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Sreenivasamurthy, S. K., Dey, G., Ramu, M., Kumar, M., Gupta, M. K., Mohanty, A. K., Harsha, H. C., Sharma, P., Kumar, N., Pandey, A., Kumar, A. and Prasad, T. S. K. (2013). A compendium of molecules involved in vector-pathogen interactions pertaining to malaria. Malaria Journal. 12, 216. [PubMed]
Polisetty, R. V., Gautam, P., Gupta, M. K., Sharma, R., Uppin, M. S., Challa, S., Ankathi, P., Purohit, A. K., Renu, D., Harsha,
H. C., Pandey, A. and Sirdeshmukh, R. (2013). Heterogeneous nuclear ribonucleoproteins and their interactors are a major class of deregulated proteins in anaplastic astrocytoma – a Grade III malignant glioma. Journal of Proteome Research. 12, 3128-3138. [PubMed]
Ambekar, S. A., Nirujogi, R. S.,
Srikanth, S. M., Chavan, S., Kelkar, D. S., Hinduja, I., Zaveri, K.,
Prasad, T. S. K., Harsha, H. C., Pandey, A. and Mukherjee, S. (2013).
Proteomic analysis of human follicular fluid: A new perspective towards
understanding folliculogenesis. Journal of Proteomics. 87, 68-77. [PubMed]
Marimuthu, A., Chavan, S., Sathe, G. J., Sahasrabuddhe, N. A., Srikanth, S. M., Renuse, S., Ahmad, S., Radhakrishnan, A., Barbhuiya, M. A., Kumar, R. V., Harsha, H. C., Sidransky, D., Califano, J., Pandey, A. and Chatterjee, A. (2013). Identification of head and neck squamous cell carcinoma biomarker candidates through proteomic analysis of cancer cell secretome. BBA - Proteins and Proteomics. 1834, 2308-2316. [PubMed]
Balakrishnan, L., Soman, S., Patil, Y. B., Advani, J., Thomas, J. K., Venkatesh, D. D., Urmila, K. K., Harsha, H. C., Prasad, T. S. K., Raju, R., Pandey, A., Dimitriadis, E., and Chatterjee, A. (2013). IL-11/IL11RA
receptor mediated signaling: a web accessible knowledgebase. Cell
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Marimuthu, A., Subbannayya, Y., Sahasrabuddhe, N. A.,
Balakrishnan, L., Syed, N., Sekhar, N. R., Katte, T. V., Pinto, S. M.,
Srikanth, S. M., Kumar, P., Pawar, H., Kashyap, M. K., Maharudraiah, J.,
Ashktorab, H., Smoot, D. T., Ramaswamy, G., Kumar, R. V., Cheng, Y., Meltzer,
S. J., Roa, J. C., Chaerkady, R., Prasad, T. S. K., Harsha, H.
C., Chatterjee,
A. and Pandey, A. (2012). SILAC-based quantitative proteomic analysis
of gastric cancer secretome. Proteomics - Clinical Applications. 7, 355-66.[PubMed]
Harsha, H. C., Pinto, S. M. and Pandey, A. (2013). Proteomic
strategies to characterize signaling pathways. Methods in Molecular
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Venugopal, A. K., Kumar, G. S. S., Selvan, L. D. N., Mahadevan, A., Renuse, S., Kumar, P., Pawar, H., Sahasrabuddhe, N. A., Suja, M. S., Ramachandra, Y. L., Prasad, T. S. K., Madhusudhana, S. N., Harsha, H. C., Chaerkady, R., Satishchandra, P., Pandey, A. and Shankar, S. K. (2013). Quantitative proteomics for identifying biomarkers for Rabies. Clinical Proteomics. 10, 3. [PubMed]
Kashyap, M. K., Pawar, H., Keerthikumar, S., Sharma,
J., Goel, R., Mahmood, R., Vijaya Kumar, M., Veerendra Kumar, K. V., Pandey,
A., Kumar, R. V., Prasad, T. S. K. and Harsha, H. C. (2013). Evaluation
of protein expression pattern of stanniocalcin 2, insulin-like growth
factor-binding protein 7, inhibin beta A and four and a half LIM domains
1 in esophageal squamous cell carcinoma. Cancer Biomarkers. 12, 1-9. [PubMed]
Kumar, G. S. S., Venugopal, A.
