Javed Khan, M.D.
Javed  Khan, M.D.
Deputy Chief
Senior Investigator
Head, Oncogenomics Section

The mission of the Oncogenomics Section is to harness the power of high throughput genomic and proteomic methods to improve the outcome of children with high-risk metastatic, refractory and recurrent cancers. The research goals are to integrate the data, decipher the biology of these cancers and to identify and validate biomarkers and novel therapeutic targets and to rapidly translate our findings to the clinic.

Areas of Expertise
1) oncogenomics, 2) genomics, 3) proteomics

Contact Info

Javed Khan, M.D.
Center for Cancer Research
National Cancer Institute
Building 37, Room 2016B
Bethesda, MD 20892
301-435-2937
khanjav@mail.nih.gov
Link to Clinicaltrials.gov Protocol ID Referral Phone

A Comprehensive Omics Analysis of Pediatric Oncology Solid Tumors and Establishment of a Repository for Related Biological Studies

NCI-10-C-0086 1-877-624-4878

Mission of the Oncogenomics Section

The mission of the Oncogenomics Section is to harness the power of high throughput genomic and proteomic methods to improve the outcome of children with high-risk metastatic, refractory and recurrent cancers. The research goals are to integrate the data, decipher the biology of these cancers and to identify and validate biomarkers and novel therapeutic targets and to rapidly translate our findings to the clinic. For more information about our research, visit the Oncogenomics Section website.

1. Comprehensive Omics Analysis: a) Applying high-throughput genomics, proteomics mathematical modeling and bioinformatics to characterize currently incurable malignancies including metastatic, resistant and relapsed tumors for the identification and validation of biomarkers and therapeutic targets. b) Genome wide association studies and mutational screening of germ-line DNA.

2. Targeted Therapeutics: a) High-throughput siRNA, small molecule, natural products, and drug screening for high-risk pediatric malignancies. b) Development of molecularly targeted therapeutic agents against existing and newly identified targets.

3. Translational Oncology: Leverage the existing clinical and scientific strengths within the Genetics Branch including phase 1/2 therapeutics, immune/vaccine therapy and molecular biology to translate these findings to the clinic in an environment where there is state-of-the-art clinical care.

Scientific Focus Areas:
Cell Biology, Computational Biology, Genetics and Genomics, Molecular Biology and Biochemistry, Systems Biology
  1. Orentas RJ, Nordlund J, He J, Sindiri S, Mackall C, Fry TJ, Khan J.
    Front Oncol. 4: 134, 2014. [ Journal Article ]
  2. Shern JF, Chen L, Chmielecki J, Wei JS, Patidar R, Rosenberg M, Ambrogio L, Auclair D, Wang J, Song YK, Tolman C, Hurd L, Liao H, Zhang S, Bogen D, Brohl AS, Sindiri S, Catchpoole D, Badgett T, Getz G, Mora J, Anderson JR, Skapek SX, Barr FG, Meyerson M, Hawkins DS, Khan J.
    Cancer Discov. 4: 216-31, 2014. [ Journal Article ]
  3. Shah N, Wang J, Selich-Anderson J, Graham G, Siddiqui H, Li X, Khan J, Toretsky J.
    Clin. Cancer Res. 20: 4400-12, 2014. [ Journal Article ]
  4. Brohl AS, Solomon DA, Chang W, Wang J, Song Y, Sindiri S, Patidar R, Hurd L, Chen L, Shern JF, Liao H, Wen X, Gerard J, Kim JS, Lopez Guerrero JA, Machado I, Wai DH, Picci P, Triche T, Horvai AE, Miettinen M, Wei JS, Catchpool D, Llombart-Bosch A, Waldman T, Khan J.
    PLoS Genet. 10: e1004475, 2014. [ Journal Article ]
  5. Metaferia B, Wei JS, Song YK, Evangelista J, Aschenbach K, Johansson P, Wen X, Chen Q, Lee A, Hempel H, Gheeya JS, Getty S, Gomez R, Khan J.
    PLoS ONE. 8: e58870, 2013. [ Journal Article ]

