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Book ; Online ; E-Book: Proteomics

Ali, Shafat / Majid, Sabhiya / Rehman, Muneeb U.

a promising approach for cancer research

2023

Abstract: Intro -- Proteomics: A Promising Approach for Cancer Research -- Copyright -- Contents -- Contributors -- Preface -- Chapter 1 Cancer proteomics: An overview -- 1 . Introduction -- 2 . Definition and goals of proteomics -- 2.1 Need for proteomics -- 3 . ... ...

Author's details	edited by Shafat Ali, Sabhiya Majid, Muneeb U. Rehman
Abstract	Intro -- Proteomics: A Promising Approach for Cancer Research -- Copyright -- Contents -- Contributors -- Preface -- Chapter 1 Cancer proteomics: An overview -- 1 . Introduction -- 2 . Definition and goals of proteomics -- 2.1 Need for proteomics -- 3 . Methods of protein measurement and biomarker identification -- 3.1 2D PAGE -- 3.2 Mass spectrometry -- 3.3 Protein arrays -- 3.4 Protein bioinformatics -- 4 . Biomedical applications -- 4.1 Proteomics and cancer -- 4.2 Early diagnosis of cancer -- 4.3 Determining tumor aggressiveness -- 4.4 Individualized therapy -- 5 . Mechanisms of proteomic changes in cancer -- 6 . Cancer biomarker applications -- 6.1 Cancer heterogeneity -- 6.2 Initial early detection of cancer -- 7 . Protocols for developing tumor biomarkers -- 8 . General guidelines for a good study design for biomarker discovery -- 9 . Applications of proteomics research in various cancers -- 9.1 Types of cancers -- 9.2 Biomarkers for lung cancer detection -- 9.3 Breast cancer biomarkers -- 9.4 Ovarian cancer biomarkers and implications from proteomics -- 9.5 Ovarian cancer pathogenesis -- 9.6 Etiology -- 9.7 Ovarian cancer progression -- 9.8 Targets for therapeutic means -- 10 . Can proteomics research findings in cancer be translated into clinically oriented research? -- 10.1 EGFR kinase inhibitors -- 10.2 HSP90 inhibitors -- 11 . Conclusion -- References -- Further reading -- Chapter 2 Proteomics: A groundbreaking development in cancer biology -- 1 . Introduction -- 2 . Why proteomics? -- 3 . Types of proteomics -- 3.1 Structural proteomics -- 3.2 Sequence proteomics -- 3.3 Expression proteomics -- 3.4 Functional and interaction proteomics -- 4 . Proteomics: Analytical approaches -- 5 . Conventional techniques -- 5.1 Chromatography-based techniques -- 5.2 Size exclusion chromatography.
Keywords	Electronic books
Language	English
Size	1 Online-Ressource (xvii, 393 Seiten), Illustrationen
Publisher	Elsevier Academic Press
Publishing place	London
Publishing country	Great Britain
Document type	Book ; Online ; E-Book
Remark	Zugriff für angemeldete ZB MED-Nutzerinnen und -Nutzer
HBZ-ID	HT021879640
ISBN	978-0-323-95073-2 ; 9780323950725 ; 0-323-95073-6 ; 0323950728
Database	ZB MED Catalogue: Medicine, Health, Nutrition, Environment, Agriculture

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Book: Immunogenetics: A Molecular and Clinical Overview

U Rehman, Muneeb / Arafah, Azher / Ali, MD Niamat / Ali, Shafat

Clinical Applications of Immunogenetics

2022

Language	English
Size	426 p.
Publisher	Elsevier Science
Document type	Book
Note	PDA Manuell_14
ISBN	9780323902502 ; 0323902502
Database	PDA

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Article: Understanding the potential immunogenetic role of TNFα-308 polymorphism in the pathogenesis of recurrent miscarriage.

Ali, Shafat / Majid, Sabhiya / Ali, Md Niamat / Banday, Mujeeb Zafar / Taing, Shahnaz

Heliyon

2023 Volume 9, Issue 4, Page(s) e15166

Abstract: Background: Recurrent miscarriage (RM) represents the spontaneous termination of two or more successive pregnancies. TNFα is a proinflammatory cytokine that is often considered harmful for embryonic development when expressed beyond normal levels.: ... ...