K., Mahadevan, A., Renuse, S., Harsha, H. C., Sahasrabuddhe,
N. A., Pawar, H., Sharma, R., Kumar, P., Rajagopalan, S., Waddell,
K., Ramachandra, Y. L.,
Satishchandra, P., Chaerkady, R., Prasad, T. S. K., Shankar, S. K. and Pandey,
A. (2012). Quantitative proteomics for identifying biomarkers for
tuberculous meningitis. Clinical Proteomics. 9, 12-24 [PubMed]
Soman, S., Raju, R., Sandhya, V. K., Advani, J., Khan, A. A.
, Harsha, H. C., Prasad, T. S. K., Sudhakaran, P. R., Pandey, A. and Adishesha, P. K. (2012).
A multicellular signal transduction network of AGE/RAGE signaling. Journal of Cell Communication and Signaling. 7, 19-23. [PubMed]
Kumar, G. S. S., Venugopal, A. K., Kashyap, M. K., Raju, R., Marimuthu, A., Palapetta, S. M., Subbannayya, Y., Goel, R., Chawla, A., Dikshit, J. B., Tata, P., Harsha, H. C., Maharudraiah, J., Ramachandra, Y. L., Satishchandra, P., Prasad, T. S. K., Pandey, A., Mahadevan, A. and Shankar, S. K. (2012). Gene expression profiling of tuberculous meningitis co-infected with HIV. Journal of Proteomics and Bioinformatics. 5, 235-244. [PubMed]
Kalra, H., Simpson, R. J., Ji, H., Aikawa, E., Altevogt,
P., Askenase, P., Bond, V. C., Borràs, F. E., Breakefield, X.,
Budnik, V., Buzas, E., Camussi, G., Clayton, A., Cocucci, E., Falcon-Perez,
J. M., Gabrielsson, S., Gho, Y. S., Gupta, D., Harsha, H. C., Hendrix,
A., Hill, A. F., Inaal, J. M., Jenster, G., Kiang, L. S., Krämer-Albers,
E-M., Llorente, A., Lötvall, J., Mincheva-Nilsson, L., Nazarenko,
I., Nieuwland, R., Nolte-'t Hoen, E. N. M., Pandey, A., Patel, T., Piper,
M. G., Pluchino, S., Prasad, T. S. K., Rajendran, L., Raposo, G., Record,
M., Reid, G. E., Sánchez-Madrid, F., Schiffelers, R. M., Siljander,
P., Stoorvogel, W., Taylor, D., Thery, C., Valadi, H., van Balkom, B.
W. M., Vázquez, J., Vidal, M., Yáñez-Mó, M.,
Zoeller, M. and Mathivanan, S. (2012). Vesiclepedia: A compendium for
extracellular vesicles with continuous community annotation. PLoS
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Gautam, P., Nair, S. C., Gupta, M. K., Sharma, R., Polisetty, R. V., Uppin, M. S., Challa, S., Puligopu, A. K., Ankathi, P., Purohit, A. K., Chandak, G. R., Harsha, H. C. and Sirdeshmukh, R. (2012). Proteins with altered levels in plasma from glioblastoma patients as revealed by iTRAQ-based quantitative proteomic analysis. PLOS ONE. 7, e46153. [PubMed]
Kim, M. S., Kuppireddy, S. V., Sakamuri, S.,
Singal, M., Getnet, D., Harsha, H. C., Goel, R., Balakrishnan,
L., Jacob, H. K. C., Kashyap, M. K., Tankala, S. G., Maitra, A.,
Iacobuzio-Donahue, C. A., Jaffee, E., Goggins, M. G., Velculescu,
V. E., Hruban, R. H. and Pandey, A. (2012). Rapid characterization
of candidate biomarkers for pancreatic cancer using cell microarrays
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Goel, R., Raju, R., Maharudraiah, J., Kumar, G. S. S., Ghosh, K., Kumar, A., Lashmi, P. T., Sharma, J., Sharma, R., Balakrishnan, L., Pan, A., Kandasamy, K., Christopher, R., Krishna, V., Mohan, S. S., Harsha, H. C., Mathur, P. P., Pandey, A. and Prasad, T. S. K. (2011). A signaling network of thyroid-stimulating hormone. Journal of Proteomics and Bioinformatics. 4, 238-241. [PubMed]
Polisetty, R. V., Gautam, P., Sharma, R., Harsha, H. C., Nair, S. C., Gupta, M. K., Uppin, M. S., Challa, S., Puligopu, A. K., Ankathi, P., Purohit, A. K., Chandak, G. R., Pandey, A. and Sirdeshmukh, R. (2012). LC-MS/MS analysis of differentially expressed glioblastoma membrane proteome reveals altered calcium signalling and other protein groups of regulatory functions. Molecular and Cellular Proteomics. 11, M111.013565. [PubMed]
