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Shankar Subramaniam

Title(s)Professor, Bioengineering
SchoolVc-academic Affairs
Address9500 Gilman Drive #
La Jolla CA 92093
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    Graduate Training Program in Bioinformatics
    NIH T32GM139790Jul 1, 2021 - Jun 30, 2026
    Role: Principal Investigator
    Biomedical Data Commons Workbench (BDCW)
    NIH OT2OD030544Sep 23, 2020 - Sep 22, 2023
    Role: Principal Investigator
    National Metabolomics Data Repository - nextgen Metabolomics Workbench
    NIH U2CDK119886Aug 17, 2018 - Jun 30, 2022
    Role: Principal Investigator
    Reconstruction and Modeling of Dynamical Molecular Networks
    NIH R01LM012595Aug 6, 2018 - Jun 30, 2022
    Role: Principal Investigator
    Mapping Disease Pathways for Biliary Atresia
    NIH R01DK109365Apr 1, 2017 - Mar 31, 2021
    Role: Co-Principal Investigator
    The second phase of NIH Common Fund 4D Nucleome Network Organizational Hub
    NIH U01CA200147Sep 1, 2015 - Aug 31, 2025
    Role: Principal Investigator
    The Metabolomics Data Center and Workbench (MDCW)
    NIH U01DK097430Sep 6, 2012 - Aug 31, 2019
    Role: Principal Investigator
    Systems Biology Analyses for Hemodynamic Regulation of Vascular Homeostasis
    NIH R01HL108735Aug 24, 2012 - Jul 31, 2025
    Role: Principal Investigator
    Nucleolin Regulation of miRome by Shear Stress
    NIH R01HL106579Jan 1, 2011 - Nov 30, 2022
    Role: Principal Investigator
    System Biological Analyses of Innate and Adaptive Responses to Vaccination
    NIH U19AI090023Jul 12, 2010 - Jun 30, 2022
    Role: Co-Investigator
    Reconstruction and Modeling of Networks Involved in Cardiomyoctye Differentiation
    NIH R33HL087375Aug 1, 2007 - Jul 31, 2011
    Role: Principal Investigator
    Signaling Gateway
    NIH R01GM078005Sep 30, 2006 - Aug 31, 2014
    Role: Principal Investigator
    Center of Nanotechnology for Treatment, Understanding, *
    NIH U54CA119335Sep 30, 2005 - Dec 31, 2011
    Role: Co-Investigator
    LIPID MAPS
    NIH U54GM069338Aug 12, 2003 - Jul 31, 2014
    Role: Co-Investigator
    Graduate Training Program in Bioinformatics
    NIH T32GM008806Jul 1, 2001 - Jun 30, 2021
    Role: Principal Investigator
    JOINT CENTER FOR STRUCTURAL GENOMICS
    NIH P50GM062411Sep 30, 2000 - Aug 31, 2006
    Role: Co-Investigator

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    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. The CFDE Workbench: Integrating Metadata and Processed Data from Common Fund Programs. J Mol Biol. 2026 Jan 06; 169631. Evangelista JE, Clarke DJB, Byrd AI, Srinivasan S, Srinivasan S, Maurya MR, Jenkins SL, Diamant I, Sanchez E, Xie Z, Olaiya S, Kim H, Marino GB, Ahmed N, Ramachandran S, Subramaniam S, Ma'ayan A. PMID: 41506317.
      View in: PubMed   Mentions:    Fields:    
    2. Spatially distinct cellular and molecular landscapes define prognosis in triple-negative breast cancer. Cell Rep. 2026 Jan 27; 45(1):116752. Mukund K, Veraksa D, Frankhouser D, Yang L, Tomsic J, Pillai R, Atti S, Mesrizadeh Z, Schmolze D, Zabaleta J, Wu XC, LeBlanc MA, Miele L, Ochoa A, Seewaldt V, Subramaniam S. PMID: 41481418.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    3. Integrated multiomics reveals inflammation-driven excessive erythrocytosis in subjects with Monge's disease. bioRxiv. 2025 Oct 21. Azad P, Caldwell AB, Villafuerte FC, Banihani S, Zhou D, Subramaniam S, Haddad GG. PMID: 41278713; PMCID: PMC12633210.
      View in: PubMed   Mentions:
    4. The Data Distillery: A Graph Framework for Semantic Integration and Querying of Biomedical Data. bioRxiv. 2025 Oct 16. Ahooyi TM, Stear B, Simmons JA, Metzger VT, Kumar P, Evangelista JE, Clarke DJB, Xie Z, Kim H, Jenkins SL, Maurya MR, Ramachandran S, Fahy E, Gillespie TH, Imam FT, Kokash N, Roth ME, Fullem R, Jevtic D, Mihajlovic A, Tiemeyer M, Bakker C, Schroeder AJ, Markowski J, Nedzel J, Hill DD, Terry J, Nemarich C, Boline J, Park PJ, Ardlie KG, Vora J, Mazumder R, Ranzinger R, de Bono B, Subramaniam S, Grethe JS, Yang JJ, Lambert CG, Resnick A, Milosavljevic A, Ma'ayan A, Silverstein JC, Taylor DM. PMID: 40832351; PMCID: PMC12363844.
      View in: PubMed   Mentions:
    5. Assessment of Cognitive Performance and Hearing Impairment of Indian Power Loom Employees through Electroencephalogram Signal Analysis and Audiometry. Noise Health. 2025 Jul-Aug 01; 27(127):476-488. Raju NK, Arunachalam S, Subramaniam S, Suresh R. PMID: 40932083; PMCID: PMC12459730.
      View in: PubMed   Mentions:    Fields:    Translation:HumansPHPublic Health
    6. Author Correction: A universal language for finding mass spectrometry data patterns. Nat Methods. 2025 Sep; 22(9):1995. Damiani T, Jarmusch AK, Aron AT, Petras D, Phelan VV, Zhao HN, Bittremieux W, Acharya DD, Ahmed MMA, Bauermeister A, Bertin MJ, Boudreau PD, Borges RM, Bowen BP, Brown CJ, Chagas FO, Clevenger KD, Correia MSP, Crandall WJ, Crüsemann M, Fahy E, Fiehn O, Garg N, Gerwick WH, Gilbert JR, Globisch D, Gomes PWP, Heuckeroth S, James CA, Jarmusch SA, Kakhkhorov SA, Kang KB, Kessler N, Kersten RD, Kim H, Kirk RD, Kohlbacher O, Kontou EE, Liu K, Lizama-Chamu I, Luu GT, Luzzatto Knaan T, Mannochio-Russo H, Marty MT, Matsuzawa Y, McAvoy AC, McCall LI, Mohamed OG, Nahor O, Neuweger H, Niedermeyer THJ, Nishida K, Northen TR, Overdahl KE, Rainer J, Reher R, Rodriguez E, Sachsenberg TT, Sanchez LM, Schmid R, Stevens C, Subramaniam S, Tian Z, Tripathi A, Tsugawa H, van der Hooft JJJ, Vicini A, Walter A, Weber T, Xiong Q, Xu T, Pluskal T, Dorrestein PC, Wang M. PMID: 40781363; PMCID: PMC12446056.
      View in: PubMed   Mentions:    Fields:    
    7. An autoencoder learning method for predicting breast cancer subtypes. PLoS One. 2025; 20(7):e0327773. Rostami Z, Mukund K, Masnadi-Shirazi M, Subramaniam S. PMID: 40700427; PMCID: PMC12286384.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    8. A novel subtyping method for TNBC with implications for prognosis and therapy. bioRxiv. 2025 Jul 08. Mesrizadeh Z, Mukund K, Zabaleta J, Del Valle L, Tomsic J, Neuhausen S, Ding YC, Seewaldt V, Ochoa A, Miele L, Subramaniam S. PMID: 40672200; PMCID: PMC12265554.
      View in: PubMed   Mentions:
    9. Topological Data Analysis Reveals a Subgroup of Luminal B Breast Cancer. IEEE Open J Eng Med Biol. 2025; 6:465-471. Rostami Z, Fooshee D, Carlsson G, Subramaniam S. PMID: 40657053; PMCID: PMC12250994.
      View in: PubMed   Mentions:
    10. A universal language for finding mass spectrometry data patterns. Nat Methods. 2025 Jun; 22(6):1247-1254. Damiani T, Jarmusch AK, Aron AT, Petras D, Phelan VV, Zhao HN, Bittremieux W, Acharya DD, Ahmed MMA, Bauermeister A, Bertin MJ, Boudreau PD, Borges RM, Bowen BP, Brown CJ, Chagas FO, Clevenger KD, Correia MSP, Crandall WJ, Crüsemann M, Fahy E, Fiehn O, Garg N, Gerwick WH, Gilbert JR, Globisch D, Gomes PWP, Heuckeroth S, James CA, Jarmusch SA, Kakhkhorov SA, Kang KB, Kessler N, Kersten RD, Kim H, Kirk RD, Kohlbacher O, Kontou EE, Liu K, Lizama-Chamu I, Luu GT, Luzzatto Knaan T, Mannochio-Russo H, Marty MT, Matsuzawa Y, McAvoy AC, McCall LI, Mohamed OG, Nahor O, Neuweger H, Niedermeyer THJ, Nishida K, Northen TR, Overdahl KE, Rainer J, Reher R, Rodriguez E, Sachsenberg TT, Sanchez LM, Schmid R, Stevens C, Subramaniam S, Tian Z, Tripathi A, Tsugawa H, van der Hooft JJJ, Vicini A, Walter A, Weber T, Xiong Q, Xu T, Pluskal T, Dorrestein PC, Wang M. PMID: 40355727; PMCID: PMC12334354.
      View in: PubMed   Mentions: 9     Fields:    Translation:Humans
    11. Playbook workflow builder: Interactive construction of bioinformatics workflows. PLoS Comput Biol. 2025 Apr; 21(4):e1012901. Clarke DJB, Evangelista JE, Xie Z, Marino GB, Byrd AI, Maurya MR, Srinivasan S, Yu K, Petrosyan V, Roth ME, Milinkov M, King CH, Vora JK, Keeney J, Nemarich C, Khan W, Lachmann A, Ahmed N, Agris A, Pan J, Ramachandran S, Fahy E, Esquivel E, Mihajlovic A, Jevtic B, Milinovic V, Kim S, McNeely P, Wang T, Wenger E, Brown MA, Sickler A, Zhu Y, Jenkins SL, Blood PD, Taylor DM, Resnick AC, Mazumder R, Milosavljevic A, Subramaniam S, Ma'ayan A. PMID: 40179105; PMCID: PMC11967941.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    12. Spatially distinct cellular and molecular landscapes define prognosis in triple negative breast cancer. bioRxiv. 2025 Feb 12. Mukund K, Veraksa D, Frankhouser D, Yang L, Tomsic J, Pillai R, Atti S, Mesrizadeh Z, Schmolze D, Wu XC, LeBlanc MA, Miele L, Ochoa A, Seewaldt V, Subramaniam S. PMID: 39990419; PMCID: PMC11844391.
      View in: PubMed   Mentions:
    13. Fulvestrant Versus Anastrozole in Endocrine Therapy-Naïve Women With Hormone Receptor-Positive Advanced Breast Cancer: Final Overall Survival in the Phase III FALCON Trial. J Clin Oncol. 2025 May; 43(13):1539-1545. Robertson JFR, Shao Z, Noguchi S, Bondarenko I, Panasci L, Singh S, Subramaniam S, Ellis MJ. PMID: 39772884; PMCID: PMC12054979.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCTClinical Trials
    14. Integrative multiomics reveals common endotypes across PSEN1, PSEN2, and APP mutations in familial Alzheimer's disease. Alzheimers Res Ther. 2025 Jan 04; 17(1):5. Valdes P, Caldwell AB, Liu Q, Fitzgerald MQ, Ramachandran S, Karch CM, Dominantly Inherited Alzheimer Network (DIAN), Galasko DR, Yuan SH, Wagner SL, Subramaniam S. PMID: 39754192; PMCID: PMC11699654.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    15. System vaccinology analysis of predictors and mechanisms of antibody response durability to multiple vaccines in humans. Nat Immunol. 2025 Jan; 26(1):116-130. Cortese M, Hagan T, Rouphael N, Wu SY, Xie X, Kazmin D, Wimmers F, Gupta S, van der Most R, Coccia M, Aranuchalam PS, Nakaya HI, Wang Y, Coyle E, Horiuchi S, Wu H, Bower M, Mehta A, Gunthel C, Bosinger SE, Kotliarov Y, Cheung F, Schwartzberg PL, Germain RN, Tsang J, Li S, Albrecht R, Ueno H, Subramaniam S, Mulligan MJ, Khurana S, Golding H, Pulendran B. PMID: 39747435; PMCID: PMC12158788.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansCells
    16. The molecular chronology of mammary epithelial cell fate switching. bioRxiv. 2024 Nov 04. Vallmajo-Martin Q, Ma Z, Srinivasan S, Murali D, Dravis C, Mukund K, Subramaniam S, Wahl GM, Lytle NK. PMID: 39415993; PMCID: PMC11482796.
