Mohammed I. Khan

Mohammed I. Khan
Stanford University | SU · Department of Otolaryngology

PhD

About

48
Publications
12,342
Reads
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350
Citations
Additional affiliations
October 2021 - present
Stanford Medicine
Position
  • PostDoc Position
March 2018 - September 2021
The University of Western Ontario
Position
  • PostDoc Position
May 2011 - March 2018
Wojskowy Instytut Medyczny
Position
  • Research Assistant
Education
May 2013 - November 2017
Wojskowy Instytut Medyczny
Field of study
  • oncology

Publications

Publications (48)
Article
Full-text available
Anaplastic thyroid cancer (ATC) is a rare, aggressive form of undifferentiated thyroid cancer, which exhibits rapid progression and is almost universally fatal. At least a subset of ATC is thought to arise from pre-existing well-differentiated thyroid cancer, most frequently papillary thyroid cancer (PTC). While PIK3CA mutations are rare in PTC, th...
Article
Purpose/Objective(s) Human papillomavirus-associated (HPV+) head and neck squamous cell carcinoma (HNSCC) is the fastest rising cancer in North America, with generally favourable prognosis. There is significant interest in treatment de-escalation for these patients, but 15-30% of patients recur after primary treatment, reflecting a need for improve...
Preprint
Purpose Human papillomavirus-associated (HPV ⁺ ) head and neck squamous cell carcinoma (HNSCC) is the fastest rising cancer in North America. There is significant interest in treatment de-escalation for these patients given the generally favourable prognosis. However, 15-30% of patients recur after primary treatment, reflecting a need for improved...
Article
Background: Numerous studies of head and neck squamous cell carcinoma (HNSCC) have demonstrated disparate outcomes by race and ethnicity. Beyond known associations with socioeconomic variables, whether these are also associated with differences in tumor molecular composition has thus far been poorly explored. Methods: We downloaded clinical and...
Article
Full-text available
Loss of the 3p chromosome arm has previously been reported to be a biomarker of poorer outcome in both human papillomavirus (HPV)-positive and HPV-negative head and neck cancer. However, the precise operational measurement of 3p arm loss is unclear and the mutational profile associated with the event has not been thoroughly characterized. We downlo...
Article
Purpose Head and neck squamous cell carcinoma (HNSCC) affects various anatomical sites, which often dictates whether the cancer is managed with primary surgery or radiation. This study aimed to assess differences in single nucleotide variation (SNV), copy number, mRNA abundance, methylation, and tumor microenvironment (TME) between HPV-negative ora...
Article
Full-text available
Laryngeal squamous cell carcinoma (LSCC) from different subsites have distinct presentations and prognosis. In this study, we carried out a multiomic comparison of LSCC subsites. The Cancer Genome Atlas (TCGA) LSCC cohort was analyzed in the R statistical environment for differences between supraglottic and glottic cancers in single nucleotide vari...
Conference Paper
p>Background: Numerous studies have demonstrated poorer outcomes by race/ethnicity in head and neck squamous cell carcinoma (HNSCC). Although some studies have identified differences in socioeconomic status and access to care as important factors affecting outcomes, differences in the genomic and extracellular composition of tumors from patients of...
Article
Head and neck squamous cell carcinoma (HNSCC) is characterized by aggressive behavior with a tendency for recurrence and metastasis. Analyses of The Cancer Genome Atlas (TCGA) data and other cohort studies suggest that the loss of the chromosomal 3p arm is a frequent genetic event observed in both human papillomavirus positive and negative HNSCC. E...
Article
Full-text available
Anaplastic thyroid cancer (ATC) is a rare, but nearly uniformly fatal disease that is typically resistant to chemotherapy and radiation. Alternative strategies to target this cancer at a molecular level are necessary in order to improve dismal outcomes for ATC patients. We examined the effects of flavopiridol, a CDK inhibitor, in a panel of ATC cel...
Article
Full-text available
Clear cell renal cell carcinoma (ccRCC) is the most common kidney cancer. Prognosis for ccRCC is generally poor since it is largely resistant to chemo- and radiotherapy. Many studies suggested that cancer stem cells/tumor initiating cells (CSCs/TICs) are responsible for development of tumor, disease progression, aggressiveness, metastasis and drug...
Article
Objectives Survival in head and neck squamous cell carcinoma (HNSCC) has been associated with patient sex, typically with males experiencing poorer outcomes. It is unclear if this disparity is based in divergent tumor biology. We analyzed the TCGA HNSCC cohort to uncover disparities in the somatic single nucleotide variation (SNV), copy number alte...
Article
Full-text available
The increase in the life expectancy of patients with renal cell carcinoma (RCC) in the last decade is due to changes that have occurred in the area of preclinical studies. Understanding cancer pathophysiology and the emergence of new therapeutic options, including immunotherapy, would not be possible without proper research. Before new approaches t...
Article
Objectives: Spleen tyrosine kinase (SYK) is a promoter of cell survival in a variety of cell types, including normal and cancerous epithelial cells. We hypothesized that SYK would an important therapeutic target to inhibit for the treatment of HNSCC. Materials and methods: SYK protein abundance in patient tumours was evaluated. SYK protein and m...
Article
Full-text available
Background: The genomic landscape of head and neck cancer has been reported through The Cancer Genome Atlas project. We attempt to determine if high-risk human papillomavirus (HPV) or frequently mutated genes are correlated with survival in an oral cancer cohort. Methods: Patient demographic data along with data from final pathology was collecte...
Article
Full-text available
PI3‐kinase (PI3K) is aberrantly activated in head and neck squamous cell carcinomas (HNSCC) and plays a pivotal role in tumorigenesis by driving Akt signalling, leading to cell survival and proliferation. Phosphorylation of Akt Thr308 by PI3K‐PDK1 and Akt Ser473 by mTOR complex 2 (mTORC2) activates Akt. Targeted inhibition of PI3K is a major area o...