Abstract	Background: Recurrent miscarriage (RM) represents the spontaneous termination of two or more successive pregnancies. TNFα is a proinflammatory cytokine that is often considered harmful for embryonic development when expressed beyond normal levels. Aim: The study was conducted to assess the association between TNFα-308 polymorphism and RM pathogenesis. Methods: Samples of blood were obtained from patients and controls through venipuncture. The levels of TNFα in serum were measured by ELISA. TNFα gene promoter-associated single-nucleotide polymorphism was investigated with polymerase chain reaction (PCR) and restriction fragment length polymorphism (RFLP) techniques with precise primers and the restriction endonuclease, NcoI. Results: Serum TNFα levels in patients were considerably high (p < 0.05) than controls. The genotype and allele frequencies for TNFα gene polymorphism differs significantly (p = 0.0089; p = 0.0043 respectively) between patients and controls. The TNFα-308 SNP exhibited a link with higher RM risk in heterozygous (GG vs. GA; OR: 3.086, 95% CI: 1.475-6.480; p: Conclusion: The serum TNFα levels were significantly higher in the patients than the controls. The genotyping analysis also demonstrated that TNFα-308G/A SNP significantly increases the overall risk of RM, suggesting that the SNP modulates the TNFα gene expression and thereby increases serum TNFα levels that adversely affect the pregnancy outcome.
Language	English
Publishing date	2023-04-03
Publishing country	England
Document type	Journal Article
ZDB-ID	2835763-2
ISSN	2405-8440
ISSN	2405-8440
DOI	10.1016/j.heliyon.2023.e15166
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: VDR downregulation and promoter hypermethylation as one of the causes for triggering type 2 diabetes mellitus: Clinical and molecular studies.

Tarfeen, Najeebul / Masoodi, Shariq Rashid / Nisa, Khair Ul / Ali, Shafat / Ahmad, Mir Bilal / Ganai, Bashir Ahmad

Journal of diabetes and metabolic disorders

2023 Volume 22, Issue 2, Page(s) 1443–1451

Abstract: Background: Our present study was to investigate the methylation and Gene expression of the vitamin D receptor (VDR) gene in the causing T2DM and to determine the inflammatory biomarkers in exaggerating T2DM in Kashmiri population.: Methods: In this ... ...

Abstract	Background: Our present study was to investigate the methylation and Gene expression of the vitamin D receptor (VDR) gene in the causing T2DM and to determine the inflammatory biomarkers in exaggerating T2DM in Kashmiri population. Methods: In this study, T2DM cases ( Results: Studies using RT-PCR demonstrated that patients with diabetes had a lower degree of VDR expression than control subjects ( Conclusions: This study suggests the hypermethylation and down expression of VDR as one of the basis for causing T2DM in kashmiri individuals, exaggerated by enhanced degree of TNF-α, CRP, IL-6 and leptin and diminished concentration of IL-10 and adiponectin in T2DM. Supplementary information: The online version contains supplementary material available at 10.1007/s40200-023-01266-6.
Language	English
Publishing date	2023-07-29
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2680289-2
ISSN	2251-6581
ISSN	2251-6581
DOI	10.1007/s40200-023-01266-6
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Article ; Online: Understanding the potential immunogenetic role of TNFα-308 polymorphism in the pathogenesis of recurrent miscarriage

Shafat Ali / Sabhiya Majid / Md Niamat Ali / Mujeeb Zafar Banday / Shahnaz Taing

Heliyon, Vol 9, Iss 4, Pp e15166- (2023)

