Cancer Biomarker Database

A comprehensive oncology biomarker database with cancer companion diagnostic pathway maps

With the growing trend of personalized healthcare concept and advancement in biomarker research, there is a need for a comprehensive cancer biomarker database that can help in finding new diagnostic, prognostic and companion diagnostic biomarkers. Future success in developing innovative personalized cancer drugs lies in adopting new differential diagnostic procedures along with companion biomarker assays to identify the most appropriate cancer patient, tumor type and disease state.

Sciclips has launched a comprehensive diagnostic and prognostic cancer biomarker database with cancer companion diagnostics biomarker pathway maps. This database contains more than 8500 discovery phase or preclinical or clinical cancer biomarkers that were identified or validated using patient derived samples. This database covers a wide variety of biomarkers such as blood cancer biomarkers (peripheral blood, plasma, serum etc), tumor biomarkers, urinary cancer biomarkers, fecal cancer biomarkers, saliva cancer biomarkers, breath cancer biomarkers etc.

Our cancer biomarker database contains biomarkers for more than 100 types of cancer. For each cancer type, the biomarkers are classified into 1) diagnostic biomarkers: for the diagnostics application, 2) disease predictive/risk assessment biomarkers: for predicting the risk or genetic susceptibility in developing cancer, 3) drug efficacy/response biomarkers: biomarkers for studying the efficacy of anti-cancer drug treatments, including predictive biomarkers and 4) prognostic biomarkers: for determining the clinical outcome in cancer patients. The types of cancer biomarkers include protein biomarkers, miRNA biomarkers, SNP biomarkers, Gene expression biomarkers, epigenetic biomarkers and metabolomic biomarkers. Patient/sample details, experimental results/observations, biological and molecular functional analysis, biological process analysis, protein-protein interaction networks of each biomarker are listed in this database.This database will be a useful tool for the discovery of new cancer biomarkers as well as clinical validation of biomarkers.

The cancer companion diagnostics biomarker pathway database is an innovative database of protein-protein interactions networks of cancer drug efficacy/response/predictive biomarkers. A model pathway from the database is shown in Fig.1. This pathway maps can be useful in identifying new anti-cancer drug predictive and response biomarkers, for the discovery of new drug targets with improved efficacy or targeted therapy to overcome side effects, patient stratification, developing personalized strategies for monitoring cancer progression, treatment, diagnosis and prognosis.

Please follow this link to view the database (preview is available) : Details: http://www.sciclips.com/sciclips/diagnostic-prognostic-cancer-biomarker-main.do

Fig.1: Companion diagnostics pathway analysis of biomarkers associated with doxorubicin cardiotoxicity in childhood acute lymphoblastic leukemia (ALL)- please see the database for more details.

Recent US Patent Applications in Drug Discovery

Highlights of recent US patent applications in drug discovery published on September 29, 2011:

1. Nicotinic acetylcholine receptor as a drug target for the treatment of peripheral nerve sensory loss
2. New kinase inhibitors for enhancing memory and learning and for treating Alzheimer’s disease
3. Combination therapy for treating psoriasis
4. Combination of glucocorticoid receptor (GR) ligand and a V-ATPase inhibitor for treating autoimmune and inflammatory diseases
5. Soluble CD47 binding for treating autoimmune and inflammatory disorders
6. DEPDC1- ZNF224 protein interaction as a therapeutic drug target for treating bladder cancer
7. Splice-splice switching oligomers for TNF superfamily receptors for the treatment of various diseases
8. Bicyclic peptidomimetic inhibitors of aspartyl-proteases for the treatment of infectious diseases
9. Triazolopyrimidinones as fatty acid binding protein (FABP) inhibitors
10. Spiro azepane-ox-azolidinones as voltage gated Kv1.3 potassium channel blockers
11. Combination therapy for treating infantile spasms or refractory adult seizureshttp://sciclips.wordpress.com/?p=500&preview=true
12. Combination therapy for the treatment of fungal infections
13. Compounds having the capability to release carbon monoxide (CO) in vivo for treating rheumatoid arthritis
14. Compounds that inhibit MMP-9, VEGFR2 and inflammation-mediated cytokines for treating dry eye syndrome and inflammatory eye disease
15. Beta-N-acetylglucosaminidase as a drug target for treating lysosomal storage disorders
16. Vanoxerine for treating cardiac arrhythmia
17. Combination therapy for treating schizophrenia
18. Huperzine A derivatives for treating migraine
19. siRNA targeting ZEB1 and BLIMP-1 for treating asthma
20. siRNA targeting transthyretin for treating leptomeningeal amyloidosis or familial amyloid polyneuropathy
21. siRNA targeting ZFAT gene for the treatment of leukemia
22. Alpha-1-antitrypsin for the treatment of tissue necrosis
23. Artificial microRNA based acyl-CoA:Cholesterol Acyltransferase 1 (ACAT1) inhibitors for treating Alzheimer’s disease
24. Chromenone derivatives as transient receptor potential vanilloid 3 (TRPV3) antagonists
25. Oral composition containing daidzein and cyanidin for treating acne
26. Treating muscle wasting in patients with non-small cell lung cancer (NSCLC)
27. Combination therapy for treating polycythemia vera
28. Vitamin U for healing wounds and improving skin wrinkles
29. Monocholine succinate salts for the treatment of depression, anxiety, schizophrenia, sleep disorder, and epilepsy
30. S1P receptor modulators for treating multiple sclerosis
31. Transglutaminase II inhibitors, as a tocolytic agent, for treating preterm labour
32. Nanoparticle based photodynamic therapy for the treatment of cancer
33. Systemic drug delivery through nails
34. Proliferation inhibitor of Helicobacter pylori
35. Contraceptive peptide from spider venom

Details: http://www.sciclips.com/sciclips/drug-discovery-news.do

Highlights of Recent Biomarker and Molecular Diagnostics Patents

Highlights of recent US patents (issued) and US/WO(PCT) patent applications:

1. Agouti-related protein as a biomarker for schizophrenia
2. MMP-3 as a biomarker for major depressive disorder
3. ABCG2 and CD44 as colon cancer stem cell markers
4. Serum amyloid A (SAA) as a biomarker for the diagnosis of myocardial infarction
5. Molecular method for the detection of Candida albicans
6. Eotaxin-3 as a biomarker for eosinophilic esophagitis
7. Biomarkers of oxidative stress
8. SNP markers for determining the prognosis of a clinical response to antidepressants
9. Cell based assay for the diagnosing interstitial cystitis
10. IL-17 as a biomarker for predicting the efficacy of IFN-beta therapy in multiple sclerosis patients
11. Hypoxia-inducible protein 2 (HIG2) as a diagnostic biomarker for clear cell renal cell carcinoma
12. mGluR4 imaging markers for the diagnosis of CNS disorders
13. Benzothiazoles as diagnostic imaging biomarkers of Alzheimer’s disease
14. EMT and tumor stem cell markers as surrogate markers to stratify breast cancer patients for personalized therapies
15. Soluble endoglin as a biomarker for diagnosing pre-eclampsia and eclampsia
16. Serum biomarker for the early on-set detection of a renal tubular cell injury
17. Diagnosing Alzheimer’s disease using a giant magnetoresistance sensor
18. Non-invasive prenatal diagnosis of Down’s syndrome and Turner’s syndrome using maternal plasma
19. Peripheral blood immune cell based method for diagnosing allergic asthma in patients
20. Biomarkers in the patient’s Bruch’s membrane for the diagnosis of age-related macular degeneration
21. A panel of multiple serum biomarkers for the diagnosis of major depressive disorder
22. Apolipoprotein CIII as a diagnostic biomarker of type I diabetes
23. Beta arrestin 2 as a biomarker for the diagnosis of insulin resistance
24. A cell based method for diagnosing asthma
25. Prenatal diagnosis of a fetal chromosomal aneuploidy
26. Personalized medicine approach for FOLFOX treatment in cancer patients
Details: http://www.sciclips.com/sciclips/biomarker-news.do