      View in: PubMed   Mentions:
    17. Publisher Correction: Generation of 'semi-guided' cortical organoids with complex neural oscillations. Nat Protoc. 2024 Oct 15. Fitzgerald MQ, Chu T, Puppo F, Blanch R, Chillón M, Subramaniam S, Muotri AR. PMID: 39407039.
      View in: PubMed   Mentions:    Fields:    
    18. Tumor suppressor NME1/NM23-H1 modulates DNA binding of NF-κB RelA. Res Sq. 2024 Oct 14. Shahabi S, Maurya M, Subramaniam S, Ghosh G. PMID: 39483891; PMCID: PMC11527346.
      View in: PubMed   Mentions:
    19. Modeling enzyme competition in eicosanoid metabolism in macrophage cells using a cybernetic framework. J Lipid Res. 2024 Dec; 65(12):100666. Khanum S, Gupta S, Maurya MR, Raja R, Aboulmouna L, Subramaniam S, Ramkrishna D. PMID: 39395792; PMCID: PMC11728974.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    20. Tumor suppressor NME1/NM23-H1 modulates DNA binding of NF-κB RelA. bioRxiv. 2024 Oct 06. Shahabi S, Maurya M, Subramaniam S, Ghosh G. PMID: 39411158; PMCID: PMC11475868.
      View in: PubMed   Mentions:
    21. Investigation of Noise Induced Hearing Loss Among Power Loom Industry Workers in Tamil Nadu, India. Indian J Otolaryngol Head Neck Surg. 2024 Dec; 76(6):5531-5541. Subramaniam S, Ganesan A, Raju N, Rajavel N, Chenniappan M, Prakash C, Pramanik A, Basak AK. PMID: 39559140; PMCID: PMC11569371.
      View in: PubMed   Mentions: 1  
    22. Study of Respiratory Symptoms and Pulmonary Function among Neem Oil Industry Workers. Indian J Occup Environ Med. 2024 Apr-Jun; 28(2):163-169. Subramaniam S, Ganesan A, Raju N, Rajavel N, Chenniappan M, Surendra Mohanty RM, Angamuthu S, Sivakumar K, Prakash C, Pramanik A, Basak AK. PMID: 39114101; PMCID: PMC11302535.
      View in: PubMed   Mentions:
    23. Single-cell transcriptomics reveals stage- and side-specificity of gene modules in colorectal cancer. Res Sq. 2024 May 24. Rahiminejad S, Mukund K, Maurya MR, Subramaniam S. PMID: 38826219; PMCID: PMC11142301.
      View in: PubMed   Mentions: 1  
    24. Generation of 'semi-guided' cortical organoids with complex neural oscillations. Nat Protoc. 2024 09; 19(9):2712-2738. Fitzgerald MQ, Chu T, Puppo F, Blanch R, Chillón M, Subramaniam S, Muotri AR. PMID: 38702386; PMCID: PMC11380594.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansCells
    25. Grand Challenges at the Interface of Engineering and Medicine. IEEE Open J Eng Med Biol. 2024; 5:1-13. Subramaniam S, Akay M, Anastasio MA, Bailey V, Boas D, Bonato P, Chilkoti A, Cochran JR, Colvin V, Desai TA, Duncan JS, Epstein FH, Fraley S, Giachelli C, Grande-Allen KJ, Green J, Guo XE, Hilton IB, Humphrey JD, Johnson CR, Karniadakis G, King MR, Kirsch RF, Kumar S, Laurencin CT, Li S, Lieber RL, Lovell N, Mali P, Margulies SS, Meaney DF, Ogle B, Palsson B, A Peppas N, Perreault EJ, Rabbitt R, Setton LA, Shea LD, Shroff SG, Shung K, Tolias AS, van der Meulen MCH, Varghese S, Vunjak-Novakovic G, White JA, Winslow R, Zhang J, Zhang K, Zukoski C, Miller MI. PMID: 38415197; PMCID: PMC10896418.
      View in: PubMed   Mentions: 6  
    26. Molecular Atlas of HER2+ Breast Cancer Cells Treated with Endogenous Ligands: Temporal Insights into Mechanisms of Trastuzumab Resistance. Cancers (Basel). 2024 Jan 27; 16(3). Mukund K, Alva-Ornelas JA, Maddox AL, Murali D, Veraksa D, Saftics A, Tomsic J, Frankhouser D, Razo M, Jovanovic-Talisman T, Seewaldt VL, Subramaniam S. PMID: 38339304; PMCID: PMC10854992.
      View in: PubMed   Mentions: 1  
    27. Single-cell RNA sequencing unveils unique transcriptomic signatures of endothelial cells and role of ENO1 in response to disturbed flow. Proc Natl Acad Sci U S A. 2024 Jan 30; 121(5):e2318904121. Chen LJ, Li JY, Nguyen P, He M, Chen ZB, Subramaniam S, Shyy JY, Chien S. PMID: 38261622; PMCID: PMC10835041.
      View in: PubMed   Mentions: 19     Fields:    Translation:AnimalsCells
    28. LIPID MAPS: update to databases and tools for the lipidomics community. Nucleic Acids Res. 2024 Jan 05; 52(D1):D1677-D1682. Conroy MJ, Andrews RM, Andrews S, Cockayne L, Dennis EA, Fahy E, Gaud C, Griffiths WJ, Jukes G, Kolchin M, Mendivelso K, Lopez-Clavijo AF, Ready C, Subramaniam S, O'Donnell VB. PMID: 37855672; PMCID: PMC10767878.
      View in: PubMed   Mentions: 83     Fields:    
    29. Assessment of pulmonary function and respiratory symptoms among INDIAN textile sizing mill workers. Work. 2024; 79(2):765-774. Subramaniam S, Ganesan A, Raju N, Rajavel N, Chenniappan M, Prakash C, Pramanik A, Basak AK. PMID: 38640184.
      View in: PubMed   Mentions:    Fields:    Translation:HumansPHPublic Health
    30. Modeling transcriptional regulation of the cell cycle using a novel cybernetic-inspired approach. Biophys J. 2024 01 16; 123(2):221-234. Raja R, Khanum S, Aboulmouna L, Maurya MR, Gupta S, Subramaniam S, Ramkrishna D. PMID: 38102827; PMCID: PMC10808046.
      View in: PubMed   Mentions:    Fields:    Translation:Animals
    31. Limitations of the human iPSC-derived neuron model for early-onset Alzheimer's disease. Mol Brain. 2023 11 03; 16(1):75. Valdes P, Henry KW, Fitzgerald MQ, Muralidharan K, Caldwell AB, Ramachandran S, Goldstein LSB, Mobley WC, Galasko DR, Subramaniam S. PMID: 37924159; PMCID: PMC10623777.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    32. Endotype Characterization Reveals Mechanistic Differences Across Brain Regions in Sporadic Alzheimer's Disease. J Alzheimers Dis Rep. 2023; 7(1):957-972. Patel AO, Caldwell AB, Ramachandran S, Subramaniam S. PMID: 37849634; PMCID: PMC10578327.
      View in: PubMed   Mentions: 4  
    33. The Janus face of proliferating plasmablasts in dengue and COVID-19 infections. Front Immunol. 2023; 14:1068424. Nayak P, Mukund K, Subramaniam S. PMID: 37638019; PMCID: PMC10450630.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    34. Biliary atresia is associated with polygenic susceptibility in ciliogenesis and planar polarity effector genes. J Hepatol. 2023 12; 79(6):1385-1395. Glessner JT, Ningappa MB, Ngo KA, Zahid M, So J, Higgs BW, Sleiman PMA, Narayanan T, Ranganathan S, March M, Prasadan K, Vaccaro C, Reyes-Mugica M, Velazquez J, Salgado CM, Ebrahimkhani MR, Schmitt L, Rajasundaram D, Paul M, Pellegrino R, Gittes GK, Li D, Wang X, Billings J, Squires R, Ashokkumar C, Sharif K, Kelly D, Dhawan A, Horslen S, Lo CW, Shin D, Subramaniam S, Hakonarson H, Sindhi R. PMID: 37572794; PMCID: PMC10729795.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansAnimals
    35. Methadone alters transcriptional programs associated with synapse formation in human cortical organoids. Transl Psychiatry. 2023 05 06; 13(1):151. Dwivedi I, Caldwell AB, Zhou D, Wu W, Subramaniam S, Haddad GG. PMID: 37147277; PMCID: PMC10163238.
      View in: PubMed   Mentions: 4     Fields:    Translation:Humans
    36. Temporal transcriptional control of neural induction in human induced pluripotent stem cells. Front Mol Neurosci. 2023; 16:1139287. Gupta S, Polit LD, Fitzgerald M, Rowland HA, Murali D, Buckley NJ, Subramaniam S. PMID: 37213689; PMCID: PMC10195998.
      View in: PubMed   Mentions: 1  
    37. Modeling transcriptional regulation of the cell cycle using a novel cybernetic-inspired approach. bioRxiv. 2023 Mar 23. Raja R, Khanum S, Aboulmouna L, Maurya MR, Gupta S, Subramaniam S, Ramkrishna D. PMID: 36993235; PMCID: PMC10055344.
      View in: PubMed   Mentions:
    38. Ablation of Adar1 in myeloid cells imprints a global antiviral state in the lung and heightens early immunity against SARS-CoV-2. Cell Rep. 2023 01 31; 42(1):112038. Adamska JZ, Verma R, Gupta S, Hagan T, Wimmers F, Floyd K, Li Q, Valore EV, Wang Y, Trisal M, Vilches-Moure JG, Subramaniam S, Walkley CR, Suthar MS, Li JB, Pulendran B. PMID: 36732946; PMCID: PMC9842623.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    39. SREBP signaling is essential for effective B cell responses. Nat Immunol. 2023 02; 24(2):337-348. Luo W, Adamska JZ, Li C, Verma R, Liu Q, Hagan T, Wimmers F, Gupta S, Feng Y, Jiang W, Zhou J, Valore E, Wang Y, Trisal M, Subramaniam S, Osborne TF, Pulendran B. PMID: 36577930; PMCID: PMC10928801.
      View in: PubMed   Mentions: 39     Fields:    Translation:HumansAnimals
    40. MetGENE: gene-centric metabolomics information retrieval tool. Gigascience. 2022 12 28; 12. Srinivasan S, Maurya MR, Ramachandran S, Fahy E, Subramaniam S. PMID: 37983749; PMCID: PMC10659118.
      View in: PubMed   Mentions: 1     Fields:    
    41. Identifying and analyzing sepsis states: A retrospective study on patients with sepsis in ICUs. PLOS Digit Health. 2022 Nov; 1(11):e0000130. Fang CH, Ravindra V, Akhter S, Adibuzzaman M, Griffin P, Subramaniam S, Grama A. PMID: 36812596; PMCID: PMC9931346.
