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| 1 | AluScanCNV2:An R package for copy number variation calling and cancer risk prediction with next-generation sequencing data显示文摘The usage of next-generation sequencing(NGS)to detect copy number variation(CNV)is widely accepted in cancer research.Based on an AluScanCNV software developed by us previously,an AluScanCNV2 software has been developed in the present study as an R package that performs CNV detection from NGS data obtained through AluScan,wholegenome sequencing or other targeted NGS platforms.Its applications would include the expedited usage of somatic CNVs for cancer subtyping,and usage of recurrent germline CNVs to perform machine learning-assisted prediction of a test subject’s susceptibility to cancer. | Taobo Hu Si Chen Ata Ullah Hong Xue | 2019 | Genes & Diseases2019，6，1： | 2 |
| 2 | Effect of Zn doping on electronic structure and optical properties zincblende GaN(A DFT+U insight)显示文摘The development of new materials,having exceptional properties in comparison to existing materials is highly required for bringing advancement in electronic and optoelectronic technologies.Keeping this fact,we investigated structural,electronic,and optical properties of zincblende GaN doped with selected Zn concentrations(6.25%,12.50%,and 18.70%),using the first-principle calculations based on density functional theory with GGA+U.We conducted the entire study using the WIEN2K code.In this study,we calculated various significant parametric quantities such as cohesive energies,formation energies,bulk moduli,and lattice constants along with the study of optical and electronic properties by substituting Ga atoms with Zn atoms in 1×2×2 supercell.The structural stability is confirmed by studying the phonon dispersion curves which suggest that Zn:GaN material is stable against the 6.25%and 18.70%Zn concentrations while for 12.50%,it shows instability.The Hubbard values U=0,2,4,6 eV were added to GGA and the electronic properties were improved with the U=6 eV.Optical absorption was blue shifted while the refractive index and dielectric constant were increased with increasing the Zn concentrations.Electronic properties are enhanced due to the prime contribution of cations(Zn)3ri states.The optical and electronic properties are further discussed in detail in the entire study. | Muhammad Junaid Iqbal Khan Zarfishan Kanwal Masood Yousaf Hamid Ullah Javed Ahmad Abid Latif Yong-Han Shin Ata Ur Rahman Khalid | 2021 | Communications in Theoretical Physics2021，73，3： | 1 |
| 3 | Copy number variation profile-based genomic typing of premenstrual dysphoric disorder in Chinese显示文摘Premenstrual dysphoric disorder(PMDD) affects nearly 5% of women of reproductive age. Symptomatic heterogeneity, together with largely unknown genetics, has greatly hindered its effective treatment. In the present study, analysis of genomic sequencing-based copy number variations(CNVs) called from 100 kb white blood cell DNA sequence windows by means of semisupervized clustering led to the segregation of patient genomes into the D and V groups, which correlated with the depression and invasion clinical types,respectively, with 89.0% consistency. Application of diagnostic CNV features selected using the correlation-based machine learning method enabled the classification of the CNVs obtained into the D group, V group, total patient group, and control group with an average accuracy of 83.0%. The power of the diagnostic CNV features was 0.98 on average, suggesting that these CNV features could be used for the molecular diagnosis of the major clinical types of PMDD. This demonstrated concordance between the CNV profiles and clinical types of PMDD supported the validity of symptom-based diagnosis of PMDD for differentiating between its two major clinical types, as well as the predominantly genetic nature of PMDD with a host of overlaps between multiple susceptibility genes/pathways and the diagnostic CNV features as indicators of involvement in PMDD etiology. | Hong Xue Zhenggang Wu Xi Long Ata Ullah Si Chen Wai-Kin Mat Peng Sun Ming-Zhou Gao Jie-Qiong Wang Hai-Jun Wang Xia Li Wen-Jun Sun Ming-Qi Qiao | 2021 | Journal of Genetics and Genomics2021，48，12： | 1 |