Nagaraj, S. H., Harsha, H. C., Reverter, A., Colgrave,
M. L., Sharma, R., Andronicos, N., Hunt, P., Menzies, M., Lees, M.
S., Sekhar, N. R., Pandey, A. and Ingham, A. (2012). Proteomic analysis
of the abomasal mucosal response following infection by the nematode,
Haemonchus contortus, in genetically resistant and susceptible sheep. Journal
of Proteomics. 75, 2141-2152. [PubMed]
Prasad, T. S. K., Harsha, H. C., Keerthikumar,
S., Sekhar, N. R., Selvan, L. D. N., Kumar, P., Pinto, S. M., Muthusamy,
B., Subbannayya, Y., Renuse, S., Chaerkady, R.,
Mathur, P. P., Ravikumar,
R. and Pandey, A. (2012). Proteogenomic analysis
of Candida glabrata using high resolution mass spectrometry. Journal
of Proteome Research.
11, 247-260. [PubMed]
Goel, R., Harsha, H. C., Pandey, A. and Prasad,
T. S. K. (2012). Human Protein Reference Database
and Human Proteinpedia as resources for phosphoproteome analysis.
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Pawar, H., Sahasrabuddhe, N. A., Renuse, S., Keerthikumar,
S., Sharma, J., Kumar, G. S. S., Venugopal, A.,
Sekhar, N. R., Kelkar, D. S., Nemade, H., Khobragade,
S. N., Muthusamy, B., Kandasamy, K.,
Harsha, H. C., Chaerkady, R., Patole, M. S. and
Pandey, A. (2012). A proteogenomic approach to
map the proteome of an unsequenced pathogen
- Leishmania donovani. Proteomics. 12, 832-844.
[PubMed]
Pawar, H., Maharudraiah, J., Kashyap, M. K., Sharma,
J., Srikanth, M. S., Choudhary, R., Chavan, S.,
Sathe, G. J., Manju, H .C., Veerendra Kumar, K.
V., Vijayakumar, M., Sirdeshmukh, R., Harsha,
H. C., Prasad, T. S. K., Pandey, A. and Kumar,
R. V. (2012). Downregulation of cornulin in esophageal
squamous cell carcinoma. Acta Histochemica. 115, 89-99.
[PubMed]
Bhattacharjee, M., Raju, R., Radhakrishnan, A.,
Nanjappa, V., Muthusamy, B., Singh, K., Kuppusaami,
D., Lingala, B. T., Pan,
A., Mathur, P. P., Harsha, H. C., Prasad, T.
S. K., Atkins, G. J., Pandey, A. and Chatterjee, A. (2012). A bioinformatics resource for TWEAK-Fn14 signaling pathway. Journal of Signal Transduction. Article ID 376470. [PubMed]
Renuse. S., Harsha, H. C., Kumar, P., Acharya,
P. K., Sharma, J., Goel, R., Kumar, G. S. S.,
Raju, R., Prasad, T. S.
K., Slotta, T. and Pandey, A. (2012). Proteomic
analysis of an unsequenced plant -Mangifera indica. Journal
of Proteomics. 75, 5793-5796. [PubMed]
Radhakrishnan, A., Raju, R., Tuladhar, N., Subbannayya, T., Thomas,
J. K., Goel, R., Telikicherla, D., Palapetta, S.
M., Rahiman, B. A., Venkatesh, D. D., Urmila, K. K., Harsha,
H. C., Mathur, P. P., Prasad,
T. S. K., Pandey, A., Shemanko, C. and Chatterjee,
A. (2012). A pathway map of prolactin signaling. Journal of Cell
Communication and Signaling.