2023

Abstract	Background: Recurrent miscarriage (RM) represents the spontaneous termination of two or more successive pregnancies. TNFα is a proinflammatory cytokine that is often considered harmful for embryonic development when expressed beyond normal levels. Aim: The study was conducted to assess the association between TNFα-308 polymorphism and RM pathogenesis. Methods: Samples of blood were obtained from patients and controls through venipuncture. The levels of TNFα in serum were measured by ELISA. TNFα gene promoter-associated single-nucleotide polymorphism was investigated with polymerase chain reaction (PCR) and restriction fragment length polymorphism (RFLP) techniques with precise primers and the restriction endonuclease, NcoI. Results: Serum TNFα levels in patients were considerably high (p < 0.05) than controls. The genotype and allele frequencies for TNFα gene polymorphism differs significantly (p = 0.0089; p = 0.0043 respectively) between patients and controls. The TNFα-308 SNP exhibited a link with higher RM risk in heterozygous (GG vs. GA; OR: 3.086, 95% CI: 1.475–6.480; p: 0.0027), dominant (GG vs. GA + AA; OR: 2.919, 95% CI: 1.410–6.056, p: 0.0038), and allelic/codominant (G vs. A; OR: 2.449, 95% CI: 1.313–4.644, p: 0.0064) models. However, this SNP showed an insignificant association with higher and lower RM risk in homozygous (GG vs. AA; OR: 1.915, 95% CI: 0.3804–10.99, p: 0.6560) and recessive (AA vs. GA + GG; OR: 0.6596, 95% CI: 0.1152–3.297, p: >0.9999) models, respectively. Further, the TNFα-308G/A genotype frequencies were in concord with HWE both in the controls (χ2 = 3.235; p = 0.1985) and the patients (χ2 = 0.0117; p = 0.9942). Conclusion: The serum TNFα levels were significantly higher in the patients than the controls. The genotyping analysis also demonstrated that TNFα-308G/A SNP significantly increases the overall risk of RM, suggesting that the SNP modulates the TNFα gene expression and thereby increases serum TNFα levels that adversely affect the pregnancy outcome.
Keywords	Tumor necrosis factor ; Recurrent miscarriage ; Genotyping ; Enzyme-linked immunosorbent assay ; Polymorphism ; Allele ; Science (General) ; Q1-390 ; Social sciences (General) ; H1-99
Subject code	610
Language	English
Publishing date	2023-04-01T00:00:00Z
Publisher	Elsevier
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Challenging diagnosis of Wilson's disease: A case report.

Mansoor, Valeed Bin / Khan, Saad Yunus / Khan, Muhammad Arsalan / Khatoon, Shafat / Miraj, Muhammad Arqam / Syed, Fibhaa / Arif, Mohammad Ali

JPMA. The Journal of the Pakistan Medical Association

2024 Volume 74, Issue 1, Page(s) 169–171

Abstract: Wilson's disease is arare inherited disorder of copper met abolism. If le f t untre ated, i t can turn into a multi systemic disease with copper deposition in the liver, brain, a nd other tissues. Diagnosi s of Wilson's is delayed in Pak ist an by many ... ...

Abstract	Wilson's disease is arare inherited disorder of copper met abolism. If le f t untre ated, i t can turn into a multi systemic disease with copper deposition in the liver, brain, a nd other tissues. Diagnosi s of Wilson's is delayed in Pak ist an by many ye a rs on average due to va riabl e presen tations. In ad olescents, the initial s igns a re more likely to b e neuropsychiatric. Here we present a case of Wilso n's disease that pre sented initially with he patic symptoms and did not have signs specific to the di sea s e such as Kayser-Fleischer rings. Our case was diagnosed to be Wilson's Disease on ly on further investigat ions and s ubsequently the patient was treated with chela tion therapy using D-Penicillamine.Wilson's Disease should be kept in mind as a differential diagno sis in adolesce nt patients that present with unexplained acute liver failure and cytopenias without any neurological symptoms, as a missed diagnosis can prove to be fatal.
MeSH term(s)	Male ; Humans ; Hepatolenticular Degeneration/diagnosis ; Copper ; Penicillamine/therapeutic use ; Brain/diagnostic imaging
Chemical Substances	Copper (789U1901C5) ; Penicillamine (GNN1DV99GX)
Language	English
Publishing date	2024-01-13
Publishing country	Pakistan
Document type	Case Reports
ZDB-ID	603873-6
ISSN	0030-9982
ISSN	0030-9982
DOI	10.47391/JPMA.9637
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Article ; Online: Understanding the potential immunogenetic role of TNFα-308 polymorphism in the pathogenesis of recurrent miscarriage

Ali, Shafat / Majid, Sabhiya / Ali, Md Niamat / Banday, Mujeeb Zafar / Taing, Shahnaz

Heliyon. 2023 Apr. 03, p.e15166-

2023

Abstract: Recurrent miscarriage (RM) represents the spontaneous termination of two or more successive pregnancies. TNFα is a proinflammatory cytokine that is often considered harmful for embryonic development when expressed beyond normal levels. The study was ... ...