      View in: PubMed   Mentions: 2  
    42. Transcriptomic profiling of sporadic Alzheimer's disease patients. Mol Brain. 2022 10 12; 15(1):83. Caldwell AB, Anantharaman BG, Ramachandran S, Nguyen P, Liu Q, Trinh I, Galasko DR, Desplats PA, Wagner SL, Subramaniam S. PMID: 36224601; PMCID: PMC9559068.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansCells
    43. Healthcare Innovations to Address the Challenges of the COVID-19 Pandemic. IEEE J Biomed Health Inform. 2022 07; 26(7):3294-3302. Akay M, Subramaniam S, Brennan C, Bonato P, Waits CMK, Wheeler BC, Fotiadis DI. PMID: 35077374; PMCID: PMC9423029.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCellsPHPublic Health
    44. ARID1B, a molecular suppressor of erythropoiesis, is essential for the prevention of Monge's disease. Exp Mol Med. 2022 06; 54(6):777-787. Azad P, Caldwell AB, Ramachandran S, Spann NJ, Akbari A, Villafuerte FC, Bermudez D, Zhao H, Poulsen O, Zhou D, Bafna V, Subramaniam S, Haddad GG. PMID: 35672450; PMCID: PMC9256584.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansCells
    45. Modular and mechanistic changes across stages of colorectal cancer. BMC Cancer. 2022 Apr 21; 22(1):436. Rahiminejad S, Maurya MR, Mukund K, Subramaniam S. PMID: 35448980; PMCID: PMC9022252.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    46. GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser. Nat Methods. 2022 02; 19(2):134-136. Petras D, Phelan VV, Acharya D, Allen AE, Aron AT, Bandeira N, Bowen BP, Belle-Oudry D, Boecker S, Cummings DA, Deutsch JM, Fahy E, Garg N, Gregor R, Handelsman J, Navarro-Hoyos M, Jarmusch AK, Jarmusch SA, Louie K, Maloney KN, Marty MT, Meijler MM, Mizrahi I, Neve RL, Northen TR, Molina-Santiago C, Panitchpakdi M, Pullman B, Puri AW, Schmid R, Subramaniam S, Thukral M, Vasquez-Castro F, Dorrestein PC, Wang M. PMID: 34862502; PMCID: PMC8831450.
      View in: PubMed   Mentions: 41     Fields:    
    47. Endotype reversal as a novel strategy for screening drugs targeting familial Alzheimer's disease. Alzheimers Dement. 2022 11; 18(11):2117-2130. Caldwell AB, Liu Q, Zhang C, Schroth GP, Galasko DR, Rynearson KD, Tanzi RE, Yuan SH, Wagner SL, Subramaniam S. PMID: 35084109; PMCID: PMC9787711.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    48. Immune Response in Severe and Non-Severe Coronavirus Disease 2019 (COVID-19) Infection: A Mechanistic Landscape. Front Immunol. 2021; 12:738073. Mukund K, Nayak P, Ashokkumar C, Rao S, Almeda J, Betancourt-Garcia MM, Sindhi R, Subramaniam S. PMID: 34721400; PMCID: PMC8548832.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansCells
    49. The maternal blood lipidome is indicative of the pathogenesis of severe preeclampsia. J Lipid Res. 2021; 62:100118. He B, Liu Y, Maurya MR, Benny P, Lassiter C, Li H, Subramaniam S, Garmire LX. PMID: 34547287; PMCID: PMC8503628.
      View in: PubMed   Mentions: 26     Fields:    Translation:Humans
    50. Heme Oxygenase-1 at the Nexus of Endothelial Cell Fate Decision Under Oxidative Stress. Front Cell Dev Biol. 2021; 9:702974. Raghunandan S, Ramachandran S, Ke E, Miao Y, Lal R, Chen ZB, Subramaniam S. PMID: 34595164; PMCID: PMC8476872.
      View in: PubMed   Mentions: 9  
    51. ADAP-KDB: A Spectral Knowledgebase for Tracking and Prioritizing Unknown GC-MS Spectra in the NIH's Metabolomics Data Repository. Anal Chem. 2021 09 14; 93(36):12213-12220. Smirnov A, Liao Y, Fahy E, Subramaniam S, Du X. PMID: 34455770.
      View in: PubMed   Mentions: 12     Fields:    
    52. Mechanisms of Impaired Lung Development and Ciliation in Mannosidase-1-Alpha-2 (Man1a2) Mutants. Front Physiol. 2021; 12:658518. Ningappa M, Adenuga M, Ngo KA, Mohamed N, Narayanan T, Prasadan K, Ashokkumar C, Das J, Schmitt L, Hartman H, Sehrawat A, Salgado CM, Reyes-Mugica M, Gittes GK, Lo CW, Subramaniam S, Sindhi R. PMID: 34366878; PMCID: PMC8343402.
      View in: PubMed   Mentions: 3  
    53. The single-cell epigenomic and transcriptional landscape of immunity to influenza vaccination. Cell. 2021 07 22; 184(15):3915-3935.e21. Wimmers F, Donato M, Kuo A, Ashuach T, Gupta S, Li C, Dvorak M, Foecke MH, Chang SE, Hagan T, De Jong SE, Maecker HT, van der Most R, Cheung P, Cortese M, Bosinger SE, Davis M, Rouphael N, Subramaniam S, Yosef N, Utz PJ, Khatri P, Pulendran B. PMID: 34174187; PMCID: PMC8316438.
      View in: PubMed   Mentions: 137     Fields:    Translation:HumansCellsPHPublic Health
    54. Impaired T-cell and antibody immunity after COVID-19 infection in chronically immunosuppressed transplant recipients. bioRxiv. 2021 May 04. Ashokkumar C, Rohan V, Kroemer AH, Rao S, Mazariegos G, Higgs BW, Nadig S, Almeda J, Dhani H, Khan K, Yazigi N, Ekong U, Kaufman S, Betancourt-Garcia MM, Mukund K, Sethi P, Mehrotra S, Soltys K, Singh MS, Bond G, Khanna A, Ningappa M, Spishock B, Sindhi E, Atale N, Saunders M, Baliga P, Fishbein T, Subramaniam S, Sindhi R. PMID: 33972936; PMCID: PMC8109195.
      View in: PubMed   Mentions:
    55. Adjuvanting a subunit COVID-19 vaccine to induce protective immunity. Nature. 2021 06; 594(7862):253-258. Arunachalam PS, Walls AC, Golden N, Atyeo C, Fischinger S, Li C, Aye P, Navarro MJ, Lai L, Edara VV, Röltgen K, Rogers K, Shirreff L, Ferrell DE, Wrenn S, Pettie D, Kraft JC, Miranda MC, Kepl E, Sydeman C, Brunette N, Murphy M, Fiala B, Carter L, White AG, Trisal M, Hsieh CL, Russell-Lodrigue K, Monjure C, Dufour J, Spencer S, Doyle-Meyers L, Bohm RP, Maness NJ, Roy C, Plante JA, Plante KS, Zhu A, Gorman MJ, Shin S, Shen X, Fontenot J, Gupta S, O'Hagan DT, Van Der Most R, Rappuoli R, Coffman RL, Novack D, McLellan JS, Subramaniam S, Montefiori D, Boyd SD, Flynn JL, Alter G, Villinger F, Kleanthous H, Rappaport J, Suthar MS, King NP, Veesler D, Pulendran B. PMID: 33873199.
      View in: PubMed   Mentions: 219     Fields:    Translation:AnimalsCells
    56. Impact of post-harvest processing or thermal dehydration on physiochemical, nutritional and sensory quality of shiitake mushrooms. Compr Rev Food Sci Food Saf. 2021 05; 20(3):2560-2595. Subramaniam S, Jiao S, Zhang Z, Jing P. PMID: 33786992.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansAnimalsPHPublic Health
    57. Temporal mechanisms of myogenic specification in human induced pluripotent stem cells. Sci Adv. 2021 03; 7(12). Nayak P, Colas A, Mercola M, Varghese S, Subramaniam S. PMID: 33731358; PMCID: PMC7968833.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    58. Adjuvanting a subunit SARS-CoV-2 nanoparticle vaccine to induce protective immunity in non-human primates. bioRxiv. 2021 Feb 11. S Arunachalam P, Walls AC, Golden N, Atyeo C, Fischinger S, Li C, Aye P, Navarro MJ, Lai L, Edara VV, Roltgen K, Rogers K, Shirreff L, Ferrell DE, Wrenn S, Pettie D, Kraft JC, Miranda MC, Kepl E, Sydeman C, Brunette N, Murphy M, Fiala B, Carter L, White AG, Trisal M, Hsieh CL, Russell-Lodrigue K, Monjure C, Dufour J, Doyle-Meyer L, Bohm RB, Maness NJ, Roy C, Plante JA, Plante KS, Zhu A, Gorman MJ, Shin S, Shen X, Fontenot J, Gupta S, O Hagan DT, Most RV, Rappuoli R, Coffman RL, Novack D, McLellan JS, Subramaniam S, Montefiori D, Boyd SD, Flynn JL, Alter G, Villinger F, Kleanthous H, Rappaport J, Suthar M, King NP, Veesler D, Pulendran B. PMID: 33594366; PMCID: PMC7885918.
      View in: PubMed   Mentions:
    59. Longitudinal shear stress response in human endothelial cells to atheroprone and atheroprotective conditions. Proc Natl Acad Sci U S A. 2021 01 26; 118(4). Maurya MR, Gupta S, Li JY, Ajami NE, Chen ZB, Shyy JY, Chien S, Subramaniam S. PMID: 33468662; PMCID: PMC7848718.
      View in: PubMed   Mentions: 50     Fields:    Translation:HumansCells
    60. The Mechanistic Metamorphosis. WIREs Mech Dis. 2021 Jan; 13(1):e1517. Subramaniam S, Nadeau J. PMID: 33369203.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    61. RefMet: a reference nomenclature for metabolomics. Nat Methods. 2020 12; 17(12):1173-1174. Fahy E, Subramaniam S. PMID: 33199890.
      View in: PubMed   Mentions: 56     Fields:    Translation:Humans
    62. Steps Toward Minimal Reporting Standards for Lipidomics Mass Spectrometry in Biomedical Research Publications. Circ Genom Precis Med. 2020 12; 13(6):e003019. O'Donnell VB, FitzGerald GA, Murphy RC, Liebisch G, Dennis EA, Quehenberger O, Subramaniam S, Wakelam MJO. PMID: 33196315; PMCID: PMC8376269.
      View in: PubMed   Mentions: 13     Fields:    Translation:Humans
    63. Dedifferentiation and neuronal repression define familial Alzheimer's disease. Sci Adv. 2020 11; 6(46). Caldwell AB, Liu Q, Schroth GP, Galasko DR, Yuan SH, Wagner SL, Subramaniam S. PMID: 33188013; PMCID: PMC7673760.
      View in: PubMed   Mentions: 34     Fields:    Translation:HumansCells
    64. Biliary-Atresia-Associated Mannosidase-1-Alpha-2 Gene Regulates Biliary and Ciliary Morphogenesis and Laterality. Front Physiol. 2020; 11:538701. So J, Ningappa M, Glessner J, Min J, Ashokkumar C, Ranganathan S, Higgs BW, Li D, Sun Q, Schmitt L, Biery AC, Dobrowolski S, Trautz C, Fuhrman L, Schwartz MC, Klena NT, Fusco J, Prasadan K, Adenuga M, Mohamed N, Yan Q, Chen W, Horne W, Dhawan A, Sharif K, Kelly D, Squires RH, Gittes GK, Hakonarson H, Morell V, Lo C, Subramaniam S, Shin D, Sindhi R. PMID: 33192543; PMCID: PMC7662016.
      View in: PubMed   Mentions: 16  
    65. Update on LIPID MAPS classification, nomenclature, and shorthand notation for MS-derived lipid structures. J Lipid Res. 2020 Dec; 61(12):1539-1555. Liebisch G, Fahy E, Aoki J, Dennis EA, Durand T, Ejsing CS, Fedorova M, Feussner I, Griffiths WJ, Köfeler H, Merrill AH, Murphy RC, O'Donnell VB, Oskolkova O, Subramaniam S, Wakelam MJO, Spener F. PMID: 33037133; PMCID: PMC7707175.
      View in: PubMed   Mentions: 351     Fields:    Translation:HumansAnimals
    66. Systems Analysis of Biliary Atresia Through Integration of High-Throughput Biological Data. Front Physiol. 2020; 11:966. Min J, Ningappa M, So J, Shin D, Sindhi R, Subramaniam S. PMID: 32848883; PMCID: PMC7426509.
      View in: PubMed   Mentions: 6  
    67. Plasmin Cascade Mediates Thrombotic Events in SARS-CoV-2 Infection via Complement and Platelet-Activating Systems. IEEE Open J Eng Med Biol. 2020; 1:220-227. Mukund K, Mathee K, Subramaniam S. PMID: 34786557; PMCID: PMC8527892.
      View in: PubMed   Mentions: 7  
    68. Cloud-based archived metabolomics data: A resource for in-source fragmentation/annotation, meta-analysis and systems biology. Anal Sci Adv. 2020 Jun; 1(1):70-80. Palermo A, Huan T, Rinehart D, Rinschen MM, Li S, O'Donnell VB, Fahy E, Xue J, Subramaniam S, Benton HP, Siuzdak G. PMID: 35190800; PMCID: PMC8858440.