Dr. Khan obtained his bachelor's degree in 1984 and his master's degrees in 1989 in immunology and parasitology at England's University of Cambridge. He subsequently obtained his M.D. there and the postgraduate degree of MRCP (Membership of the Royal College of Physicians), equivalent to board certification in the United States. After clinical training in internal medicine and pediatrics as well as other specialties, he received a Leukemia Research Fellowship. In May 2001, Dr. Khan joined the Pediatric Branch, NCI, as a tenure track investigator. Dr. Khan and colleagues have published a new model for diagnosis of cancer using artificial neural networks (ANN), a form of artificial intelligence, and microarray technology. In April 2001, Dr. Khan was recognized by the American Association for Cancer Research for his work in tumor profiling by receiving a Scholar in Training Award. Recently Dr Khan has led an international collaboration to perform comprehensive analysis of pediatric cancer genomes using next generation sequencing strategies.

Name Position
Sivasubramanian (Baskar) Baskar Ph.D. Research Biologist
Andrew Brohl M.D. Guest Researcher
Wendy Chang M.D. Clinical Fellow
Hsien-Chao Chou Bioinformatics Analyst (Contr.)
James Edwards Special Volunteer
Sarah Faizy Special Volunteer
Joana Gracamarques Guest Researcher
Berkley Gryder Ph.D. Postdoctoral Fellow (CRTA)
JoLynne Harenza Research Collaborator
Jianbin He Bioinformatics Specialist (Contr)
Hongling Liao B.S. Research Biologist (Contr)
Cheng-Ho Lin M.D., Ph.D. Consultant (Contr.)
Sean O'Brien Postbaccalaureate Fellow
Rajesh Patidar M.S. Bioinformatics Specialist (Contr)
John Shern M.D. Clinical Fellow
Nityashree Shivaprasad M.S. Predoctoral Fellow
Sivasish Sindiri M.S. Bioinformatics Specialist (Contr)
Young Song Ph.D. Research Biologist
Jianjun Wang Ph.D. Bioinformatics Specialist (Contr)
Jun S. Wei, Ph.D. Staff Scientist
Xinyu Wen M.S. Bioinformatics Specialist (Contr)
Marielle Yohe M.D., Ph.D. Clinical Fellow
Shile Zhang B.S. Predoctoral Fellow

Clinical Trials

Link to Clinicaltrials.gov Protocol ID Referral Phone

A Comprehensive Omics Analysis of Pediatric Oncology Solid Tumors and Establishment of a Repository for Related Biological Studies

NCI-10-C-0086 1-877-624-4878

Research

Mission of the Oncogenomics Section

The mission of the Oncogenomics Section is to harness the power of high throughput genomic and proteomic methods to improve the outcome of children with high-risk metastatic, refractory and recurrent cancers. The research goals are to integrate the data, decipher the biology of these cancers and to identify and validate biomarkers and novel therapeutic targets and to rapidly translate our findings to the clinic. For more information about our research, visit the Oncogenomics Section website.

1. Comprehensive Omics Analysis: a) Applying high-throughput genomics, proteomics mathematical modeling and bioinformatics to characterize currently incurable malignancies including metastatic, resistant and relapsed tumors for the identification and validation of biomarkers and therapeutic targets. b) Genome wide association studies and mutational screening of germ-line DNA.

2. Targeted Therapeutics: a) High-throughput siRNA, small molecule, natural products, and drug screening for high-risk pediatric malignancies. b) Development of molecularly targeted therapeutic agents against existing and newly identified targets.

3. Translational Oncology: Leverage the existing clinical and scientific strengths within the Genetics Branch including phase 1/2 therapeutics, immune/vaccine therapy and molecular biology to translate these findings to the clinic in an environment where there is state-of-the-art clinical care.