Abstract	Recurrent miscarriage (RM) represents the spontaneous termination of two or more successive pregnancies. TNFα is a proinflammatory cytokine that is often considered harmful for embryonic development when expressed beyond normal levels. The study was conducted to assess the association between TNFα-308 polymorphism and RM pathogenesis. Samples of blood were obtained from patients and controls through venipuncture. The levels of TNFα in serum were measured by ELISA. TNFα gene promoter-associated single-nucleotide polymorphism was investigated with polymerase chain reaction (PCR) and restriction fragment length polymorphism (RFLP) techniques with precise primers and the restriction endonuclease, NCOI. Serum TNFα levels in patients were considerably high (p < 0.05) than controls. The genotype and allele frequencies for TNFα gene polymorphism differs significantly (p = 0.0089; p = 0.0043 respectively) between patients and controls. The TNFα-308 SNP exhibited a link with higher RM risk in heterozygous (GG vs. GA; OR: 3.086, 95% CI: 1.475-6.480; p: 0.0027), dominant (GG vs. GA + AA; OR: 2.919, 95% CI: 1.410-6.056, p: 0.0038), and allelic/codominant (G vs. A; OR: 2.449, 95% CI: 1.313-4.644, p: 0.0064) models. However, this SNP showed an insignificant association with higher and lower RM risk in homozygous (GG vs. AA; OR: 1.915, 95% CI: 0.3804-10.99, p: 0.6560) and recessive (AA vs. GA + GG; OR: 0.6596, 95% CI: 0.1152-3.297, p: >0.9999) models, respectively. Further, the TNFα-308G/A genotype frequencies were in concord with HWE both in the controls (χ² = 3.235; p = 0.1985) and the patients (χ² = 0.0117; p = 0.9942). The serum TNFα levels were significantly higher in the patients than the controls. The genotyping analysis also demonstrated that TNFα-308G/A SNP significantly increases the overall risk of RM, suggesting that the SNP modulates the TNFα gene expression and thereby increases serum TNFα levels that adversely affect the pregnancy outcome.
Keywords	abortion (animals) ; alleles ; blood serum ; cytokines ; embryogenesis ; gene expression ; genotyping ; heterozygosity ; homozygosity ; immunogenetics ; pathogenesis ; polymerase chain reaction ; pregnancy outcome ; restriction endonucleases ; restriction fragment length polymorphism ; risk ; single nucleotide polymorphism ; Tumor necrosis factor ; Recurrent miscarriage ; Enzyme-linked immunosorbent assay ; Polymorphism ; Allele
Language	English
Dates of publication	2023-0403
Publishing place	Elsevier Ltd
Document type	Article ; Online
Note	Pre-press version ; Use and reproduction
ZDB-ID	2835763-2
ISSN	2405-8440
ISSN	2405-8440
DOI	10.1016/j.heliyon.2023.e15166
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Effective Opinion Spam Detection

Rastogi Ajay / Mehrotra Monica / Ali Syed Shafat

Journal of Data and Information Science, Vol 5, Iss 2, Pp 76-

A Study on Review Metadata Versus Content

2020 Volume 110

Abstract: This paper aims to analyze the effectiveness of two major types of features—metadata-based (behavioral) and content-based (textual)—in opinion spam detection. ...

Abstract	This paper aims to analyze the effectiveness of two major types of features—metadata-based (behavioral) and content-based (textual)—in opinion spam detection.
Keywords	opinion spam ; behavioral features ; textual features ; review spammers ; spam-targeted products ; Information technology ; T58.5-58.64 ; Electronic computers. Computer science ; QA75.5-76.95
Language	English
Publishing date	2020-05-01T00:00:00Z
Publisher	Sciendo
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Global perspective of municipal solid waste and landfill leachate: generation, composition, eco-toxicity, and sustainable management strategies.

Yatoo, Ali Mohd / Hamid, Basharat / Sheikh, Tahir Ahmad / Ali, Shafat / Bhat, Sartaj Ahmad / Ramola, Sudipta / Ali, Md Niamat / Baba, Zahoor Ahmad / Kumar, Sunil

Environmental science and pollution research international

2024 Volume 31, Issue 16, Page(s) 23363–23392

Abstract: Globally, more than 2 billion tonnes of municipal solid waste (MSW) are generated each year, with that amount anticipated to reach around 3.5 billion tonnes by 2050. On a worldwide scale, food and green waste contribute the major proportion of MSW, which ...