      View in: PubMed   Mentions: 4  
    69. T cell-inducing vaccine durably prevents mucosal SHIV infection even with lower neutralizing antibody titers. Nat Med. 2020 06; 26(6):932-940. Arunachalam PS, Charles TP, Joag V, Bollimpelli VS, Scott MKD, Wimmers F, Burton SL, Labranche CC, Petitdemange C, Gangadhara S, Styles TM, Quarnstrom CF, Walter KA, Ketas TJ, Legere T, Jagadeesh Reddy PB, Kasturi SP, Tsai A, Yeung BZ, Gupta S, Tomai M, Vasilakos J, Shaw GM, Kang CY, Moore JP, Subramaniam S, Khatri P, Montefiori D, Kozlowski PA, Derdeyn CA, Hunter E, Masopust D, Amara RR, Pulendran B. PMID: 32393800; PMCID: PMC7303014.
      View in: PubMed   Mentions: 104     Fields:    Translation:AnimalsCells
    70. Right and left-sided colon cancers - specificity of molecular mechanisms in tumorigenesis and progression. BMC Cancer. 2020 Apr 15; 20(1):317. Mukund K, Syulyukina N, Ramamoorthy S, Subramaniam S. PMID: 32293332; PMCID: PMC7161305.
      View in: PubMed   Mentions: 49     Fields:    Translation:HumansCells
    71. Attractor Ranked Radial Basis Function Network: A Nonparametric Forecasting Approach for Chaotic Dynamic Systems. Sci Rep. 2020 03 02; 10(1):3780. Masnadi-Shirazi M, Subramaniam S. PMID: 32123218; PMCID: PMC7052196.
      View in: PubMed   Mentions: 1     Fields:    
    72. Histone Signatures Predict Therapeutic Efficacy in Breast Cancer. IEEE Open J Eng Med Biol. 2020; 1:74-82. Mollah SA, Subramaniam S. PMID: 32412527; PMCID: PMC7207876.
      View in: PubMed   Mentions: 1  
    73. Skeletal muscle: A review of molecular structure and function, in health and disease. Wiley Interdiscip Rev Syst Biol Med. 2020 01; 12(1):e1462. Mukund K, Subramaniam S. PMID: 31407867; PMCID: PMC6916202.
      View in: PubMed   Mentions: 273     Fields:    Translation:HumansAnimalsCells
    74. Time varying causal network reconstruction of a mouse cell cycle. BMC Bioinformatics. 2019 May 29; 20(1):294. Masnadi-Shirazi M, Maurya MR, Pao G, Ke E, Verma IM, Subramaniam S. PMID: 31142274; PMCID: PMC6542064.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    75. Topological and functional comparison of community detection algorithms in biological networks. BMC Bioinformatics. 2019 Apr 27; 20(1):212. Rahiminejad S, Maurya MR, Subramaniam S. PMID: 31029085; PMCID: PMC6487005.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansAnimals
    76. Ursolic acid inhibits colistin efflux and curtails colistin resistant Enterobacteriaceae. AMB Express. 2019 Feb 18; 9(1):27. Sundaramoorthy NS, Mohan HM, Subramaniam S, Raman T, Selva Ganesan S, Sivasubamanian A, Nagarajan S. PMID: 30778773; PMCID: PMC6379497.
      View in: PubMed   Mentions: 11  
    77. LIPID MAPS: Serving the next generation of lipid researchers with tools, resources, data, and training. Sci Signal. 2019 01 08; 12(563). O'Donnell VB, Dennis EA, Wakelam MJO, Subramaniam S. PMID: 30622195.
      View in: PubMed   Mentions: 64     Fields:    Translation:Humans
    78. miRNAs that Induce Human Cardiomyocyte Proliferation Converge on the Hippo Pathway. Cell Rep. 2018 05 15; 23(7):2168-2174. Diez-Cuñado M, Wei K, Bushway PJ, Maurya MR, Perera R, Subramaniam S, Ruiz-Lozano P, Mercola M. PMID: 29768213; PMCID: PMC6261450.
      View in: PubMed   Mentions: 61     Fields:    Translation:HumansCells
    79. Enhancer-associated long non-coding RNA LEENE regulates endothelial nitric oxide synthase and endothelial function. Nat Commun. 2018 01 18; 9(1):292. Miao Y, Ajami NE, Huang TS, Lin FM, Lou CH, Wang YT, Li S, Kang J, Munkacsi H, Maurya MR, Gupta S, Chien S, Subramaniam S, Chen Z. PMID: 29348663; PMCID: PMC5773557.
      View in: PubMed   Mentions: 91     Fields:    Translation:HumansAnimalsCells
    80. Co-expression Network Approach Reveals Functional Similarities among Diseases Affecting Human Skeletal Muscle. Front Physiol. 2017; 8:980. Mukund K, Subramaniam S. PMID: 29249983; PMCID: PMC5717538.
      View in: PubMed   Mentions: 6  
    81. Co-Expression Network Approach to Studying the Effects of Botulinum Neurotoxin-A. IEEE/ACM Trans Comput Biol Bioinform. 2018 Nov-Dec; 15(6):2009-2016. Mukund K, Ward SR, Lieber RL, Subramaniam S. PMID: 29053464.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsCells
    82. Systems biology analysis of longitudinal functional response of endothelial cells to shear stress. Proc Natl Acad Sci U S A. 2017 10 10; 114(41):10990-10995. Ajami NE, Gupta S, Maurya MR, Nguyen P, Li JY, Shyy JY, Chen Z, Chien S, Subramaniam S. PMID: 28973892; PMCID: PMC5642700.
      View in: PubMed   Mentions: 81     Fields:    Translation:HumansCells
    83. Krüppel-Like Factor 4 Regulation of Cholesterol-25-Hydroxylase and Liver X Receptor Mitigates Atherosclerosis Susceptibility. Circulation. 2017 Oct 03; 136(14):1315-1330. Li Z, Martin M, Zhang J, Huang HY, Bai L, Zhang J, Kang J, He M, Li J, Maurya MR, Gupta S, Zhou G, Sangwung P, Xu YJ, Lei T, Huang HD, Jain M, Jain MK, Subramaniam S, Shyy JY. PMID: 28794002; PMCID: PMC5741092.
      View in: PubMed   Mentions: 65     Fields:    Translation:HumansAnimals
    84. LINC00341 exerts an anti-inflammatory effect on endothelial cells by repressing VCAM1. Physiol Genomics. 2017 Jul 01; 49(7):339-345. Huang TS, Wang KC, Quon S, Nguyen P, Chang TY, Chen Z, Li YS, Subramaniam S, Shyy J, Chien S. PMID: 28500253; PMCID: PMC5538877.
      View in: PubMed   Mentions: 31     Fields:    Translation:HumansCells
    85. Metabolic Phenotypes of Response to Vaccination in Humans. Cell. 2017 May 18; 169(5):862-877.e17. Li S, Sullivan NL, Rouphael N, Yu T, Banton S, Maddur MS, McCausland M, Chiu C, Canniff J, Dubey S, Liu K, Tran V, Hagan T, Duraisingham S, Wieland A, Mehta AK, Whitaker JA, Subramaniam S, Jones DP, Sette A, Vora K, Weinberg A, Mulligan MJ, Nakaya HI, Levin M, Ahmed R, Pulendran B. PMID: 28502771; PMCID: PMC5711477.
      View in: PubMed   Mentions: 161     Fields:    Translation:HumansCells
    86. Discovering and linking public omics data sets using the Omics Discovery Index. Nat Biotechnol. 2017 05 09; 35(5):406-409. Perez-Riverol Y, Bai M, da Veiga Leprevost F, Squizzato S, Park YM, Haug K, Carroll AJ, Spalding D, Paschall J, Wang M, Del-Toro N, Ternent T, Zhang P, Buso N, Bandeira N, Deutsch EW, Campbell DS, Beavis RC, Salek RM, Sarkans U, Petryszak R, Keays M, Fahy E, Sud M, Subramaniam S, Barbera A, Jiménez RC, Nesvizhskii AI, Sansone SA, Steinbeck C, Lopez R, Vizcaíno JA, Ping P, Hermjakob H. PMID: 28486464; PMCID: PMC5831141.
      View in: PubMed   Mentions: 110     Fields:    Translation:Humans
    87. Epigenetic Regulation: A New Frontier for Biomedical Engineers. Annu Rev Biomed Eng. 2017 06 21; 19:195-219. Chen Z, Li S, Subramaniam S, Shyy JY, Chien S. PMID: 28301736.
      View in: PubMed   Mentions: 78     Fields:    Translation:HumansAnimalsCells
    88. AMPK promotes mitochondrial biogenesis and function by phosphorylating the epigenetic factors DNMT1, RBBP7, and HAT1. Sci Signal. 2017 01 31; 10(464). Marin TL, Gongol B, Zhang F, Martin M, Johnson DA, Xiao H, Wang Y, Subramaniam S, Chien S, Shyy JY. PMID: 28143904; PMCID: PMC5830108.
      View in: PubMed   Mentions: 123     Fields:    Translation:HumansCells
    89. Loss of EGFR-ASAP1 signaling in metastatic and unresectable hepatoblastoma. Sci Rep. 2016 12 02; 6:38347. Ranganathan S, Ningappa M, Ashokkumar C, Higgs BW, Min J, Sun Q, Schmitt L, Subramaniam S, Hakonarson H, Sindhi R. PMID: 27910913; PMCID: PMC5133573.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCells
    90. Three distinct cell populations express extracellular matrix proteins and increase in number during skeletal muscle fibrosis. Am J Physiol Cell Physiol. 2017 Feb 01; 312(2):C131-C143. Chapman MA, Mukund K, Subramaniam S, Brenner D, Lieber RL. PMID: 27881411; PMCID: PMC5336596.
      View in: PubMed   Mentions: 40     Fields:    Translation:AnimalsCells
    91. p62/SQSTM1 by Binding to Vitamin D Receptor Inhibits Hepatic Stellate Cell Activity, Fibrosis, and Liver Cancer. Cancer Cell. 2016 10 10; 30(4):595-609. Duran A, Hernandez ED, Reina-Campos M, Castilla EA, Subramaniam S, Raghunandan S, Roberts LR, Kisseleva T, Karin M, Diaz-Meco MT, Moscat J. PMID: 27728806; PMCID: PMC5081228.
      View in: PubMed   Mentions: 128     Fields:    Translation:HumansAnimalsCells
    92. Systems Analysis of the Complement-Induced Priming Phase of Liver Regeneration. J Immunol. 2016 09 15; 197(6):2500-8. Min JS, DeAngelis RA, Reis ES, Gupta S, Maurya MR, Evans C, Das A, Burant C, Lambris JD, Subramaniam S. PMID: 27511733; PMCID: PMC5038987.
      View in: PubMed   Mentions: 13     Fields:    Translation:AnimalsCells
    93. p62, Upregulated during Preneoplasia, Induces Hepatocellular Carcinogenesis by Maintaining Survival of Stressed HCC-Initiating Cells. Cancer Cell. 2016 06 13; 29(6):935-948. Umemura A, He F, Taniguchi K, Nakagawa H, Yamachika S, Font-Burgada J, Zhong Z, Subramaniam S, Raghunandan S, Duran A, Linares JF, Reina-Campos M, Umemura S, Valasek MA, Seki E, Yamaguchi K, Koike K, Itoh Y, Diaz-Meco MT, Moscat J, Karin M. PMID: 27211490; PMCID: PMC4907799.
      View in: PubMed   Mentions: 276     Fields:    Translation:HumansAnimalsCells
    94. Computational Modeling of Competitive Metabolism between ω3- and ω6-Polyunsaturated Fatty Acids in Inflammatory Macrophages. J Phys Chem B. 2016 08 25; 120(33):8346-53. Gupta S, Kihara Y, Maurya MR, Norris PC, Dennis EA, Subramaniam S. PMID: 27063350; PMCID: PMC5024554.
      View in: PubMed   Mentions: 8     Fields:    Translation:AnimalsCells
    95. Scope and limitations of yeast as a model organism for studying human tissue-specific pathways. BMC Syst Biol. 2015 Dec 29; 9:96. Mohammadi S, Saberidokht B, Subramaniam S, Grama A. PMID: 26714768; PMCID: PMC4696342.