Scientific Focus Areas:
Cell Biology, Computational Biology, Genetics and Genomics, Molecular Biology and Biochemistry, Systems Biology

Publications

  1. Orentas RJ, Nordlund J, He J, Sindiri S, Mackall C, Fry TJ, Khan J.
    Front Oncol. 4: 134, 2014. [ Journal Article ]
  2. Shern JF, Chen L, Chmielecki J, Wei JS, Patidar R, Rosenberg M, Ambrogio L, Auclair D, Wang J, Song YK, Tolman C, Hurd L, Liao H, Zhang S, Bogen D, Brohl AS, Sindiri S, Catchpoole D, Badgett T, Getz G, Mora J, Anderson JR, Skapek SX, Barr FG, Meyerson M, Hawkins DS, Khan J.
    Cancer Discov. 4: 216-31, 2014. [ Journal Article ]
  3. Shah N, Wang J, Selich-Anderson J, Graham G, Siddiqui H, Li X, Khan J, Toretsky J.
    Clin. Cancer Res. 20: 4400-12, 2014. [ Journal Article ]
  4. Brohl AS, Solomon DA, Chang W, Wang J, Song Y, Sindiri S, Patidar R, Hurd L, Chen L, Shern JF, Liao H, Wen X, Gerard J, Kim JS, Lopez Guerrero JA, Machado I, Wai DH, Picci P, Triche T, Horvai AE, Miettinen M, Wei JS, Catchpool D, Llombart-Bosch A, Waldman T, Khan J.
    PLoS Genet. 10: e1004475, 2014. [ Journal Article ]
  5. Metaferia B, Wei JS, Song YK, Evangelista J, Aschenbach K, Johansson P, Wen X, Chen Q, Lee A, Hempel H, Gheeya JS, Getty S, Gomez R, Khan J.
    PLoS ONE. 8: e58870, 2013. [ Journal Article ]

Biography

Dr. Khan obtained his bachelor's degree in 1984 and his master's degrees in 1989 in immunology and parasitology at England's University of Cambridge. He subsequently obtained his M.D. there and the postgraduate degree of MRCP (Membership of the Royal College of Physicians), equivalent to board certification in the United States. After clinical training in internal medicine and pediatrics as well as other specialties, he received a Leukemia Research Fellowship. In May 2001, Dr. Khan joined the Pediatric Branch, NCI, as a tenure track investigator. Dr. Khan and colleagues have published a new model for diagnosis of cancer using artificial neural networks (ANN), a form of artificial intelligence, and microarray technology. In April 2001, Dr. Khan was recognized by the American Association for Cancer Research for his work in tumor profiling by receiving a Scholar in Training Award. Recently Dr Khan has led an international collaboration to perform comprehensive analysis of pediatric cancer genomes using next generation sequencing strategies.

Team

Name Position
Sivasubramanian (Baskar) Baskar Ph.D. Research Biologist
Andrew Brohl M.D. Guest Researcher
Wendy Chang M.D. Clinical Fellow
Hsien-Chao Chou Bioinformatics Analyst (Contr.)
James Edwards Special Volunteer
Sarah Faizy Special Volunteer
Joana Gracamarques Guest Researcher
Berkley Gryder Ph.D. Postdoctoral Fellow (CRTA)
JoLynne Harenza Research Collaborator
Jianbin He Bioinformatics Specialist (Contr)
Hongling Liao B.S. Research Biologist (Contr)
Cheng-Ho Lin M.D., Ph.D. Consultant (Contr.)
Sean O'Brien Postbaccalaureate Fellow
Rajesh Patidar M.S. Bioinformatics Specialist (Contr)
John Shern M.D. Clinical Fellow
Nityashree Shivaprasad M.S. Predoctoral Fellow
Sivasish Sindiri M.S. Bioinformatics Specialist (Contr)
Young Song Ph.D. Research Biologist
Jianjun Wang Ph.D. Bioinformatics Specialist (Contr)
Jun S. Wei, Ph.D. Staff Scientist
Xinyu Wen M.S. Bioinformatics Specialist (Contr)
Marielle Yohe M.D., Ph.D. Clinical Fellow
Shile Zhang B.S. Predoctoral Fellow