Recent Biomarker Publications

1. PTEN protein loss was associated with decreased time to metastasis in prostate cancer patients

2. Prognostic microRNA biomarkers for late stage gastric cancer

3. Biomarkers of albuminuria in individuals with type 1 and type 2 diabetes

4. Angiopoietin-1 as a poor prognostic biomarker for survival in patients with myelodysplastic syndromes

5. Potential gene expression biomarkers of bipolar disorder

6. Leukemia stem cells as prognostic biomarkers in acute myeloid leukemia (AML) patients

7. Biomarkers for determining the risk of developing congenital hydrocephalus

8. Urinary hepcidin-25 as a biomarker for the early prediction of iron deficiency in children

9. ProNGF as a diagnostic biomarker of lung cancer, breast cancer and thyroid cancer

10. Mitochondrial DNA deletions as a biomarker for the diagnosis of prostate cancer

11. HIF-1 alpha as a biomarker of preeclampsia

12. Biomarkers for the diagnosis of peripheral artery disease (PAD)

Details: http://www.sciclips.com/sciclips/biomarker-news.do

“Idea stealing”- does it affect scientific innovation and creativity?

It is very interesting to note that “stealing others idea’ is a widely accepted common practice in research, both in academic and industrial laboratories. In a society where stealing, even petty things, is considered as a punishable crime, people steal ideas openly, without any hesitation, in academic and industrial organizations. Stealing expressions or ideas from other’s speech or articles (plagiarism) is considered wrong and can be punishable too. So many people have lost their reputation and career as a result of our harsh approach on preventing plagiarism. Conversely, people get away with stealing others ideas in a research set-up for making money or for attaining power or position. We all agree that this is wrong and unethical; however, most of the researchers may feel helpless and do not how to address this issue without jeopardizing their current and future job security. In this blog, we will discuss the direct scientific and socio-economic impact of “idea stealing” in a scientific research environment, particularly in industrial R&D laboratories. Read more: http://www.sciclips.com/sciclips/blogArticle.do?id=1016&blog=

Recent Biomarker Research Highlights

1. Protein chip for diagnosis of sepsis
2. c-myb alternative splicing variants as potential biomarkers of leukemia
3. Biomarkers for the diagnosis of anorchia
4. Biomarkers for assessing therapeutic efficacy in patients with Hutchinson-Gilford progeria syndrome
5. IGF-1 as a biomarker of abdominal aortic aneurysms
6. Serum N-glycans as colorectal cancer biomarkers
7. Gene markers associated with NEO personality traits
8. Human intelligence is highly heritable and polygenic
9. Mannose 6-phosphate as a biomarker for the diagnosis of mucolipidosis Type II
10. ME-2 antigen as a biomarker for the diagnosis of endometriosis
11. Uromodulin and Kinins as biomarkers for the diagnosis of chronic allograft dysfunction
12. Micronucleus as a biomarker to screen women who are at risk of developing cervical cancer
13. Biomarkers of neuronal ceroid lipofuscinosis
14. Biomarkers to identify CKD patients in whom sodium targeting can improve blood pressure and proteinuria
15. Mitochondrial DNA copy number as a possible biomarker of pancreatic cancer
16. Biomarkers associated with higher risk of progression in lacunar strokes
17. XRCC1 SNP biomarker to predict genetic susceptibility for papillary thyroid carcinoma
18. HESRG as a specific biomarker for intracranial germinoma and embryonal carcinoma
19. Predictive biomarkers of efavirenz-based HAART-induced liver injury in HIV patients
20. Biomarker for predicting the development of cerebral vasospasm after aneurysmal subarachnoid hemorrhage
Details: http://www.sciclips.com/sciclips/drug-discovery-news.do