      View in: PubMed   Mentions: 27     Fields:    Translation:HumansAnimals
    96. Systems Analysis of Immunity to Influenza Vaccination across Multiple Years and in Diverse Populations Reveals Shared Molecular Signatures. Immunity. 2015 Dec 15; 43(6):1186-98. Nakaya HI, Hagan T, Duraisingham SS, Lee EK, Kwissa M, Rouphael N, Frasca D, Gersten M, Mehta AK, Gaujoux R, Li GM, Gupta S, Ahmed R, Mulligan MJ, Shen-Orr S, Blomberg BB, Subramaniam S, Pulendran B. PMID: 26682988; PMCID: PMC4859820.
      View in: PubMed   Mentions: 205     Fields:    Translation:HumansCells
    97. Metabolomics Workbench: An international repository for metabolomics data and metadata, metabolite standards, protocols, tutorials and training, and analysis tools. Nucleic Acids Res. 2016 Jan 04; 44(D1):D463-70. Sud M, Fahy E, Cotter D, Azam K, Vadivelu I, Burant C, Edison A, Fiehn O, Higashi R, Nair KS, Sumner S, Subramaniam S. PMID: 26467476; PMCID: PMC4702780.
      View in: PubMed   Mentions: 471     Fields:    Translation:HumansAnimalsCells
    98. The Role of ARF6 in Biliary Atresia. PLoS One. 2015; 10(9):e0138381. Ningappa M, So J, Glessner J, Ashokkumar C, Ranganathan S, Min J, Higgs BW, Sun Q, Haberman K, Schmitt L, Vilarinho S, Mistry PK, Vockley G, Dhawan A, Gittes GK, Hakonarson H, Jaffe R, Subramaniam S, Shin D, Sindhi R. PMID: 26379158; PMCID: PMC4574480.
      View in: PubMed   Mentions: 34     Fields:    Translation:HumansAnimalsCells
    99. Serum microRNAs explain discordance of non-alcoholic fatty liver disease in monozygotic and dizygotic twins: a prospective study. Gut. 2016 09; 65(9):1546-54. Zarrinpar A, Gupta S, Maurya MR, Subramaniam S, Loomba R. PMID: 26002934; PMCID: PMC5089367.
      View in: PubMed   Mentions: 56     Fields:    Translation:Humans
    100. Dysregulated mechanisms underlying Duchenne muscular dystrophy from co-expression network preservation analysis. BMC Res Notes. 2015 May 03; 8:182. Mukund K, Subramaniam S. PMID: 25935398; PMCID: PMC4424514.
      View in: PubMed   Mentions: 8     Fields:    Translation:Humans
    101. Systems vaccinology: Enabling rational vaccine design with systems biological approaches. Vaccine. 2015 Sep 29; 33(40):5294-301. Hagan T, Nakaya HI, Subramaniam S, Pulendran B. PMID: 25858860; PMCID: PMC4581890.
      View in: PubMed   Mentions: 67     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    102. Identification of AMP-activated protein kinase targets by a consensus sequence search of the proteome. BMC Syst Biol. 2015 Mar 11; 9:13. Marin TL, Gongol B, Martin M, King SJ, Smith L, Johnson DA, Subramaniam S, Chien S, Shyy JY. PMID: 25890336; PMCID: PMC4357066.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansAnimalsCells
    103. Biomarkers of NAFLD progression: a lipidomics approach to an epidemic. J Lipid Res. 2015 Mar; 56(3):722-736. Gorden DL, Myers DS, Ivanova PT, Fahy E, Maurya MR, Gupta S, Min J, Spann NJ, McDonald JG, Kelly SL, Duan J, Sullards MC, Leiker TJ, Barkley RM, Quehenberger O, Armando AM, Milne SB, Mathews TP, Armstrong MD, Li C, Melvin WV, Clements RH, Washington MK, Mendonsa AM, Witztum JL, Guan Z, Glass CK, Murphy RC, Dennis EA, Merrill AH, Russell DW, Subramaniam S, Brown HA. PMID: 25598080; PMCID: PMC4340319.
      View in: PubMed   Mentions: 198     Fields:    Translation:HumansCTClinical Trials
    104. Replacing the Transfusion of 1-2 Units of Blood with Plasma Expanders that Increase Oxygen Delivery Capacity: Evidence from Experimental Studies. J Funct Biomater. 2014 Oct 27; 5(4):232-45. Tsai AG, Salazar Vázquez BY, Cabrales P, Kistler EB, Tartakovsky DM, Subramaniam S, Acharya SA, Intaglietta M. PMID: 25350267; PMCID: PMC4285404.
      View in: PubMed   Mentions: 2  
    105. Wnt pathway activation increases hypoxia tolerance during development. PLoS One. 2014; 9(8):e103292. Gersten M, Zhou D, Azad P, Haddad GG, Subramaniam S. PMID: 25093834; PMCID: PMC4122365.
      View in: PubMed   Mentions: 6     Fields:    Translation:AnimalsCells
    106. Information theoretic approach to complex biological network reconstruction: application to cytokine release in RAW 264.7 macrophages. BMC Syst Biol. 2014 Jun 25; 8:77. Farhangmehr F, Maurya MR, Tartakovsky DM, Subramaniam S. PMID: 24964861; PMCID: PMC4094931.
      View in: PubMed   Mentions: 6     Fields:    Translation:AnimalsCells
    107. MicroRNA-23b regulates cyclin-dependent kinase-activating kinase complex through cyclin H repression to modulate endothelial transcription and growth under flow. Arterioscler Thromb Vasc Biol. 2014 Jul; 34(7):1437-45. Wang KC, Nguyen P, Weiss A, Yeh YT, Chien HS, Lee A, Teng D, Subramaniam S, Li YS, Chien S. PMID: 24855060; PMCID: PMC4119726.
      View in: PubMed   Mentions: 17     Fields:    Translation:HumansAnimalsCells
    108. Influence of serological factors and BMI on the blood pressure/hematocrit association in healthy young men and women. Vasc Health Risk Manag. 2014; 10:271-7. Salazar Vázquez BY, Salazar Vázquez MA, Chávez-Negrete A, Escobedo G, Cabrales P, Subramaniam S, Intaglietta M, Pérez-Tamayo R. PMID: 24851053; PMCID: PMC4018417.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    109. Drug discovery and the maze of biological complexity: an editorial essay. Wiley Interdiscip Rev Syst Biol Med. 2014 May-Jun; 6(3):225-6. Subramaniam S. PMID: 24648390.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimals
    110. Systems analysis of transcriptional data provides insights into muscle's biological response to botulinum toxin. Muscle Nerve. 2014 Nov; 50(5):744-58. Mukund K, Mathewson M, Minamoto V, Ward SR, Subramaniam S, Lieber RL. PMID: 24536034; PMCID: PMC4136975.
      View in: PubMed   Mentions: 22     Fields:    Translation:AnimalsCells
    111. Statistical insights into major human muscular diseases. Hum Mol Genet. 2014 Jul 15; 23(14):3772-8. Gupta S, Kim SM, Wang Y, Dinasarapu AR, Subramaniam S. PMID: 24569163; PMCID: PMC4415066.
      View in: PubMed   Mentions: 5     Fields:    Translation:Humans
    112. Modeling of eicosanoid fluxes reveals functional coupling between cyclooxygenases and terminal synthases. Biophys J. 2014 Feb 18; 106(4):966-75. Kihara Y, Gupta S, Maurya MR, Armando A, Shah I, Quehenberger O, Glass CK, Dennis EA, Subramaniam S. PMID: 24559999; PMCID: PMC3945033.
      View in: PubMed   Mentions: 22     Fields:    Translation:AnimalsCells
    113. A Newtonian framework for community detection in undirected biological networks. IEEE Trans Biomed Circuits Syst. 2014 Feb; 8(1):65-73. Narayanan T, Subramaniam S. PMID: 24681920.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    114. Time-varying causal inference from phosphoproteomic measurements in macrophage cells. IEEE Trans Biomed Circuits Syst. 2014 Feb; 8(1):74-86. Masnadi-Shirazi M, Maurya MR, Subramaniam S. PMID: 24681921; PMCID: PMC4631079.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    115. Technical variations in low-input RNA-seq methodologies. Sci Rep. 2014 Jan 14; 4:3678. Bhargava V, Head SR, Ordoukhanian P, Mercola M, Subramaniam S. PMID: 24419370; PMCID: PMC3890974.
      View in: PubMed   Mentions: 50     Fields:    Translation:AnimalsCells
    116. 25-Hydroxycholesterol activates the integrated stress response to reprogram transcription and translation in macrophages. J Biol Chem. 2013 Dec 13; 288(50):35812-23. Shibata N, Carlin AF, Spann NJ, Saijo K, Morello CS, McDonald JG, Romanoski CE, Maurya MR, Kaikkonen MU, Lam MT, Crotti A, Reichart D, Fox JN, Quehenberger O, Raetz CR, Sullards MC, Murphy RC, Merrill AH, Brown HA, Dennis EA, Fahy E, Subramaniam S, Cavener DR, Spector DH, Russell DW, Glass CK. PMID: 24189069; PMCID: PMC3861632.
      View in: PubMed   Mentions: 47     Fields:    Translation:AnimalsCells
    117. Inferring the effective TOR-dependent network: a computational study in yeast. BMC Syst Biol. 2013 Aug 30; 7:84. Mohammadi S, Subramaniam S, Grama A. PMID: 24005029; PMCID: PMC4016608.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsCells
    118. Developing microRNA screening as a functional genomics tool for disease research. Front Physiol. 2013; 4:223. Lemons D, Maurya MR, Subramaniam S, Mercola M. PMID: 23986717; PMCID: PMC3753477.
      View in: PubMed   Mentions: 10  
    119. A combined omics study on activated macrophages--enhanced role of STATs in apoptosis, immunity and lipid metabolism. Bioinformatics. 2013 Nov 01; 29(21):2735-43. Dinasarapu AR, Gupta S, Ram Maurya M, Fahy E, Min J, Sud M, Gersten MJ, Glass CK, Subramaniam S. PMID: 23981351; PMCID: PMC3799469.
      View in: PubMed   Mentions: 16     Fields:    Translation:AnimalsCells
    120. Community Structure Analysis of Gene Interaction Networks in Duchenne Muscular Dystrophy. PLoS One. 2013; 8(6):e67237. Narayanan T, Subramaniam S. PMID: 23840633; PMCID: PMC3686745.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    121. Analysis of inflammatory and lipid metabolic networks across RAW264.7 and thioglycolate-elicited macrophages. J Lipid Res. 2013 Sep; 54(9):2525-42. Maurya MR, Gupta S, Li X, Fahy E, Dinasarapu AR, Sud M, Brown HA, Glass CK, Murphy RC, Russell DW, Dennis EA, Subramaniam S. PMID: 23776196; PMCID: PMC3735949.
      View in: PubMed   Mentions: 26     Fields:    Translation:AnimalsCells
    122. Mechanosensitive microRNAs-role in endothelial responses to shear stress and redox state. Free Radic Biol Med. 2013 Sep; 64:61-8. Marin T, Gongol B, Chen Z, Woo B, Subramaniam S, Chien S, Shyy JY. PMID: 23727269; PMCID: PMC3762952.
      View in: PubMed   Mentions: 65     Fields:    Translation:HumansCells
    123. CMAP: Complement Map Database. Bioinformatics. 2013 Jul 15; 29(14):1832-3. Yang K, Dinasarapu AR, Reis ES, Deangelis RA, Ricklin D, Subramaniam S, Lambris JD. PMID: 23661693; PMCID: PMC3702248.
      View in: PubMed   Mentions: 24     Fields:    Translation:Humans
    124. The poor performance of TMM on microRNA-Seq. RNA. 2013 Jun; 19(6):735-6. Garmire LX, Subramaniam S. PMID: 23616641; PMCID: PMC3683907.
      View in: PubMed   Mentions: 5     Fields:    Translation:Animals
    125. Quantitative transcriptomics using designed primer-based amplification. Sci Rep. 2013; 3:1740. Bhargava V, Ko P, Willems E, Mercola M, Subramaniam S. PMID: 23624976; PMCID: PMC3638165.