6, 169-173. [PubMed]
Goel, R., Harsha, H. C., Pandey, A. and Prasad, T. S. K. (2011). Human Protein Reference Database and Human Proteinpedia as resources for phosphoproteome analysis. Molecular Biosystems. 8, 453-463. [PubMed]
Kelkar, D. S., Kumar, D., Kumar, P., Balakrishnan, L., Muthusamy, B., Yadav,
A. K., Shrivastava, P., Marimuthu, A., Anand, S., Sundaram, H., Kingsbury,
R., Harsha, H. C., Nair, B., Prasad, T. S. K., Chauhan, D. S., Katoch, K.,
Katoch, V. M., Kumar, P., Chaerkady, R., Ramachandran, S., Dash D. and Pandey,
A. (2011). Proteogenomic analysis of Mycobacterium tuberculosis by high resolution
mass spectrometry. Molecular and Cellular Proteomics. 10, M111.011627.
[PubMed]
Pawar, H., Kashyap, M. K., Sahasrabuddhe, N. A., Renuse, S., Harsha, H. C., Kumar, P., Sharma, J., Kandasamy, K., Marimuthu, A., Nair, B., Rajagopalan, S., Maharudraiah, J., Premalatha, C. S., Veerendra Kumar, K. V., Vijayakumar, M., Chaerkady, R., Prasad, T. S. K., Kumar, R. V. and Pandey, A. Quantitative tissue proteomics of esophageal squamous cell carcinoma for novel biomarker discovery. Cancer Biology and Therapy. 2011. 12, 510-522. [PubMed]
Barbhuiya, M. A., Sahasrabuddhe, N. A., Pinto, S. M., Muthusamy, B., Singh, T. D., Nanjappa, V., Keerthikumar, S., Delanghe, B., Harsha, H. C., Chaerkady, R., Jalaj, V., Gupta, S., Shrivastav, B. R., Tiwari, P. K. and Pandey, A. Comprehensive proteomic analysis of human bile. Proteomics.
2011. 11, 4443- 4453. [PubMed]
Raju, R., Balakrishnan, L., Nanjappa, V., Bhattacharjee, M., Getnet, D., Muthusamy, B., Thomas, J. K., Sharma, J., Rahiman, B. A., Harsha, H. C., Shankar, S., Prasad, T. S. K., Mohan, S. S., Bader, G. D., Wani, M. R. and Pandey, A. A comprehensive manually curated reaction map of RANKL/RANK signaling pathway. Database. 2011, bar021. [PubMed]
Kumar, G. S. S., Venugopal, A. K., Selvan, L. D. N., Marimuthu, A., Keerthikumar, S., Pathare, S., Dikshit, J. B., Tata, P., Hariharan, R., Prasad, T. S. K., Harsha, H. C., Ramachandra, Y. L., Mahadevan, A., Chaerkady, R., Shankar, S. K. and Pandey, A. Gene expression profiling of tuberculous meningitis. Journal of Proteomics and Bioinformatics. 2011. 4, 98-105. [PubMed]
Raju, R., Nanjappa, V., Balakrishnan, L., Radhakrishnan, A., Thomas, J. K., Sharma, J., Tian, M., Palapetta, S. M., Subbannayya, T., Sekhar, N. R., Muthusamy, B., Goel, R., Subbannayya, Y., Telikicherla, D., Bhattacharjee, M., Pinto, S., Syed, S., Srinivas, S. M., Sathe, G. J., Ahmad, S., Chavan, S. N., Kumar, G. S. S., Marimuthu, A., Prasad, T. S. K., Harsha, H. C., Rahiman, B. A., Ohara, O., Bader, G. D., Mohan, S. S., Schiemann, W. P. and Pandey, A. (2011). NetSlim: High-confidence curated signaling maps. Database. 2011, bar032. [PubMed]
Nanjappa, V., Raju, R., Muthusamy,
B., Sharma, J., Thomas, J. K., Nidhina, P. A. H., Harsha, H.
