SDCN: Synchronized Depthwise Separable Convolutional Neural Network for Single Image Super-Resolution

Muhammad, Wazir,Hussain, Ayaz,Shah, Syed Ali Raza,Shah, Jalal,Bhutto, Zuhaibuddin,Thaheem, Imdadullah,Ali, Shamshad,Masrour, Salman International Journal of Computer ScienceNetwork S 2021 International journal of computer science and netw Vol.21 No.11

Recently, image super-resolution techniques used in convolutional neural networks (CNN) have led to remarkable performance in the research area of digital image processing applications and computer vision tasks. Convolutional layers stacked on top of each other can design a more complex network architecture, but they also use more memory in terms of the number of parameters and introduce the vanishing gradient problem during training. Furthermore, earlier approaches of single image super-resolution used interpolation technique as a pre-processing stage to upscale the low-resolution image into HR image. The design of these approaches is simple, but not effective and insert the newer unwanted pixels (noises) in the reconstructed HR image. In this paper, authors are propose a novel single image super-resolution architecture based on synchronized depthwise separable convolution with Dense Skip Connection Block (DSCB). In addition, unlike existing SR methods that only rely on single path, but our proposed method used the synchronizes path for generating the SISR image. Extensive quantitative and qualitative experiments show that our method (SDCN) achieves promising improvements than other state-of-the-art methods.

LDCSIR: Lightweight Deep CNN-based Approach for Single Image Super-Resolution

Muhammad, Wazir,Shaikh, Murtaza Hussain,Shah, Jalal,Shah, Syed Ali Raza,Bhutto, Zuhaibuddin,Lehri, Liaquat Ali,Hussain, Ayaz,Masrour, Salman,Ali, Shamshad,Thaheem, Imdadullah International Journal of Computer ScienceNetwork S 2021 International journal of computer science and netw Vol.21 No.spc12

Single image super-resolution (SISR) is an image processing technique, and its main target is to reconstruct the high-quality or high-resolution (HR) image from the low-quality or low-resolution (LR) image. Currently, deep learning-based convolutional neural network (CNN) image super-resolution approaches achieved remarkable improvement over the previous approaches. Furthermore, earlier approaches used hand designed filter to upscale the LR image into HR image. The design architecture of such approaches is easy, but it introduces the extra unwanted pixels in the reconstructed image. To resolve these issues, we propose novel deep learning-based approach known as Lightweight deep CNN-based approach for Single Image Super-Resolution (LDCSIR). In this paper, we propose a new architecture which is inspired by ResNet with Inception blocks, which significantly drop the computational cost of the model and increase the processing time for reconstructing the HR image. Compared with the other state of the art methods, LDCSIR achieves better performance in terms of quantitively (PSNR/SSIM) and qualitatively.

LDCSIR: Lightweight Deep CNN-based Approach for Single Image Super-Resolution

Muhammad, Wazir,Shaikh, Murtaza Hussain,Shah, Jalal,Shah, Syed Ali Raza,Bhutto, Zuhaibuddin,Lehri, Liaquat Ali,Hussain, Ayaz,Masrour, Salman,Ali, Shamshad,Thaheem, Imdadullah International Journal of Computer ScienceNetwork S 2021 International journal of computer science and netw Vol.21 No.12

Single image super-resolution (SISR) is an image processing technique, and its main target is to reconstruct the high-quality or high-resolution (HR) image from the low-quality or low-resolution (LR) image. Currently, deep learning-based convolutional neural network (CNN) image super-resolution approaches achieved remarkable improvement over the previous approaches. Furthermore, earlier approaches used hand designed filter to upscale the LR image into HR image. The design architecture of such approaches is easy, but it introduces the extra unwanted pixels in the reconstructed image. To resolve these issues, we propose novel deep learning-based approach known as Lightweight deep CNN-based approach for Single Image Super-Resolution (LDCSIR). In this paper, we propose a new architecture which is inspired by ResNet with Inception blocks, which significantly drop the computational cost of the model and increase the processing time for reconstructing the HR image. Compared with the other state of the art methods, LDCSIR achieves better performance in terms of quantitively (PSNR/SSIM) and qualitatively.

