  [abstract]

61.	M. Habibi. , C. Eslahchi. , H. Pezeshk. and M. Sadeghi. An Information Theoretic Approach To Secondary Structure Assignment MATCH Communications in Mathematical and in Computer Chemistry 65 (2011), 5-20  [abstract]

62.	C. Eslahchi. , A. Katanforoush. , H. Pezeshk. and N. Afzaly. Haplotype Block Partitioning And TagSNP Selection Under The Perfect Phylogeny Model IRANIAN JOURNAL of BIOTECHNOLOGY 9 (2011),   [abstract]

63.	S.Arab. , C. Eslahchi. , M. Sadeghi. , H. Pezeshk. and A. Sheari. A Pairwise Residue Contact Area-Based Mean Force Potential For Discrimination Of Native Protein Structure BMC Bioinformatics 11 (2010), 16  [abstract]

64.	H. Pezeshk. , S. Naghizadeh. , S. A. Malekpour. , C. Eslahchi. and M. Sadeghi. A Modified Bidirectional Hidden Markov Model And Its Application In Protein Secondary Structure Prediction Proceeding of the Second International Conference on Advanced Computer Control 3 (2010), 535-538  [abstract]

65.	C. Eslahchi. , M. Habibi. , R. Hassanzadeh. and E. Mottaghi. MC-Net: A Method For The Construction Of Phylogenetic Networks Based On The Monte-Carlo Method BMC Evolutionary Biology 10 (2010), 254  [abstract]

66.	M. Habibi. , C. Eslahchi. , M. Sadeghi. and H. Pezeshk. The Interpretation Of Protein Structures Based On Graph Theory And Contact Map Open Access Bioinformatics 2 (2010), 127-137  [abstract]

67.	M. Habibi. , C. Eslahchi. and L. Wong. A Protein Complex Prediction Based On K-Connected Sub-Graphs In Protein Interaction Network BMC Systems Biology 4 (2010), 129  [abstract]

68.	M. Sadeghi. , H. Pezeshk. , C. Eslahchi. , S. Ahmadian. and S. Mah Abadi. Construction Of Random Perfect Phylogeny Matrix Advances and Applications in Bioinformatics and Chemistry 3 (2010), 89-96  [abstract]

69.	M. Ayati. , G. Taheri. , S. Arab. , L. Wong. and C. Eslahchi. Overcoming Drug Resistance By Co-Targeting Bioinformatics & Biomedicine (2010), 198-202  [abstract]

70.	C. Eslahchi. , H. Pezeshk. , M. Sadeghi. , P. Giabbanelli. , F. Movahedi. and V.A. Dabbaghian. A Probabilistic Model For The Spread Of HIV Infection Among Injection Drug Users World Journal of Modelling and Simulation 6 (2010), 267-273  [abstract]

71.	R. Aghdam. , H. Pezeshk. , S.A. Malekpour. , S. Shemehsavar. , M. Sadeghi. and C. Eslahchi. A Bidirectional Bayesian Monte Carlo Approach For Estimating Parameters Of A Profile Hidden Markov Model Applied Science Segment 1 (2010),   [abstract]

72.	Ch. Eslahchi (Joint with M. Sadeghi, H. Pezeshk, S. Ahmadian, and S. Mah Abadi) Construction of random perfect phylogeny matrix Advances and Applications in Bioinformatics and Chemistry 3 (2010), 89-96  [abstract]

73.	H. Mirzaei. , S. Ahmadian. , S. Mahabadi. , M. Sadeghi. , C. Eslahchi. and H. Pezeshk. An Algorithm for Construction of All Perfect Phylogeny Matrices MATCH Communication in Methematical and in Computer Chemistry 62 (2009), 251  [abstract]

74.	M. Mirzaie. , C. Eslahchi. , H. Pezeshk. and M. Sadeghi. A distance-dependent atomic knowledge based potential and force for discrimination of native structures from decoys Proteins: Structure, Function and Bioinformatics 77 (2009), 454-463  [abstract]

75.	S. A. Malekpour. , S. Naghizadeh . , H. Pezeshk. , M. Sadeghi. and C. Eslahchi. Protein secondary structure prediction using three neural networks and a segmental semi Markov model Mathematical Biosciences 217 (2009), 145-150  [abstract]

76.	C. Eslahchi. , H. Pezeshk. , M. Sadeghi. , A. M. Rahimi. , H. Maboudi Afkham. and S. Arab. STON: Anovel method for protein three-dimensional structure comparison Computers in Biology and Medicine 39 (2009), 166-172  [abstract]