C., Pandey, A., Anilkumar G. and Prasad, T. S. K. (2011). A comprehensive
curated reaction map of leptin signaling pathway. Journal
of Proteomics and Bioinformatics. 4, 184-189. [PubMed]
Harsha, H. C. and Pandey, A. Phosphoproteomics in cancer. Molecular oncology. 2010. 4, 482-495. [PubMed]
Kashyap, M. K., Harsha, H. C., Renuse, S., Pawar, H., Sahasrabuddhe, N. A., Kim, M. S., Marimuthu, A., Keerthikumar, S., Muthusamy, B., Kandasamy, K., Subbannayya, Y., Prasad, T. S., Mahmood, R., Chaerkady, R., Meltzer, S. J., Kumar, R. V., Rustgi, A. K. and Pandey, A. SILAC-based quantitative proteomic approach to identify potential biomarkers from the esophageal squamous cell carcinoma secretome. Cancer biology & therapy. 2010. 10. [PubMed]
Prasad, T. S. K., Keerthikumar, S., Chaerkady, R., Kandasamy, K., Renuse, S., Marimuthu, A., Venugopal, A. K., Thomas, J. K., Jacob, H. K. C., Goel, R., Pawar, H., Sahasrabuddhe, N. A., Krishna, V., Nair, B. G., Gucek, M., Cole, R. N., Ravikumar, R., Harsha, H. C. and Pandey, A. Comparative proteomic analysis of Candida albicans and Candida glabrata. Clinical Proteomics. 2010. 6, 163-173. [PubMed]
Harsha, H. C., Kandasamy, K., Ranganathan, P., Rani, S., Ramabadran, S., Gollapudi, S., Balakrishnan, L., Dwivedi, S. B., Telikicherla, D., Selvan, L. D., Goel, R., Mathivanan, S., Marimuthu, A., Kashyap, M., Vizza, R. F., Mayer, R. J., Decaprio, J. A., Srivastava, S., Hanash, S. M., Hruban, R. H. and Pandey, A. A compendium of potential biomarkers of pancreatic cancer. PLoS medicine. 2009. 6, e1000046-0. [PubMed]
Ranganathan, P., Harsha, H. C. and Pandey, A. Molecular alterations in exocrine neoplasms of the pancreas. Archives of pathology & laboratory medicine. 2009. 133, 405-412.[PubMed]
Kristiansen, T. Z., Harsha, H. C.*, Gronborg, M., Maitra, A. and Pandey, A. Differential membrane proteomics using 18O-labeling to identify biomarkers for cholangiocarcinoma. Journal of proteome research. 2008. 7, 4670-4677. [PubMed]
*Shared first author
Harsha, H. C., Jimeno, A., Molina, H., Mihalas, A. B., Goggins, M. G., Hruban, R. H., Schulick, R. D., Kamath, U., Maitra, A., Hidalgo, M. and Pandey, A. Activated epidermal growth factor receptor as a novel target in pancreatic cancer therapy. Journal of proteome research. 2008. 7, 4651-4658. [PubMed]
Guha, U., Chaerkady, R., Marimuthu, A., Patterson, A. S., Kashyap, M. K., Harsha, H. C., Sato, M., Bader, J. S., Lash, A. E., Minna, J. D., Pandey, A. and Varmus, H. E. Comparisons of tyrosine phosphorylated proteins in cells expressing lung cancer-specific alleles of EGFR and KRAS. Proceedings of the National Academy of Sciences of the United States of America. 2008. 105, 14112-14117. [PubMed]
Chaerkady, R., Harsha, H. C., Nalli, A., Gucek, M., Vivekanandan, P., Akhtar, J., Cole, R. N., Simmers, J., Schulick, R. D., Singh, S., Torbenson, M., Pandey, A. and Thuluvath, P. J. A quantitative proteomic approach for identification of potential biomarkers in hepatocellular carcinoma. Journal of proteome research. 2008. 7, 4289-4298. [PubMed]