Genome-wide identification and comparative analysis of MATE gene family in Cucurbitaceae species and their regulatory role in melon (Cucumis melo) under salt stress

Shah Iftikhar Hussain,Manzoor Muhammad Aamir,Sabir Irfan Ali,Ashraf Muhammad,Haq Fazal,Arif Samiah,Abdullah Muhammad,Niu Qingliang,Zhang Yidong 한국원예학회 2022 Horticulture, Environment, and Biotechnology Vol.63 No.4

The multidrug and toxic compound extrusion (MATE) protein family includes a primeval gene family of secondary transporters that export toxins, extrude metabolites, and participate in plant defense mechanisms. However, lack of information regarding the MATE gene family in Cucurbitaceae, a comprehensive genome-wide analysis of the MATE family was carried out in four Cucurbitaceae species (Cucumis melo, Cucumis sativus, Cucurbita pepo, and Lagenaria siceraria), and 174 MATE genes were identified. Phylogenetic and structural analysis revealed that the Cucurbitaceae MATE transporters family could be further classified into seven subgroups (A–G). GO annotation-based subcellular localization analysis predicted that most of the MATE gene family members localized on the plasma membrane. Moreover, conserved motifs and gene structure (intron/exon) analysis revealed the functional divergence between clades. Transposed duplication events have played a key role in the expansion and evolution of the MATE gene family in Cucumis melo. Cis-acting elements analysis of MATE family genes revealed that these could be targeted by a diverse set of trans-acting factors involving the MATE gene family to manage diverse stress conditions. The Chromosomal localization and molecular characteristics (weight, length, and pI) were performed using numerous bioinformatics tools. Intraspecies microsynteny analysis demonstrated that maximum orthologous genes were found between A. thaliana, C. pepo, C. lanatus, and L. siceraria. Further, functional analysis of microRNAs demonstrated miRNAs are involved in the growth and regulation of MATE genes. Finally, eleven candidates MATE genes were selected randomly, and their expression analysis was carried out via qRT-PCR at 0 h and after 24 h of salt stress. Furthermore, transient CmMATE expression in Arabidopsis thaliana protoplasts showed that protein localized on the plasma membrane. This study provides insights into the functional analysis of the MATE gene family in Cucurbitaceae species and laid down the basic knowledge to explore the role and mechanism of the MATE gene family to cope with severe salt stress conditions.

Design and Implementation of Low-Cost Articulate Manipulator for Academic Applications

Muhammad Asim Ali,Farhan Ali Shah International Journal of Computer ScienceNetwork S 2024 International journal of computer science and netw Vol.24 No.1

The objective of this work is to design a low cost yet fully functional 4-DOF articulate manipulator for educational applications. The design is based on general purpose, programmable smart servo motors namely the Dynamixel Ax-12. The mechanism for motion was developed by formulating the equations of kinematics and subsequent solutions for joint space variables. The trajectory of end-effector in joint variable space was determined by interpolation of a 3rd order polynomial. The solutions were verified through computer simulations and ultimately implemented on the hardware. Owing to the feedback from the built-in sensors, it is possible to correct the positioning error due to loading effects. The proposed solution offers an efficient and cost-effective platform to study the trajectory planning as well as dynamics of the manipulator.

Identification of Proteins Differentially Expressed in the Striatum by Melatonin in a Middle Cerebral Artery Occlusion Rat Model—a Proteomic and <i>in silico</i> Approach

Shah, Fawad Ali,Zeb, Amir,Ali, Tahir,Muhammad, Tahir,Faheem, Muhammad,Alam, Sayed Ibrar,Saeed, Kamran,Koh, Phil-Ok,Lee, Keun Woo,Kim, Myeong Ok Frontiers Media S.A. 2018 Frontiers in neuroscience Vol.12 No.-