      View in: PubMed   Mentions: 22     Fields:    Translation:AnimalsCells
    126. Whole-genome microRNA screening identifies let-7 and mir-18 as regulators of germ layer formation during early embryogenesis. Genes Dev. 2012 Dec 01; 26(23):2567-79. Colas AR, McKeithan WL, Cunningham TJ, Bushway PJ, Garmire LX, Duester G, Subramaniam S, Mercola M. PMID: 23152446; PMCID: PMC3521625.
      View in: PubMed   Mentions: 33     Fields:    Translation:AnimalsCells
    127. Stochastic operator-splitting method for reaction-diffusion systems. J Chem Phys. 2012 Nov 14; 137(18):184102. Choi T, Maurya MR, Tartakovsky DM, Subramaniam S. PMID: 23163359; PMCID: PMC3505198.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    128. Functional classification of skeletal muscle networks. II. Applications to pathophysiology. J Appl Physiol (1985). 2012 Dec 15; 113(12):1902-20. Wang Y, Winters J, Subramaniam S. PMID: 23085957; PMCID: PMC3544493.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansAnimalsCells
    129. Functional classification of skeletal muscle networks. I. Normal physiology. J Appl Physiol (1985). 2012 Dec 15; 113(12):1884-901. Wang Y, Winters J, Subramaniam S. PMID: 23085959; PMCID: PMC3544495.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansAnimalsCells
    130. Comparison of statistical and optimisation-based methods for data-driven network reconstruction of biochemical systems. IET Syst Biol. 2012 Oct; 6(5):155-63. Asadi B, Maurya MR, Tartakovsky DM, Subramaniam S. PMID: 23101870.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    131. Regulated accumulation of desmosterol integrates macrophage lipid metabolism and inflammatory responses. Cell. 2012 Sep 28; 151(1):138-52. Spann NJ, Garmire LX, McDonald JG, Myers DS, Milne SB, Shibata N, Reichart D, Fox JN, Shaked I, Heudobler D, Raetz CR, Wang EW, Kelly SL, Sullards MC, Murphy RC, Merrill AH, Brown HA, Dennis EA, Li AC, Ley K, Tsimikas S, Fahy E, Subramaniam S, Quehenberger O, Russell DW, Glass CK. PMID: 23021221; PMCID: PMC3464914.
      View in: PubMed   Mentions: 336     Fields:    Translation:AnimalsCells
    132. Template-based combinatorial enumeration of virtual compound libraries for lipids. J Cheminform. 2012 Sep 25; 4(1):23. Sud M, Fahy E, Subramaniam S. PMID: 23006594; PMCID: PMC3545849.
      View in: PubMed   Mentions: 10  
    133. Transcriptional abnormalities of hamstring muscle contractures in children with cerebral palsy. PLoS One. 2012; 7(8):e40686. Smith LR, Chambers HG, Subramaniam S, Lieber RL. PMID: 22956992; PMCID: PMC3431909.
      View in: PubMed   Mentions: 32     Fields:    Translation:HumansCells
    134. Evolution of bioengineering at UCSD: opening new vistas. IEEE Pulse. 2012 Jul; 3(4):49-55. Subramaniam S. PMID: 22850838.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimals
    135. B-cell ligand processing pathways detected by large-scale comparative analysis. Genomics Proteomics Bioinformatics. 2012 Jun; 10(3):142-52. Towfic F, Gupta S, Honavar V, Subramaniam S. PMID: 22917187; PMCID: PMC5054497.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    136. PEG-albumin plasma expansion increases expression of MCP-1 evidencing increased circulatory wall shear stress: an experimental study. PLoS One. 2012; 7(6):e39111. Hightower CM, Salazar Vázquez BY, Acharya SA, Subramaniam S, Intaglietta M. PMID: 22720043; PMCID: PMC3375248.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    137. Evaluation of normalization methods in mammalian microRNA-Seq data. RNA. 2012 Jun; 18(6):1279-88. Garmire LX, Subramaniam S. PMID: 22532701; PMCID: PMC3358649.
      View in: PubMed   Mentions: 62     Fields:    Translation:Animals
    138. Gene-expression measurement: variance-modeling considerations for robust data analysis. Nat Immunol. 2012 Feb 16; 13(3):199-203. Subramaniam S, Hsiao G. PMID: 22344273; PMCID: PMC4358796.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimals
    139. LIPID MAPS-Nature Lipidomics Gateway: An Online Resource for Students and Educators Interested in Lipids. J Chem Educ. 2012 Jan 10; 89(2):291-292. Sud M, Fahy E, Cotter D, Dennis EA, Subramaniam S. PMID: 24764601; PMCID: PMC3995124.
      View in: PubMed   Mentions: 24     Fields:    
    140. Modularity detection in protein-protein interaction networks. BMC Res Notes. 2011 Dec 29; 4:569. Narayanan T, Gersten M, Subramaniam S, Grama A. PMID: 22206604; PMCID: PMC3292542.
      View in: PubMed   Mentions: 16     Fields:    
    141. A complement-IL-4 regulatory circuit controls liver regeneration. J Immunol. 2012 Jan 15; 188(2):641-8. DeAngelis RA, Markiewski MM, Kourtzelis I, Rafail S, Syriga M, Sandor A, Maurya MR, Gupta S, Subramaniam S, Lambris JD. PMID: 22184721; PMCID: PMC3253144.
      View in: PubMed   Mentions: 31     Fields:    Translation:AnimalsCells
    142. Mechanisms establishing TLR4-responsive activation states of inflammatory response genes. PLoS Genet. 2011 Dec; 7(12):e1002401. Escoubet-Lozach L, Benner C, Kaikkonen MU, Lozach J, Heinz S, Spann NJ, Crotti A, Stender J, Ghisletti S, Reichart D, Cheng CS, Luna R, Ludka C, Sasik R, Garcia-Bassets I, Hoffmann A, Subramaniam S, Hardiman G, Rosenfeld MG, Glass CK. PMID: 22174696; PMCID: PMC3234212.
      View in: PubMed   Mentions: 93     Fields:    Translation:HumansAnimalsCells
    143. A global clustering algorithm to identify long intergenic non-coding RNA--with applications in mouse macrophages. PLoS One. 2011; 6(9):e24051. Garmire LX, Garmire DG, Huang W, Yao J, Glass CK, Subramaniam S. PMID: 21980340; PMCID: PMC3184070.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansAnimalsCells
    144. Bioinformatics and systems biology of the lipidome. Chem Rev. 2011 Oct 12; 111(10):6452-90. Subramaniam S, Fahy E, Gupta S, Sud M, Byrnes RW, Cotter D, Dinasarapu AR, Maurya MR. PMID: 21939287; PMCID: PMC3383319.
      View in: PubMed   Mentions: 50     Fields:    
    145. Lipid classification, structures and tools. Biochim Biophys Acta. 2011 Nov; 1811(11):637-47. Fahy E, Cotter D, Sud M, Subramaniam S. PMID: 21704189; PMCID: PMC3995129.
      View in: PubMed   Mentions: 230     Fields:    Translation:HumansAnimals
    146. MicroRNA-21 targets peroxisome proliferators-activated receptor-alpha in an autoregulatory loop to modulate flow-induced endothelial inflammation. Proc Natl Acad Sci U S A. 2011 Jun 21; 108(25):10355-60. Zhou J, Wang KC, Wu W, Subramaniam S, Shyy JY, Chiu JJ, Li JY, Chien S. PMID: 21636785; PMCID: PMC3121870.
      View in: PubMed   Mentions: 184     Fields:    Translation:HumansCells
    147. Signaling gateway molecule pages--a data model perspective. Bioinformatics. 2011 Jun 15; 27(12):1736-8. Dinasarapu AR, Saunders B, Ozerlat I, Azam K, Subramaniam S. PMID: 21505029; PMCID: PMC3106186.
      View in: PubMed   Mentions: 9     Fields:    Translation:Cells
    148. Pathways, networks, and systems medicine--the meeting place of the Aegean and the mind. Wiley Interdiscip Rev Syst Biol Med. 2011 May-Jun; 3(3):253-4. Subramaniam S, Nadeau JH. PMID: 21462354.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimals
    149. Systems physiology--the heart of the matter or a bone of contention? Wiley Interdiscip Rev Syst Biol Med. 2011 Mar-Apr; 3(2):127-8. Subramaniam S, Nadeau JH. PMID: 21305701.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimals
    150. Integration of lipidomics and transcriptomics data towards a systems biology model of sphingolipid metabolism. BMC Syst Biol. 2011 Feb 08; 5:26. Gupta S, Maurya MR, Merrill AH, Glass CK, Subramaniam S. PMID: 21303545; PMCID: PMC3047436.
      View in: PubMed   Mentions: 22     Fields:    Translation:AnimalsCells
    151. Experimental selection of hypoxia-tolerant Drosophila melanogaster. Proc Natl Acad Sci U S A. 2011 Feb 08; 108(6):2349-54. Zhou D, Udpa N, Gersten M, Visk DW, Bashir A, Xue J, Frazer KA, Posakony JW, Subramaniam S, Bafna V, Haddad GG. PMID: 21262834; PMCID: PMC3038716.
      View in: PubMed   Mentions: 70     Fields:    Translation:AnimalsCells
    152. Stochastic hybrid modeling of intracellular calcium dynamics. J Chem Phys. 2010 Oct 28; 133(16):165101. Choi T, Maurya MR, Tartakovsky DM, Subramaniam S. PMID: 21033822; PMCID: PMC2998048.
      View in: PubMed   Mentions: 8     Fields:    Translation:AnimalsCells
    153. Multi-tissue, selective PPARγ modulation of insulin sensitivity and metabolic pathways in obese rats. Am J Physiol Endocrinol Metab. 2011 Jan; 300(1):E164-74. Hsiao G, Chapman J, Ofrecio JM, Wilkes J, Resnik JL, Thapar D, Subramaniam S, Sears DD. PMID: 20959535; PMCID: PMC3023199.
      View in: PubMed   Mentions: 52     Fields:    Translation:AnimalsCells
    154. A mouse macrophage lipidome. J Biol Chem. 2010 Dec 17; 285(51):39976-85. Dennis EA, Deems RA, Harkewicz R, Quehenberger O, Brown HA, Milne SB, Myers DS, Glass CK, Hardiman G, Reichart D, Merrill AH, Sullards MC, Wang E, Murphy RC, Raetz CR, Garrett TA, Guan Z, Ryan AC, Russell DW, McDonald JG, Thompson BM, Shaw WA, Sud M, Zhao Y, Gupta S, Maurya MR, Fahy E, Subramaniam S. PMID: 20923771; PMCID: PMC3000979.
      View in: PubMed   Mentions: 161     Fields:    Translation:AnimalsCells
    155. Classification studies based on a spectral representation of DNA. J Theor Biol. 2010 Oct 21; 266(4):667-74. Bielinska-Waz D, Subramaniam S. PMID: 20691193.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimals
    156. Lipidomics reveals a remarkable diversity of lipids in human plasma. J Lipid Res. 2010 Nov; 51(11):3299-305. Quehenberger O, Armando AM, Brown AH, Milne SB, Myers DS, Merrill AH, Bandyopadhyay S, Jones KN, Kelly S, Shaner RL, Sullards CM, Wang E, Murphy RC, Barkley RM, Leiker TJ, Raetz CR, Guan Z, Laird GM, Six DA, Russell DW, McDonald JG, Subramaniam S, Fahy E, Dennis EA. PMID: 20671299; PMCID: PMC2952570.
      View in: PubMed   Mentions: 595     Fields:    Translation:Humans
    157. Systems medicine--viewed through the real and computing lenses. Wiley Interdiscip Rev Syst Biol Med. 2010 Jul-Aug; 2(4):383-384. Subramaniam S, Nadeau JH. PMID: 20836036.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    158. Subcellular organelle lipidomics in TLR-4-activated macrophages. J Lipid Res. 2010 Sep; 51(9):2785-97. Andreyev AY, Fahy E, Guan Z, Kelly S, Li X, McDonald JG, Milne S, Myers D, Park H, Ryan A, Thompson BM, Wang E, Zhao Y, Brown HA, Merrill AH, Raetz CR, Russell DW, Subramaniam S, Dennis EA. PMID: 20574076; PMCID: PMC2918461.
      View in: PubMed   Mentions: 98     Fields:    Translation:AnimalsCells
    159. Systems biology and medicine--metazoan life and processes. Wiley Interdiscip Rev Syst Biol Med. 2010 May-Jun; 2(3):253-254. Subramaniam S, Nadeau JH. PMID: 20836027.