77.	M. Kargar. , H. Poormohammadi. , L. Pirhaji. , M. Sadeghi. , H. Pezeshk. and C. Eslahchi. Enhanced Evolutionary And Heuristic Algorithms For Haplotype Reconstruction Problem Using Minimum Error Correction Model Match 62 (2009), 261-274  [abstract]

78.	C. Eslahchi. , H. Pezeshk. , M. Sadeghi. and A. S. Attar. LIBRA: A de Novo Motif Finding In Promoter Sequences Based On Linear Algebra. Proceedings of world Academy of Science Engineering and Technology 37 (2009), 507-512  [abstract]

79.	M. Mirzaie. , C. Eslahchi. , H. Pezeshk. and M. Sadeghi. A Distance Dependent Atomic Knowledge Based Potential And Force For Discrimination Of Native Structures From Decoys Protein Journal 77 (2009), 454-463  [abstract]

80.	S. A. Malekpour. , S. Naghizadeh. , H. Pezeshk. , M. Sadeghi. and C. Eslahchi. A Segmental Semi Markov Model For Protein Secondary Structure Prediction Mathematical Biosciences 221 (2009), 130-135  [abstract]

81.	L. Pirhaji. , M. Kargar. , A. Sheari. , H. Poormohamadi. , M. Sadeghi. , H. Pezeshk. and C. Eslahchi. The Performance Of Chi-Square Test And Complexity Measures For Signal Recognition In Biological Sequences Journal of Theoretical Biology 251 (2008), 380-387  [abstract]

82.	A. Sheari. , M. Kargar. , A. Katanforoush. , S. Arab. , M. Sadeghi. , H. Pezeshk. , C. Eslahchi. and S. A. Marashi. A Tale of two Symmetrical Tails: Structural and Functional Charateristics of Palindroms in Proteins BMC Bioinformatics 9 (2008), 274  [abstract]

83.	M. Habibi. , C. Eslahchi. , H. Pezeshk. and M. Sadeghi. An Information Theoritical Approch To Secondary Structure Assignment Iran. Int. J. Sci. 34 (2008), 41-48  [abstract]

84.	S. Naghizadeh. , H. Pezeshk. , M. Sadeghi. , M. Mohammadzadeh. and C. Eslahchi. A MODIFICATION ON A LEFT-TO-RIGHT AND RIGHT-TO-LEFT DEPENDENCY MODEL FOR SECONDARY STRUCTURE PREDICTION Iran. Int. J. Sci. 34 (2008), 61-66  [abstract]

85.	S. R. Hosseini. , M. Sadeghi. , H. Pezeshk. , C. Eslahchi. and M. Habibi. PROSIGN: A Method for Protein Secondary Structure Assignment Based on Three-Dimensional Coordinates of Cosecutive Ca atoms Computational Biology and Chemistry 32 (2008), 406-411  [abstract]

86.	C. Eslahchi. , M. Sadeghi. , H. Pezeshk. , M. Kargar. and H. Poormohammadi. Haplotyping Problem, A Clustering Approach AIP 936 (2007), 185-190  [abstract]

87.	C. Eslahchi. , M. Sadeghi. , H. Pezeshk. , M. Kargar. and H. Poormohamadi. American Institute of Physics Conference Proceedings AIP CONF PROC 936 (2007),   [abstract]

88.	S. Arab. , F. Didehvar. , C. Eslahchi. and M. Sadeghi. Helix Segment Assignment In Proteins Using Fuzzy Logic IRANIAN JOURNAL of BIOTECHNOLOGY 5 (2007), 93-99  [abstract]

89.	Ch. Eslahchi and A. M. Rahimi Some properties of ordered hypergraphs Mat. Vesnik 59 (2007), 9-13  [abstract]

90.	H. Hajiabolhassan, M. Ghebleh and Ch. Eslahchi Some concepts in list coloring J. Combin. Math. Combin. Comput. 41 (2002), 151-160  [abstract]

91.	A. J. W. Hilton, Ch. Eslahchi and J. K. Dugdale The Hall-Condition index of a graph and overfull conjecture J. Combin. Math. Combin. Comput. 35 (2000), 197-216  [abstract]

92.	A. J. W. Hilton, Ch. Eslahchi and P. D. Johnson Jr. Progress on the Hall-Number-Two Problem Australas. J. Combin. 21 (2000), 211-236  [abstract]

93.	Ch. Eslahchi and M.L. Mehrabadi Characterization of graphs with Hall index 2 Australas. J. Combin. 21 (2000), 13-21  [abstract]

94.	Ch. Eslahchi, H. Hajiabolhassan, M.L. Mehrabadi and R. Tusserkani A counterexample for Hilton-Johnson's conjecture on list-coloring of graphs Australas. J. Combin. 18 (1998), 127-131  [abstract]