<P>Ischemic stroke is characterized by permanent or transient obstruction of blood flow, which initiates a cascading pathological process, starting from acute ATP loss to subsequent membrane depolarization, glutamate excitotoxicity, and calcium overload. Melatonin is a potent antioxidant that exerts protective effects in different experimental stroke models. In this study, melatonin effects were demonstrated by a proteomic and <I>in silico</I> approach. The proteomic study identified differentially expressed proteins by 2D gel electrophoresis in the striatum 24 h after middle cerebral artery occlusion. Proteomic analysis revealed several proteins with aberrant expression and was validated by western blot and immunofluorescence analysis. Homology modeling was performed to build 3D structures for γ-enolase, thioredoxin (TRX), and heat shock 60 (HSP60) by the template crystal structures using a protein data bank as a sequence database. The structure refinement of each model was achieved by energy minimization via molecular dynamic simulation, and the generated models were further assessed for stability by Procheck and ProSA. The models were processed for docking analysis using AutoDock Vina, and post-docking analysis was determined by discovery studio. The proteomic study showed decreased expression of γ-enolase, TRX, and protein phosphatase 2A subunit B and increased expression of collapsin response mediator protein 2 and HSP60 in the striatum after ischemic injury. Treatment with melatonin modulated the expression profiles of these proteins. This study demonstrated the neuroprotective role of melatonin in the ischemic striatum using a proteomic and <I>in silico</I> approach. Collectively, melatonin may act in a multimechanistic way by modulating the expression of several proteins in the ischemic striatum.</P>

Object Tracking With A Robotic Manipulator Mounted On Ground Vehicle Using Image Based Visual Servoing

Muhammad Ahsan Sami,Muhammad Umar Masood,Muhammad Waqar,Muhammad Mujtaba,Abrahim Ali Shah,Nasir Rashid,Mohsin I. Tiwana,Javaid Iqbal,Adnan Shujah 제어로봇시스템학회 2017 제어로봇시스템학회 국제학술대회 논문집 Vol.2017 No.10

This paper presents an application of a novel approach for detecting and tracking an object with a 2 DOF robotic manipulator which can be equipped with an array of electrically controlled actuators. The said approach utilizes the Image Based Visual Servoing (IBVS) technique. The developed system is able to determine the object pose in real time from features in the image. Object is detected using shaped based approach algorithms of image processing. The position and orientation of the world coordinates of the object being tracked are calculated from the coordinates of the object in image plane using camera’s intrinsic and extrinsic parameters. Experimental results demonstrate the effectiveness of this proposed approach.

Aberrant Promoter Methylation at CpG Cytosines Induce the Upregulation of the E2F5 Gene in Breast Cancer

Arshad Ali,Farman Ullah,Irum Sabir Ali,Ahmad Faraz,Mumtaz Khan,Syed Tahir Ali Shah,Nawab Ali,Muhammad Saeed 한국유방암학회 2016 Journal of breast cancer Vol.19 No.2

Purpose: The promoter methylation status of cell cycle regulatory genes plays a crucial role in the regulation of the eukaryotic cell cycle. CpG cytosines are actively subjected to methylation during tumorigenesis, resulting in gain/loss of function. E2F5 gene has growth repressive activities; various studies suggest its involvement in tumorigenesis. This study aims to investigate the epigenetic regulation of E2F5 in breast cancer to better understand tumor biology. Methods: The promoter methylation status of 50 breast tumor tissues and adjacent normal control tissues was analyzed. mRNA expression was determined using SYBR® green quantitative polymerase chain reaction (PCR), and methylation- specific PCR was performed for bisulfite-modified genomic DNA using E2F5-specific primers to assess promoter methylation. Data was statistically analyzed. Results: Significant (p<0.001) upregulation was observed in E2F5 expression among tumor tissues, relative to the control group. These samples were hypo-methylated at the E2F5 promoter region in the tumor tissues, compared to the control. Change in the methylation status (Δmeth) was significantly lower (p=0.022) in the tumor samples, indicating possible involvement in tumorigenesis. Patients at the postmenopausal stage showed higher methylation (75%) than those at the premenopausal stage (23.1%). Interestingly, methylation levels gradually increased from the early to the advanced stages of the disease (p<0.001), which suggests a putative role of E2F5 methylation in disease progression that can significantly modulate tumor biology at more advanced stage and at postmenopausal age (Pearson’s r=0.99 and 0.86, respectively). Among tissues with different histological status, methylation frequency was higher in invasive lobular carcinoma (80.0%), followed by invasive ductal carcinoma (46.7%) and ductal carcinoma in situ (20.0%). Conclusion: Methylation is an important epigenetic factor that might be involved in the upregulation of E2F5 gene in tumor tissues, which can be used as a prognostic marker for breast cancer.