      View in: PubMed   Mentions:    Fields:    Translation:Animals
    160. Conserved regulatory motifs at phenylethanolamine N-methyltransferase (PNMT) are disrupted by common functional genetic variation: an integrated computational/experimental approach. Mamm Genome. 2010 Apr; 21(3-4):195-204. Rodríguez-Flores JL, Zhang K, Kang SW, Wen G, Ghosh S, Friese RS, Mahata SK, Subramaniam S, Hamilton BA, O'Connor DT. PMID: 20204374; PMCID: PMC2844968.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansAnimalsCells
    161. Systems biology and medicine--meta-issues and frameworks. Wiley Interdiscip Rev Syst Biol Med. 2010 Mar-Apr; 2(2):i-ii. Subramaniam S, Nadeau JH. PMID: 20836016.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    162. Identification of crosstalk between phosphoprotein signaling pathways in RAW 264.7 macrophage cells. PLoS Comput Biol. 2010 Jan 29; 6(1):e1000654. Gupta S, Maurya MR, Subramaniam S. PMID: 20126526; PMCID: PMC2813256.
      View in: PubMed   Mentions: 9     Fields:    Translation:AnimalsCells
    163. Role of microRNA-23b in flow-regulation of Rb phosphorylation and endothelial cell growth. Proc Natl Acad Sci U S A. 2010 Feb 16; 107(7):3234-9. Wang KC, Garmire LX, Young A, Nguyen P, Trinh A, Subramaniam S, Wang N, Shyy JY, Li YS, Chien S. PMID: 20133741; PMCID: PMC2840325.
      View in: PubMed   Mentions: 98     Fields:    Translation:HumansCells
    164. Regulatory network of microRNAs in RAW 264.7 macrophage cells. Annu Int Conf IEEE Eng Med Biol Soc. 2010; 2010:6198-201. Garmire LX, Shen Z, Briggs S, Yeo G, Subramaniam S, Glass C. PMID: 21097158.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsCells
    165. Systems biology--old wine in a new bottle or is the bottle changing the wine? Wiley Interdiscip Rev Syst Biol Med. 2010 Jan-Feb; 2(1):1-2. Nadeau JH, Subramaniam S. PMID: 20836006.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    166. Application of proteomic marker ensembles to subcellular organelle identification. Mol Cell Proteomics. 2010 Feb; 9(2):388-402. Andreyev AY, Shen Z, Guan Z, Ryan A, Fahy E, Subramaniam S, Raetz CR, Briggs S, Dennis EA. PMID: 19884172; PMCID: PMC2830848.
      View in: PubMed   Mentions: 22     Fields:    Translation:AnimalsCells
    167. Systems biology and medicine--plunging into the unknown. Wiley Interdiscip Rev Syst Biol Med. 2009 Nov-Dec; 1(3):283-284. Subramaniam S, Nadeau JH. PMID: 20835997.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimals
    168. Mechanisms of human insulin resistance and thiazolidinedione-mediated insulin sensitization. Proc Natl Acad Sci U S A. 2009 Nov 03; 106(44):18745-50. Sears DD, Hsiao G, Hsiao A, Yu JG, Courtney CH, Ofrecio JM, Chapman J, Subramaniam S. PMID: 19841271; PMCID: PMC2763882.
      View in: PubMed   Mentions: 101     Fields:    Translation:HumansCellsCTClinical Trials
    169. An editor for pathway drawing and data visualization in the Biopathways Workbench. BMC Syst Biol. 2009 Oct 02; 3:99. Byrnes RW, Cotter D, Maer A, Li J, Nadeau D, Subramaniam S. PMID: 19799790; PMCID: PMC2763869.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    170. Chemoattractant signaling between tumor cells and macrophages regulates cancer cell migration, metastasis and neovascularization. PLoS One. 2009 Aug 21; 4(8):e6713. Green CE, Liu T, Montel V, Hsiao G, Lester RD, Subramaniam S, Gonias SL, Klemke RL. PMID: 19696929; PMCID: PMC2725301.
      View in: PubMed   Mentions: 74     Fields:    Translation:AnimalsCells
    171. Bivariate microarray analysis: statistical interpretation of two-channel functional genomics data. Syst Synth Biol. 2008 Dec; 2(3-4):95-104. Hsiao A, Subramaniam S. PMID: 19680790; PMCID: PMC2735646.
      View in: PubMed   Mentions: 1  
    172. Novel transcriptional profile in wrist muscles from cerebral palsy patients. BMC Med Genomics. 2009 Jul 14; 2:44. Smith LR, Pontén E, Hedström Y, Ward SR, Chambers HG, Subramaniam S, Lieber RL. PMID: 19602279; PMCID: PMC2722667.
      View in: PubMed   Mentions: 46     Fields:    
    173. Systems biology and medicine: a new take on an old paradigm. Wiley Interdiscip Rev Syst Biol Med. 2009 Jul-Aug; 1(1):1-3. Nadeau JH, Subramaniam S. PMID: 20835979.
      View in: PubMed   Mentions: 1     Fields:    
    174. An integrated model of eicosanoid metabolism and signaling based on lipidomics flux analysis. Biophys J. 2009 Jun 03; 96(11):4542-51. Gupta S, Maurya MR, Stephens DL, Dennis EA, Subramaniam S. PMID: 19486676; PMCID: PMC2711499.
      View in: PubMed   Mentions: 31     Fields:    Translation:Cells
    175. Diet-induced hepatocellular carcinoma in genetically predisposed mice. Hum Mol Genet. 2009 Aug 15; 18(16):2975-88. Hill-Baskin AE, Markiewski MM, Buchner DA, Shao H, DeSantis D, Hsiao G, Subramaniam S, Berger NA, Croniger C, Lambris JD, Nadeau JH. PMID: 19454484; PMCID: PMC2714725.
      View in: PubMed   Mentions: 86     Fields:    Translation:HumansAnimals
    176. Mixed-integer nonlinear optimisation approach to coarse-graining biochemical networks. IET Syst Biol. 2009 Jan; 3(1):24-39. Maurya MR, Bornheimer SJ, Venkatasubramanian V, Subramaniam S. PMID: 19154082; PMCID: PMC2749294.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    177. Update of the LIPID MAPS comprehensive classification system for lipids. J Lipid Res. 2009 Apr; 50 Suppl:S9-14. Fahy E, Subramaniam S, Murphy RC, Nishijima M, Raetz CR, Shimizu T, Spener F, van Meer G, Wakelam MJ, Dennis EA. PMID: 19098281; PMCID: PMC2674711.
      View in: PubMed   Mentions: 706     Fields:    
    178. Functional coherence in domain interaction networks. Bioinformatics. 2008 Aug 15; 24(16):i28-34. Pandey J, Koyutürk M, Subramaniam S, Grama A. PMID: 18689835.
      View in: PubMed   Mentions: 14     Fields:    Translation:Cells
    179. Thrombin receptor and RhoA mediate cell proliferation through integrins and cysteine-rich protein 61. FASEB J. 2008 Nov; 22(11):4011-21. Walsh CT, Radeff-Huang J, Matteo R, Hsiao A, Subramaniam S, Stupack D, Brown JH. PMID: 18687805; PMCID: PMC3980657.
      View in: PubMed   Mentions: 28     Fields:    Translation:HumansCells
    180. Reconstruction of pathways associated with amino acid metabolism in human mitochondria. Genomics Proteomics Bioinformatics. 2007 Dec; 5(3-4):166-76. Guda P, Guda C, Subramaniam S. PMID: 18267298; PMCID: PMC5054205.
      View in: PubMed   Mentions: 22     Fields:    Translation:HumansCells
    181. The Molecule Pages database. Nucleic Acids Res. 2008 Jan; 36(Database issue):D700-6. Saunders B, Lyon S, Day M, Riley B, Chenette E, Subramaniam S, Vadivelu I. PMID: 17965093; PMCID: PMC2238911.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansAnimalsCells
    182. A novel role for connexin hemichannel in oxidative stress and smoking-induced cell injury. PLoS One. 2007 Aug 08; 2(8):e712. Ramachandran S, Xie LH, John SA, Subramaniam S, Lal R. PMID: 17684558; PMCID: PMC1933596.
      View in: PubMed   Mentions: 72     Fields:    Translation:AnimalsCells
    183. Functional annotation of regulatory pathways. Bioinformatics. 2007 Jul 01; 23(13):i377-86. Pandey J, Koyutürk M, Kim Y, Szpankowski W, Subramaniam S, Grama A. PMID: 17646320.
      View in: PubMed   Mentions: 11     Fields:    Translation:Cells
    184. LIPID MAPS online tools for lipid research. Nucleic Acids Res. 2007 Jul; 35(Web Server issue):W606-12. Fahy E, Sud M, Cotter D, Subramaniam S. PMID: 17584797; PMCID: PMC1933166.
      View in: PubMed   Mentions: 428     Fields:    Translation:HumansCells
    185. Macrophage PPAR gamma is required for normal skeletal muscle and hepatic insulin sensitivity and full antidiabetic effects of thiazolidinediones. J Clin Invest. 2007 Jun; 117(6):1658-69. Hevener AL, Olefsky JM, Reichart D, Nguyen MT, Bandyopadyhay G, Leung HY, Watt MJ, Benner C, Febbraio MA, Nguyen AK, Folian B, Subramaniam S, Gonzalez FJ, Glass CK, Ricote M. PMID: 17525798; PMCID: PMC1868788.
      View in: PubMed   Mentions: 256     Fields:    Translation:AnimalsCells
    186. A kinetic model for calcium dynamics in RAW 264.7 cells: 1. Mechanisms, parameters, and subpopulational variability. Biophys J. 2007 Aug 01; 93(3):709-28. Maurya MR, Subramaniam S. PMID: 17483174; PMCID: PMC1913151.
      View in: PubMed   Mentions: 24     Fields:    Translation:AnimalsCells
    187. A kinetic model for calcium dynamics in RAW 264.7 cells: 2. Knockdown response and long-term response. Biophys J. 2007 Aug 01; 93(3):729-40. Maurya MR, Subramaniam S. PMID: 17483189; PMCID: PMC1913159.
      View in: PubMed   Mentions: 8     Fields:    Translation:AnimalsCells
    188. The lipid maps initiative in lipidomics. Methods Enzymol. 2007; 432:171-83. Schmelzer K, Fahy E, Subramaniam S, Dennis EA. PMID: 17954217.
      View in: PubMed   Mentions: 66     Fields:    
    189. Bioinformatics for lipidomics. Methods Enzymol. 2007; 432:247-73. Fahy E, Cotter D, Byrnes R, Sud M, Maer A, Li J, Nadeau D, Zhau Y, Subramaniam S. PMID: 17954221.
      View in: PubMed   Mentions: 20     Fields:    Translation:Cells
    190. Toward a workbench for rodent brain image data: systems architecture and design. Neuroinformatics. 2007; 5(1):35-58. Moene IA, Subramaniam S, Darin D, Leergaard TB, Bjaalie JG. PMID: 17426352.
      View in: PubMed   Mentions: 10     Fields:    Translation:Animals
    191. Mitoproteome: human heart mitochondrial protein sequence database. Methods Mol Biol. 2007; 357:375-83. Guda P, Subramaniam S, Guda C. PMID: 17172703.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    192. Systems biology of macrophages. Adv Exp Med Biol. 2007; 598:62-79. Maurya MR, Benner C, Pradervand S, Glass C, Subramaniam S. PMID: 17892205.
      View in: PubMed   Mentions: 4     Fields:    Translation:AnimalsCells
    193. The alliance for cellular signaling plasmid collection: a flexible resource for protein localization studies and signaling pathway analysis. Mol Cell Proteomics. 2007 Mar; 6(3):413-24. Zavzavadjian JR, Couture S, Park WS, Whalen J, Lyon S, Lee G, Fung E, Mi Q, Liu J, Wall E, Santat L, Dhandapani K, Kivork C, Driver A, Zhu X, Chang MS, Randhawa B, Gehrig E, Bryan H, Verghese M, Maer A, Saunders B, Ning Y, Subramaniam S, Meyer T, Simon MI, O'Rourke N, Chandy G, Fraser ID. PMID: 17192258; PMCID: PMC3579516.