Article
Purpose: Dental arch dimensions are important not only in dentistry (e.g. orthodontists and prosthodontists, and forensic odontology), but also other medical fields, biology, biometrics, painting or sculpture. This study aimed to determine these dimensions in Vietnamese children and compare these measurements across four ethnic groups and genders....
Article
Objectives: The PI3K/AKT/mTOR pathway is frequently altered in head and neck squamous cell cancer (HNSCC), making this pathway a logical therapeutic target. However, PI3K targeting is not universally effective. Biomarkers of response are needed to stratify patients likely to derive benefit and exclude those unlikely to respond. Materials and meth...
Article
Full-text available
The aim of this study was to compare effect of everolimus on growth of different renal cell carcinoma (RCC) populations and develop experimental design to measure the early response of everolimus in clear cell RCC (ccRCC) cell lines including renal cancer stem cells. Effect of everolimus on RCC cell lines which include primary (786-0) and metastati...
Article
Full-text available
Background The anti-tumor properties of cannabinoids have been investigated in many in vitro and in vivo studies. Many of these anti-tumor effects are mediated via cannabinoid receptor types 1 and 2 (CB1 and CB2), comprising the endocannabinoid system (ECS). In this study, we investigated the ECS based on CB1 and CB2 receptor gene and protein expre...
Article
Full-text available
The median survival rate of patients with metastatic renal carcinoma is approximately 10 to 12 months, with up to 50% of patients developing metastases in the lung parenchyma. The molecular basis for metastatic development remains unclear. In the present study, we used renal cell carcinoma (RCC) cells and bronchial epithelial cells, representing me...
Article
Full-text available
Background Recent advancement in cancer research has shown that tumors are highly heterogeneous, and multiple phenotypically different cell populations are found in a single tumor. Cancer development and tumor growth are driven by specific types of cells—stem cell-like cancer cells (SCLCCs)—which are also responsible for metastatic spread and drug...
Data
Representative image of the Hippo signaling pathway according to the imported list of common genes differentially expressed in the CD105+ cells from primary and metastatic RCC. Red and blue color arrows represent up- and down- regulated genes, respectively. (TIF)
Data
List of up- and down-regulated genes in ASE-5063 (healthy kidney) vs CD105(Caki-2) cells. (DOCX)
Data
Common differentially (up-and down-regulated) expressed genes between CD105(Caki-2) and CD105(ACHN). (DOCX)
Data
Clonogenic potential of RCC cell lines under different serum concentration and normoxic and hypoxic condition. (TIF)
Data
List of up- and down-regulated genes in ASE-5063 (healthy kidney) vs CD105(ACHN) cells. (DOCX)
Article
Full-text available
In recent years, genome-wide RNA expression analysis has become a routine tool that offers a great opportunity to study and understand the key role of genes that contribute to carcinogenesis. Various microarray platforms and statistical approaches can be used to identify genes that might serve as prognostic biomarkers and be developed as antitumor...
Article
Full-text available
The endocannabinoid system (ECS) is a group of neuromodulatory lipids and their receptors, which are widely distributed in mammalian tissues. ECS regulates various cardiovascular, nervous, and immune system functions inside cells. In recent years, there has been a growing body of evidence for the use of synthetic and natural cannabinoids as potenti...
Article
Full-text available
In recent years, cancer stem cells (CSCs)/tumor initiating cells (TICs) have been identified inside different tumors. However, currently used anti-cancer therapies are mostly directed against somatic tumor cells without targeting CSCs/TICs. CSCs/TICs also gain resistance to chemotherapies/radiotherapies. For the development of efficient treatment s...
Conference Paper
Background: Cancer cell drug resistance is regulated by arising molecular and biochemical abnormalities in cancer cell on one hand and by tumor micro-environmental factors on the other. A complex network of different cell-cell and cell-matrix interactions and auto-, para- and endocrine signals influence ccRCC cells proliferation. These molecular fa...
Article
Full-text available
Metastasis is a complex process that propagates cells from the primary or initial site of the cancer occurrence to distant parts of the body. Cancer cells break from the cancer site and circulate through the bloodstream or lymph vessels, allowing them to reach nearly all parts of the body. These circulating tumour cells (CTCs) contain specialized m...
Article
Metastasis is a complex process that propagates cells from the primary or initial site of the cancer occurrence to distant parts of the body. Cancer cells break from the cancer site and circulate through the bloodstream or lymph vessels, allowing them to reach nearly all parts of the body. These circulating tumour cells (CTCs) contain specialized m...
Article
488 Background: Tumor microenvironment is a complex network of multiple cell types, paracrine and endocrine signaling molecules, ECM and physical factors, which orchestrate the fate of tumor progression. In the field of ccRCC little attention has been paid to non-immunologic factors in tumor niche. Objectives of this study include the analysis of h...
Article
Full-text available
Cancer is a major health problem and cause of death worldwide that accounted for 7.6 million deaths in 2008, which is projected to continue rising with an estimated 13.1 million deaths in 2030 according to WHO. Breast cancer is the leading cause of cancer-based death among women around the world and its incidence is increasing annually with a simil...
Article
Biodiversity networks and databases will play a crucial role in managing the vast and increasing information on biodiversity components all around the world. India with its emerging strength in Information Technology is in an excellent position to take up the challenge of developing robust information networks and databases.