Harsha, H. C., Molina, H. and Pandey, A. Quantitative proteomics using stable isotope labeling with amino acids in cell culture. Nature protocols. 2008. 3, 505-516. [PubMed]
Mathivanan, S., Ahmed, M., Ahn, N. G., Alexandre, H., Amanchy, R., Andrews, P. C., Bader, J. S., Balgley, B. M., Bantscheff, M., Bennett, K. L., Bjorling, E., Blagoev, B., Bose, R., Brahmachari, S. K., Burlingame, A. S., Bustelo, X. R., Cagney, G., Cantin, G. T., Cardasis, H. L., Celis, J. E., Chaerkady, R., Chu, F., Cole, P. A., Costello, C. E., Cotter, R. J., Crockett, D., DeLany, J. P., De, M., DeSouza, L. V., Deutsch, E. W., Dransfield, E., Drewes, G., Droit, A., Dunn, M. J., Elenitoba-Johnson, K., Ewing, R. M., Van, E. y. k., Faca, V., Falkner, J., Fang, X., Fenselau, C., Figeys, D., Gagne, P., Gelfi, C., Gevaert, K., Gimble, J. M., Gnad, F., Goel, R., Gromov, P., Hanash, S. M., Hancock, W. S., Harsha, H. C., Hart, G., Hays, F., He, F., Hebbar, P., Helsens, K., Hermeking, H., Hide, W., Hjerno, K., Hochstrasser, D. F., Hofmann, O., Horn, D. M., Hruban, R. H., Ibarrola, N., James, P., Jensen, O. N., Jensen, P. H., Jung, P., Kandasamy, K., Kheterpal, I., Kikuno, R. F., Korf, U., Korner, R., Kuster, B., Kwon, M. S., Lee, H. J., Lee, Y. J., Lefevre, M., Lehvaslaiho, M., Lescuyer, P., Levander, F., Lim, M. S., Lobke, C., Loo, J. A., Mann, M., Martens, L., Martinez-Heredia, J., McComb, M., McRedmond, J., Mehrle, A., Menon, R., Miller, C. A., Mischak, H., Mohan, S. S., Mohmood, R., Molina, H., Moran, M. F., Morgan, J. D., Moritz, R., Morzel, M., Muddiman, D. C., Nalli, A., Navarro, J. D., Neubert, T. A., Ohara, O., Oliva, R., Omenn, G. S., Oyama, M., Paik, Y. K., Pennington, K., Pepperkok, R., Periaswamy, B., Petricoin, E. F., Poirier, G. G., Prasad, T. S., Purvine, S. O., Rahiman, B. A., Ramachandran, P., Ramachandra, Y. L., Rice, R. H., Rick, J., Ronnholm, R. H., Salonen, J., Sanchez, J. C., Sayd, T., Seshi, B., Shankari, K., Sheng, S. J., Shetty, V., Shivakumar, K., Simpson, R. J., Sirdeshmukh, R., Siu, K. W., Smith, J. C., Smith, R. D., States, D. J., Sugano, S., Sullivan, M., Superti-Furga, G., Takatalo, M., Thongboonkerd, V., Trinidad, J. C., Uhlen, M., Vandekerckhove, J., Vasilescu, J., Veenstra, T. D., Vidal-Taboada, J. M., Vihinen, M., Wait, R., Wang, X., Wiemann, S., Wu, B., Xu, T., Yates, J. R., Zhong, J., Zhou, M., Zhu, Y., Zurbig, P. and Pandey, A. Human Proteinpedia enables sharing of human protein data. Nature biotechnology. 2008. 26, 164-167. [PubMed]
Mishra, G. R., Suresh, M., Kumaran, K., Kannabiran, N., Suresh, S., Bala, P., Shivakumar, K., Anuradha, N., Reddy, R., Raghavan, T. M., Menon, S., Hanumanthu, G., Gupta, M., Upendran, S., Gupta, S., Mahesh, M., Jacob, B., Mathew, P., Chatterjee, P., Arun, K. S., Sharma, S., Chandrika, K. N., Deshpande, N., Palvankar, K., Raghavnath, R., Krishnakanth, R., Karathia, H., Rekha, B., Nayak, R., Vishnupriya, G., Kumar, H. G., Nagini, M., Kumar, G. S., Jose, R., Deepthi, P., Mohan, S. S., Gandhi, T. K., Harsha, H. C., Deshpande, K. S., Sarker, M., Prasad, T. S. and Pandey, A. Human Protein Reference Database--2006 update. Nucleic acids research. 2006. 34, D411-3. [PubMed]
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