      View in: PubMed   Mentions: 11     Fields:    Translation:AnimalsCells
    194. LMSD: LIPID MAPS structure database. Nucleic Acids Res. 2007 Jan; 35(Database issue):D527-32. Sud M, Fahy E, Cotter D, Brown A, Dennis EA, Glass CK, Merrill AH, Murphy RC, Raetz CR, Russell DW, Subramaniam S. PMID: 17098933; PMCID: PMC1669719.
      View in: PubMed   Mentions: 617     Fields:    Translation:HumansCells
    195. Detecting conserved interaction patterns in biological networks. J Comput Biol. 2006 Sep; 13(7):1299-322. Koyutürk M, Kim Y, Subramaniam S, Szpankowski W, Grama A. PMID: 17037960.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansAnimalsCells
    196. Components of the antigen processing and presentation pathway revealed by gene expression microarray analysis following B cell antigen receptor (BCR) stimulation. BMC Bioinformatics. 2006 May 02; 7:237. Lee JA, Sinkovits RS, Mock D, Rab EL, Cai J, Yang P, Saunders B, Hsueh RC, Choi S, Subramaniam S, Scheuermann RH, Alliance for Cellular Signaling. PMID: 16670020; PMCID: PMC1479375.
      View in: PubMed   Mentions: 22     Fields:    Translation:HumansCells
    197. Pairwise alignment of protein interaction networks. J Comput Biol. 2006 Mar; 13(2):182-99. Koyutürk M, Kim Y, Topkara U, Subramaniam S, Szpankowski W, Grama A. PMID: 16597234.
      View in: PubMed   Mentions: 60     Fields:    Translation:AnimalsCells
    198. Locally defined protein phylogenetic profiles reveal previously missed protein interactions and functional relationships. Proteins. 2006 Mar 01; 62(4):1115-24. Kim Y, Subramaniam S. PMID: 16385560.
      View in: PubMed   Mentions: 24     Fields:    Translation:Cells
    199. Identification of signaling components required for the prediction of cytokine release in RAW 264.7 macrophages. Genome Biol. 2006; 7(2):R11. Pradervand S, Maurya MR, Subramaniam S. PMID: 16507166; PMCID: PMC1431720.
      View in: PubMed   Mentions: 23     Fields:    Translation:AnimalsCells
    200. Kdo2-Lipid A of Escherichia coli, a defined endotoxin that activates macrophages via TLR-4. J Lipid Res. 2006 May; 47(5):1097-111. Raetz CR, Garrett TA, Reynolds CM, Shaw WA, Moore JD, Smith DC, Ribeiro AA, Murphy RC, Ulevitch RJ, Fearns C, Reichart D, Glass CK, Benner C, Subramaniam S, Harkewicz R, Bowers-Gentry RC, Buczynski MW, Cooper JA, Deems RA, Dennis EA. PMID: 16479018.
      View in: PubMed   Mentions: 146     Fields:    Translation:AnimalsCells
    201. LMPD: LIPID MAPS proteome database. Nucleic Acids Res. 2006 Jan 01; 34(Database issue):D507-10. Cotter D, Maer A, Guda C, Saunders B, Subramaniam S. PMID: 16381922; PMCID: PMC1347484.
      View in: PubMed   Mentions: 45     Fields:    Translation:HumansAnimals
    202. Inferring functional information from domain co-evolution. Bioinformatics. 2006 Jan 01; 22(1):40-9. Kim Y, Koyutürk M, Topkara U, Grama A, Subramaniam S. PMID: 16301205.
      View in: PubMed   Mentions: 12     Fields:    Translation:Cells
    203. Molecular determinants of crosstalk between nuclear receptors and toll-like receptors. Cell. 2005 Sep 09; 122(5):707-21. Ogawa S, Lozach J, Benner C, Pascual G, Tangirala RK, Westin S, Hoffmann A, Subramaniam S, David M, Rosenfeld MG, Glass CK. PMID: 16143103; PMCID: PMC1430687.
      View in: PubMed   Mentions: 274     Fields:    Translation:AnimalsCells
    204. pTARGET [corrected] a new method for predicting protein subcellular localization in eukaryotes. Bioinformatics. 2005 Nov 01; 21(21):3963-9. Guda C, Subramaniam S. PMID: 16144808.
      View in: PubMed   Mentions: 38     Fields:    Translation:HumansAnimalsCells
    205. VAMPIRE microarray suite: a web-based platform for the interpretation of gene expression data. Nucleic Acids Res. 2005 Jul 01; 33(Web Server issue):W627-32. Hsiao A, Ideker T, Olefsky JM, Subramaniam S. PMID: 15980550; PMCID: PMC1160204.
      View in: PubMed   Mentions: 61     Fields:    
    206. A comprehensive classification system for lipids. J Lipid Res. 2005 May; 46(5):839-61. Fahy E, Subramaniam S, Brown HA, Glass CK, Merrill AH, Murphy RC, Raetz CR, Russell DW, Seyama Y, Shaw W, Shimizu T, Spener F, van Meer G, VanNieuwenhze MS, White SH, Witztum JL, Dennis EA. PMID: 15722563.
      View in: PubMed   Mentions: 622     Fields:    Translation:Cells
    207. Reconstruction of cellular signalling networks and analysis of their properties. Nat Rev Mol Cell Biol. 2005 Feb; 6(2):99-111. Papin JA, Hunter T, Palsson BO, Subramaniam S. PMID: 15654321.
      View in: PubMed   Mentions: 169     Fields:    Translation:HumansAnimalsCells
    208. Analysis of the major patterns of B cell gene expression changes in response to short-term stimulation with 33 single ligands. J Immunol. 2004 Dec 15; 173(12):7141-9. Zhu X, Hart R, Chang MS, Kim JW, Lee SY, Cao YA, Mock D, Ke E, Saunders B, Alexander A, Grossoehme J, Lin KM, Yan Z, Hsueh R, Lee J, Scheuermann RH, Fruman DA, Seaman W, Subramaniam S, Sternweis P, Simon MI, Choi S. PMID: 15585835.
      View in: PubMed   Mentions: 35     Fields:    Translation:AnimalsCells
    209. Computational modeling reveals how interplay between components of a GTPase-cycle module regulates signal transduction. Proc Natl Acad Sci U S A. 2004 Nov 09; 101(45):15899-904. Bornheimer SJ, Maurya MR, Farquhar MG, Subramaniam S. PMID: 15520372; PMCID: PMC524695.
      View in: PubMed   Mentions: 20     Fields:    Translation:Cells
    210. Conserved sequence and structure association motifs in antibody-protein and antibody-hapten complexes. Protein Eng Des Sel. 2004 May; 17(5):463-72. Livesay DR, Subramaniam S. PMID: 15310840.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansAnimalsCells
    211. MITOPRED: a web server for the prediction of mitochondrial proteins. Nucleic Acids Res. 2004 Jul 01; 32(Web Server issue):W372-4. Guda C, Guda P, Fahy E, Subramaniam S. PMID: 15215413; PMCID: PMC441512.
      View in: PubMed   Mentions: 36     Fields:    Translation:HumansAnimalsCells
    212. SledgeHMMER: a web server for batch searching the Pfam database. Nucleic Acids Res. 2004 Jul 01; 32(Web Server issue):W542-4. Chukkapalli G, Guda C, Subramaniam S. PMID: 15215445; PMCID: PMC441533.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    213. Decoding cilia function: defining specialized genes required for compartmentalized cilia biogenesis. Cell. 2004 May 14; 117(4):527-39. Avidor-Reiss T, Maer AM, Koundakjian E, Polyanovsky A, Keil T, Subramaniam S, Zuker CS. PMID: 15137945.
      View in: PubMed   Mentions: 271     Fields:    Translation:HumansAnimalsCells
    214. MITOPRED: a genome-scale method for prediction of nucleus-encoded mitochondrial proteins. Bioinformatics. 2004 Jul 22; 20(11):1785-94. Guda C, Fahy E, Subramaniam S. PMID: 15037509.
      View in: PubMed   Mentions: 48     Fields:    Translation:HumansAnimalsCells
    215. Bioinformatics and cellular signaling. Curr Opin Biotechnol. 2004 Feb; 15(1):78-81. Papin J, Subramaniam S. PMID: 15102471.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    216. MitoProteome: mitochondrial protein sequence database and annotation system. Nucleic Acids Res. 2004 Jan 01; 32(Database issue):D463-7. Cotter D, Guda P, Fahy E, Subramaniam S. PMID: 14681458; PMCID: PMC308782.
      View in: PubMed   Mentions: 71     Fields:    Translation:HumansCells
    217. Bioinformatics and computational systems biology: at the cross roads of biology, engineering and computation. Conf Proc IEEE Eng Med Biol Soc. 2004; 2004:5458. Subramaniam S. PMID: 17271584.
      View in: PubMed   Mentions:    Fields:    
    218. Sequence-function analysis of the K+-selective family of ion channels using a comprehensive alignment and the KcsA channel structure. Biophys J. 2003 May; 84(5):2929-42. Shealy RT, Murphy AD, Ramarathnam R, Jakobsson E, Subramaniam S. PMID: 12719225; PMCID: PMC1302856.
      View in: PubMed   Mentions: 62     Fields:    Translation:Cells
    219. Protein fragment clustering and canonical local shapes. Proteins. 2003 Mar 01; 50(4):580-8. Hunter CG, Subramaniam S. PMID: 12577264.
      View in: PubMed   Mentions: 16     Fields:    Translation:AnimalsCells
    220. Protein local structure prediction from sequence. Proteins. 2003 Mar 01; 50(4):572-9. Hunter CG, Subramaniam S. PMID: 12577263.
      View in: PubMed   Mentions: 8     Fields:    Translation:AnimalsCells
    221. Overview of the Alliance for Cellular Signaling. Nature. 2002 Dec 12; 420(6916):703-6. Gilman AG, Simon MI, Bourne HR, Harris BA, Long R, Ross EM, Stull JT, Taussig R, Bourne HR, Arkin AP, Cobb MH, Cyster JG, Devreotes PN, Ferrell JE, Fruman D, Gold M, Weiss A, Stull JT, Berridge MJ, Cantley LC, Catterall WA, Coughlin SR, Olson EN, Smith TF, Brugge JS, Botstein D, Dixon JE, Hunter T, Lefkowitz RJ, Pawson AJ, Sternberg PW, Varmus H, Subramaniam S, Sinkovits RS, Li J, Mock D, Ning Y, Saunders B, Sternweis PC, Hilgemann D, Scheuermann RH, DeCamp D, Hsueh R, Lin KM, Ni Y, Seaman WE, Simpson PC, O'Connell TD, Roach T, Simon MI, Choi S, Eversole-Cire P, Fraser I, Mumby MC, Zhao Y, Brekken D, Shu H, Meyer T, Chandy G, Heo WD, Liou J, O'Rourke N, Verghese M, Mumby SM, Han H, Brown HA, Forrester JS, Ivanova P, Milne SB, Casey PJ, Harden TK, Arkin AP, Doyle J, Gray ML, Meyer T, Michnick S, Schmidt MA, Toner M, Tsien RY, Natarajan M, Ranganathan R, Sambrano GR, Participating investigators and scientists of the Alliance for Cellular Signaling. PMID: 12478301.
      View in: PubMed   Mentions: 38     Fields:    Translation:HumansCells
    222. The Molecule Pages database. Nature. 2002 Dec 12; 420(6916):716-7. Li J, Ning Y, Hedley W, Saunders B, Chen Y, Tindill N, Hannay T, Subramaniam S. PMID: 12478304.
      View in: PubMed   Mentions: 29     Fields:    Translation:Cells
    223. Natural coordinate representation for the protein backbone structure. Proteins. 2002 Nov 01; 49(2):206-15. Hunter CG, Subramaniam S. PMID: 12211001.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    224. Bioinformatics of cellular signalling. Novartis Found Symp. 2002; 247:104-16; discussion 116-8, 119-28, 244-52. Subramaniam S, Bioinformatics Core Laboratory. PMID: 12539952.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    225. Domain architecture of a Caenorhabditis elegans AKAP suggests a novel AKAP function. FEBS Lett. 2000 Dec 08; 486(2):107-11. Herrgård S, Jambeck P, Taylor SS, Subramaniam S. PMID: 11113448.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    226. A novel microarray strategy for detecting genes and pathways in microbes with unsequenced genomes. Microb Comp Genomics. 2000; 5(3):153-61. Ramarathnam R, Subramaniam S. PMID: 11252352.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
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