Risk Factors Associated with Thyroid Carcinoma in North Pakistan

Khan, Muhammad Aleem,Khan, Kamran Hakeem,Shah, Sajid Ali,Mir, Kahkashan Ali,Khattak, Mubarik,Shahzad, Muhammad Faheem Asian Pacific Journal of Cancer Prevention 2016 Asian Pacific journal of cancer prevention Vol.17 No.1

Background: Epidemiological data on thyroid cancer and associated risk factors are scarce in our setting. The present study was therefore designed to gather data which could be helpful in providing insights to thyroid physicians and surgeons for better management of affected patients. Purpose: To determine the frequency of carcinoma thyroid among patients presenting with goiter and its association with TSH, Tg/ATg and other demographic factors. Materials and Methods: A total of 73 adult patients of either gender with solitary solid cold nodules and/or multi-ndoular goiter (MNG) with predominant solid cold nodules were enrolled. All surgically resected samples were sent for histopathology. The frequency of thyroid cancer and its subtypes was noted and tested for association with gender, age (< or ${\geq}40years$), recent increase in swelling size, TSH, Tg and ATg. Results: Thyroid cancer was diagnosed in 26% (n=19) of the patients, 14 (73.7%) being diagnosed with papillary thyroid cancer and 5 (26.3%) with follicular thyroid cancer. No other subtypes were noted. Presence of thyroid cancer was significantly associated with recent increase in swelling size and higher TSH Values mean TSH values (P<0.05). No significant association was found with gender, age, Tg and ATg values (P>0.05). Conclusions: Overall percentage of thyroid cancer in our study sample was found to be 26%, with a predominance of papillary over follicular lesions. Rates were significantly higher in patients who had history of recent increase in swelling size and higher and higher pre-surgery TSH values.

2-Furoic piperazide derivatives as promising drug candidates of type 2 diabetes and Alzheimer’s diseases: <i>In vitro</i> and <i>in silico</i> studies

Abbasi, Muhammad Athar,Hassan, Mubashir,ur-Rehman, Aziz,Siddiqui, Sabahat Zahra,Hussain, Ghulam,Shah, Syed Adnan Ali,Ashraf, Muhammad,Shahid, Muhammad,Seo, Sung Yum Elsevier 2018 Computational biology and chemistry Vol.77 No.-

<P><B>Abstract</B></P> <P>The heterocyclic compounds have been extensively reported for their bioactivity potential. The current research work reports the synthesis of some new multi-functional derivatives of 2-furoic piperazide (<B>1</B>; 1-(2-furoyl)piperazine). The synthesis was initiated by reacting the starting compound <B>1</B> with 3,5-dichloro-2-hydroxybenzenesulfonyl chloride (<B>2</B>) in a basic, polar and protic medium to obtain the parent sulfonamide <B>3</B> which was then treated with different electrophiles, <B>4a–g</B>, in a polar and aprotic medium to acquire the designed molecules, <B>5a</B>–<B>g</B>. These convergent derivatives were evaluated for their inhibitory potential against <I>α</I>-glucosidase, acetylcholinesterase (AChE) and butyrylcholinesterase (BChE) enzymes. Acarbose was used as a reference standard for <I>α</I>-glucosidase inhibition while eserine for AChE and BChE inhibition. Some of the synthesized compounds were identified as promising inhibitors of these three enzymes and their bioactivity potentials were also supported by molecular docking study. The most active compounds among the synthetic analogues might be helpful in drug discovery and development for the treatment of type 2 diabetes and Alzhiemer’s diseases.</P> <P><B>Highlights</B></P> <P> <UL> <LI> Synthesis of multi-functional 2-furoic piperazide derivatives. </LI> <LI> Enzyme inhibitory studies against different enzymes. </LI> <LI> Computational studies to augment the <I>in vitro</I> results. </LI> <LI> Suitable therapeutic agents for type 2 diabetes and Alzheimer’s disease. </LI> <LI> Mild hemolytic agents toward red blood cell membrane. </LI> </UL> </P> <P><B>Graphical abstract</B></P> <P>[DISPLAY OMISSION]</P>