Abstract	Globally, more than 2 billion tonnes of municipal solid waste (MSW) are generated each year, with that amount anticipated to reach around 3.5 billion tonnes by 2050. On a worldwide scale, food and green waste contribute the major proportion of MSW, which accounts for 44% of global waste, followed by recycling waste (38%), which includes plastic, glass, cardboard, and paper, and 18% of other materials. Population growth, urbanization, and industrial expansion are the principal drivers of the ever-increasing production of MSW across the world. Among the different practices employed for the management of waste, landfill disposal has been the most popular and easiest method across the world. Waste management practices differ significantly depending on the income level. In high-income nations, only 2% of waste is dumped, whereas in low-income nations, approximately 93% of waste is burned or dumped. However, the unscientific disposal of waste in landfills causes the generation of gases, heat, and leachate and results in a variety of ecotoxicological problems, including global warming, water pollution, fire hazards, and health effects that are hazardous to both the environment and public health. Therefore, sustainable management of MSW and landfill leachate is critical, necessitating the use of more advanced techniques to lessen waste production and maximize recycling to assure environmental sustainability. The present review provides an updated overview of the global perspective of municipal waste generation, composition, landfill heat and leachate formation, and ecotoxicological effects, and also discusses integrated-waste management approaches for the sustainable management of municipal waste and landfill leachate.
MeSH term(s)	Solid Waste/analysis ; Refuse Disposal/methods ; Water Pollutants, Chemical/analysis ; Waste Management/methods ; Waste Disposal Facilities
Chemical Substances	Solid Waste ; Water Pollutants, Chemical
Language	English
Publishing date	2024-03-05
Publishing country	Germany
Document type	Journal Article ; Review
ZDB-ID	1178791-0
ISSN	1614-7499 ; 0944-1344
ISSN (online)	1614-7499
ISSN	0944-1344
DOI	10.1007/s11356-024-32669-4
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Article ; Online: TGF-β signaling pathway: Therapeutic targeting and potential for anti-cancer immunity.

Ali, Shafat / Rehman, Muneeb U / Yatoo, Ali Mohd / Arafah, Azher / Khan, Andleeb / Rashid, Summya / Majid, Sabhiya / Ali, Aarif / Ali, Md Niamat

European journal of pharmacology

2023 Volume 947, Page(s) 175678

Abstract: Transforming growth factor-β (TGFβ) is a pleiotropic secretory cytokine exhibiting both cancer-inhibitory and promoting properties. It transmits its signals via Suppressor of Mother against Decapentaplegic (SMAD) and non-SMAD pathways and regulates cell ... ...

Abstract	Transforming growth factor-β (TGFβ) is a pleiotropic secretory cytokine exhibiting both cancer-inhibitory and promoting properties. It transmits its signals via Suppressor of Mother against Decapentaplegic (SMAD) and non-SMAD pathways and regulates cell proliferation, differentiation, invasion, migration, and apoptosis. In non-cancer and early-stage cancer cells, TGFβ signaling suppresses cancer progression via inducing apoptosis, cell cycle arrest, or anti-proliferation, and promoting cell differentiation. On the other hand, TGFβ may also act as an oncogene in advanced stages of tumors, wherein it develops immune-suppressive tumor microenvironments and induces the proliferation of cancer cells, invasion, angiogenesis, tumorigenesis, and metastasis. Higher TGFβ expression leads to the instigation and development of cancer. Therefore, suppressing TGFβ signals may present a potential treatment option for inhibiting tumorigenesis and metastasis. Different inhibitory molecules, including ligand traps, anti-sense oligo-nucleotides, small molecule receptor-kinase inhibitors, small molecule inhibitors, and vaccines, have been developed and clinically trialed for blocking the TGFβ signaling pathway. These molecules are not pro-oncogenic response-specific but block all signaling effects induced by TGFβ. Nonetheless, targeting the activation of TGFβ signaling with maximized specificity and minimized toxicity can enhance the efficacy of therapeutic approaches against this signaling pathway. The molecules that are used to target TGFβ are non-cytotoxic to cancer cells but designed to curtail the over-activation of invasion and metastasis driving TGFβ signaling in stromal and cancer cells. Here, we discussed the critical role of TGFβ in tumorigenesis, and metastasis, as well as the outcome and the promising achievement of TGFβ inhibitory molecules in the treatment of cancer.
MeSH term(s)	Humans ; Neoplasms/drug therapy ; Transforming Growth Factor beta/metabolism ; Signal Transduction ; Cell Differentiation ; Carcinogenesis ; Tumor Microenvironment
Chemical Substances	Transforming Growth Factor beta
Language	English
Publishing date	2023-03-27
Publishing country	Netherlands
Document type	Journal Article ; Review
ZDB-ID	80121-5
ISSN	1879-0712 ; 0014-2999
ISSN (online)	1879-0712
ISSN	0014-2999
DOI	10.1016/j.ejphar.2023.175678
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