| 4 | Tunable beam deflection based on plasmonic resonators mounted freestanding thermoresponsive hydrogel显示文摘We propose and numerically demonstrate a dynamic beam deflector based on plasmonic resonator loaded thermoresponsive freestanding hydrogel that swells and collapses in water by temperature.For this purpose,we utilize four-step phase gradients mounted on freestanding hydrated hydrogel.For normal incidence,linearly orthogonal light deflects to 19.44°in the collapsed state and 14.40°in the swollen state of hydrogel.Furthermore,the light deflects at a third angle of 12.29°when the solvent changes from water to ethanol.It is expected that our metadesign will provide a platform for dynamic holography,active lensing,data storage,and anticounterfeiting. | Ata Ur Rahman Khalid 刘娟 Naeem Ullah 贾世琪 | 2020 | Chinese Optics Letters2020，18，6： | 0 |
| 5 | Analysis of Classical Encryption Techniques in Cloud Computing显示文摘Cloud computing has become a significant computing model in the IT industry. In this emerging model,computing resources such as software, hardware, networking, and storage can be accessed anywhere in the world on a pay-per-use basis. However, storing sensitive data on un-trusted servers is a challenging issue for this model. To guarantee confidentiality and proper access control of outsourced sensitive data, classical encryption techniques are used. However, such access control schemes are not feasible in cloud computing because of their lack of flexibility, scalability, and fine-grained access control. Instead, Attribute-Based Encryption(ABE) techniques are used in the cloud. This paper extensively surveys all ABE schemes and creates a comparison table for the key criteria for these schemes in cloud applications. | Muhammad Yasir Shabir Asif Iqbal Zahid Mahmood Ata Ullah Ghafoor | 2016 | Tsinghua Science and Technology2016，21，1： | 0 |
| 6 | Hash Table Assisted Efficient File Level De-Duplication Scheme in SD-IoV Assisted Sensing Devices显示文摘The Internet of Things(IoT)and cloud technologies have encouraged massive data storage at central repositories.Software-defined networks(SDN)support the processing of data and restrict the transmission of duplicate values.It is necessary to use a data de-duplication mechanism to reduce communication costs and storage overhead.Existing State of the art schemes suffer from computational overhead due to deterministic or random tree-based tags generation which further increases as the file size grows.This paper presents an efficient file-level de-duplication scheme(EFDS)where the cost of creating tags is reduced by employing a hash table with key-value pair for each block of the file.Further,an algorithm for hash table-based duplicate block identification and storage(HDBIS)is presented based on fingerprints that maintain a linked list of similar duplicate blocks on the same index.Hash tables normally have a consistent time complexity for lookup,generating,and deleting stored data regardless of the input size.The experiential results show that the proposed EFDS scheme performs better compared to its counterparts. | Ghawar Said Ata Ullah Anwar Ghani Muhammad Azeem Khalid Yahya Muhammad Bilal Sayed Chhattan Shah | 2023 | Intelligent Automation & Soft Computing2023，38，10： | 0 |
| 7 | Single-layered non-interleaved spin-insensitive metasurfaces for wavefront engineering显示文摘Metasurfaces,two-dimensional(2D)or quasi-2D arrays of dielectric or metallic meta-atoms,offer a compact and novel platform to manipulate the amplitude,phase,and polarization of incoming wavefronts in a desired manner by engineering the geometry of meta-atoms.In polarization control,spin-insensitive metasurfaces have attracted significant attention due to the robustness of circular polarization against the beam misalignment and multi-path effects.Till now,several efforts have been made to realize polarization-insensitive metasurfaces for circularly polarized(CP)wavefront manipulation;however,these metasurfaces only consider the cross-polarization channels and keep the co-polarization channels abandoned.Such metasurfaces cannot be considered truly spin-insensitive,as one has to carefully choose the analyzer at output.Here,by combining the polarization-insensitive geometric phase and engineered propagation phase,we propose a spin-insensitive design principle based on metasurfaces that can perform identical functionality(on co-and crosspolarization channels)irrespective of the handedness of incident/transmitted light.As a proof of concept,we design and numerically realize two types of spin-insensitive wavefront engineering devices:(1)spin-insensitive meta-hologram and(2)spin-insensitive beam deflector with power splitting functionality.The proposed work is expected to open up new avenues for developing spin-independent metasurfaces-based devices. | Ata Ur Rahman Khalid Naeem Ullah 韩遇 Urooj Asghar 袁小聪 冯甫 | 2023 | Chinese Optics Letters2023，21，1： | 0 |