Questions

Questions (5)
Question
Is this accurate to perform RNA-seq DEGs analysis without having matched normal for tumor samples. I might be using DEseq2 or EdgeR for DEGs. I am not sure if these programs can perform analysis without matched-normal.
Question
Hi, I am trying to screen cells based on CRISPR-cas9 KO of my target gene. The clones were derived from a single cell after CRISPR-cas9 KO. It would be very robust to extract DNA from each clone in 96 wells. So I tried to perform direct PCR after scratching cells using a 200 ul tip, unfortunately no success. Any recommendation to make it work? Thank you!
Question
In Agilent two-color microarray experiment how to separate data from Cy5 and Cy3 in a single sample using GeneSpringGX and how to select parameter that it can see only one color at a time?
Question
Does anyone know the positive control cells for stem cell marker CD133.
Question
I need to analyses some pathways connected with cancer stem cell related genes. Waiting for your answers. Thank you

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Projects

Projects (5)
Archived project
Program „Diamentowy Grant", ogłoszony 6 listopada 2012 Kierownik projektu:stud. Anna Kornakiewicz - Klinika Onkologii Tytuł projektu: Przełamywanie oporności raka jasnokomórkowego nerki na ewerolimusem /Overcoming renal cell cancer everolimus resistance Opiekun projektu: prof. dr hab. n. med. Cezary Szczylik Data rozpoczęcia realizacji projektu: 2013-07-16 Termin zakończenia realizacji projektu: 2016-07-15
Project
PROJECT OPUS 7: „Identification of new markers of clear cel carcinoma stem cells – in vivo mouse study emploing molecular imaging”: project no 8/8856 ( agreement no UMO-2014/13/B/NZ1/04010 ); 10.03.2015-09.03.2018; subsidised by National Science Centre ( 1 370 657 PLN )