Recent Biomarker Patents

1. Gene expression biomarkers for the detection of acute allograft rejection

2. Method for sequencing peptides and proteins using metastable-activated dissociation mass spectrometry

3. Epigenetic biomarkers for cervical cancer

4. Phospho-cErbB2 as a predictive biomarker for erbB2-directed cancer therapy

5. Metabolomic biomarkers for the diagnosis of prostate cancer relapse

6. Surrogate biomarkers for monitoring the efficacy of specific pharmacological chaperone in Pompe disease

7. miRNA biomarkers for diagnosing myelodysplastic disease syndrome

8. ADAM 12 as a urinary biomarker of bladder cancer

9. Metabolomic biomarkers for the diagnosis of heart failure

10. Biomarker for diagnosing the risk of developing cardiovascular diseases

11. Protein biomarkers for the diagnosis of schizophrenia

12. Noninvasive prenatal diagnosis of fetal aneuploidies using maternal blood

13. Lysyl tRNA synthetase (KRS) and laminin receptor (67LR) as biomarkers of lung cancer or breast cancer

14. Biomarkers for the diagnosis of B cell chronic lymphocytic leukemia (B-CLL)

15. A method of detecting circulating tumor cells (CTCs)

16. Autoantibody biomarkers of the cancer of gingivo-buccal complex

17. Direct quantitation of glycated hemoglobin in blood samples

18. Urinary Cyr61 protein as a diagnostic biomarker of breast cancer or ovarian cancer

19. Gene expression biomarkers for the prognosis in severe sepsis

20. Biomarker genes for the diagnosis of scleroderma

21. MicroRNA biomarkers for the prognosis of lung cancer

22. Biomarkers of systemic sclerosis

23. Biomarkers for diagnosing a form of lower back pain (LBP)

24. Biomarkers for the diagnosis of Kawasaki disease

Details: http://www.sciclips.com/sciclips/biomarker-news.do

Recent drug discovery patents

1. Glycine B as drug target for the treatment of neurological disorders

2. Synthetic antigen based malaria vaccine

3. Combination of therapy for the treatment of schizophrenia and bipolar disorder

4. Taxol for the treatment of atherosclerosis

5. MicroRNAs as drug targets for the treatment of chronic, non-healing wounds and acute wounds

6. MicroRNAs for the treatment of age-related macular degeneration or proliferative vitreal retinopathy

7. PYY peptide analogues for the treatment of diabetes and obesity

8. Neuregulin for the treatment of myocardial ischemia reperfusion injury

9. A1 adenosine receptor as drug target for the treatment of renal impairment

10. IL-7 receptor (CD127) as a drug target for the treatment of multiple sclerosis

11. Bifunctional inhibitors of DNA replication and repair proteins for the treatment of cancer

12. Inhibitors of SI00 protein binding interactions for the treatment of cancer

13. Low-affinity nerve growth factor receptor (NGFR) as a marker for differentiation in muscle stem cells

14. Differentiation of MSCs from pluripotent cells using activin and TGF-beta inhibitors

15. Depletion of pluripotent stem cells from a mixed cell population

16. Placental stem cells for the treatment of bone cancer

17. Isolation of multipotent cardiovascular progenitors from stem cells using cell surface markers

18. HSS1 and HSM1 proteins for the treatment of brain cancers

19. Prominin-1 derived peptides as angiogenesis agents

20. Peptide based combination therapy for obesity and diabetes

21. PDE1 inhibitor to treat pathological cardiac remodeling and heart failure

22. GPR119 G protein-coupled receptor modulators for the treatment of diabetes

23. Low molecular weight CDK inhibitor for the treatment of glioblastoma

24. Pyridine and pyrimidine based compounds as inhibitors of Wnt signaling for the treatment of cancer

25. Anti-cancer vaccine DNL complexes using dock-and-lock technology

26. DII4 as drug target of autoimmune diseases

27. C-peptide for treating erectile dysfunction associated with diabetes

28. Src family kinase /Nef protein interaction as a drug target for HIV-I

29. Cyclic tetrapeptide kappa opioid receptor (KOR) antagonists for the treatment of drug addiction

30. Combination therapy for cancer using oligonucleotide inhibitors of IGFBPs and clusterin

31. Wax synthase activity of a MTTGS as a drug target for tuberculosis

32. Nkx3.2 protein as a therapeutic drug target of osteoarthritis

33. Oligonucletode based inhibitors of PWWP domain protein for the treatment of neuroblastoma

Details: http://www.sciclips.com/sciclips/drug-discovery-news.do