| 8 | Exploitation of geometric and propagation phases for spin-dependent rational-multiple complete phase modulation using dielectric metasurfaces显示文摘Metasurfaces have drawn considerable attention in manipulation of electromagnetic waves due to their exotic subwavelength footprints. Regardless of immense progress of polarization-dependent flat optics, the realization of on-device switchable complete phase multiplication is still missing from design multifunctional devices. Here,by combining geometric and propagation phases, a generalized design principle is proposed that can achieve switchable integer or fractional multiple complete phase modulation in transmitted circularly cross-polarized light by switching the handedness of incident polarization. As a proof of concept, two types of spin-dependent bifunctional wavefront manipulating devices, including switchable beam splitter/beam deflector and spinto-orbital angular momentum converter designs are numerically realized. It is believed that the proposed single-cell spin-switchable rational-multiple complete-phase-modulation design principle based on combined propagation and geometric phases has great potential to underpin the development of meta-optics-based multifunctional operations in the field of integrated optics, imaging, and optical communication. | Ata Ur Rahman Khalid Fu FENG Naeem Ullah Xiaocong Yuan Michael Geoffrey Somekh | 2022 | Photonics Research2022，10，4： | 0 |
| 9 | Robust Cluster-Based Routing Protocol for IoT-Assisted Smart Devices in WSN显示文摘The Internet of Things(IoT)is gaining attention because of its broad applicability,especially by integrating smart devices for massive communication during sensing tasks.IoT-assisted Wireless Sensor Networks(WSN)are suitable for various applications like industrial monitoring,agriculture,and transportation.In this regard,routing is challenging to nd an efcient path using smart devices for transmitting the packets towards big data repositories while ensuring efcient energy utilization.This paper presents the Robust Cluster Based Routing Protocol(RCBRP)to identify the routing paths where less energy is consumed to enhances the network lifespan.The scheme is presented in six phases to explore ow and communication.We propose the two algorithms:(i)energy-efcient clustering and routing algorithm and (ii)distance and energy consumption calculation algorithm.The scheme consumes less energy and balances the load by clustering the smart devices.Our work is validated through extensive simulation using Matlab.Results elucidate the dominance of the proposed scheme is compared to counterparts in terms of energy consumption,the number of packets received at BS and the number of active and dead nodes.In the future,we shall consider edge computing to analyze the performance of robust clustering. | Maryam Shaq Humaira Ashraf Ata Ullah Mehedi Masud Muhammad Azeem N.Z.Jhanjhi Mamoona Humayun | 2021 | Computers, Materials & Continua2021，，6： | 0 |
| 10 | Alpha Fusion Adversarial Attack Analysis Using Deep Learning显示文摘The deep learning model encompasses a powerful learning ability that integrates the feature extraction,and classification method to improve accuracy.Convolutional Neural Networks(CNN)perform well in machine learning and image processing tasks like segmentation,classification,detection,identification,etc.The CNN models are still sensitive to noise and attack.The smallest change in training images as in an adversarial attack can greatly decrease the accuracy of the CNN model.This paper presents an alpha fusion attack analysis and generates defense against adversarial attacks.The proposed work is divided into three phases:firstly,an MLSTM-based CNN classification model is developed for classifying COVID-CT images.Secondly,an alpha fusion attack is generated to fool the classification model.The alpha fusion attack is tested in the last phase on a modified LSTM-based CNN(CNN-MLSTM)model and other pre-trained models.The results of CNN models show that the accuracy of these models dropped greatly after the alpha-fusion attack.The highest F1 score before the attack was achieved is 97.45 And after the attack lowest F1 score recorded is 22%.Results elucidate the performance in terms of accuracy,precision,F1 score and Recall. | Mohibullah Khan Ata Ullah Isra Naz Sajjad Haider Nz Jhanji Mohammad Shorfuzzaman Mehedi Masud | 2023 | Computer Systems Science & Engineering2023，46，7： | 0 |
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