Cited by 133

A Critical Evaluation of microRNA Biomarkers in Non-Neoplastic Disease

Haider, Baqer A., Baras, Alexander S., McCall, Matthew N., Hertel, Joshua A., Cornish, Toby C., Halushka, Marc K.·2014·PLoS ONE

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1371/journal.pone.0089565

Cites

4 of 4 references verified0 citation errors · 0 not checkable

Statistics

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

  • The data matched ground truths about specific microRNA expression in certain cell types, including miR-192 in epithelial cells, miR-126 in endothelial cells and platelets, and miR-9 in brain.

    “Our data matched certain “ground truths” about specific microRNA expression in certain cell types, including miR-192 in epithelial cells, miR-126 in endothelial cells and platelets, and miR-9 in brain (McCall et al. 2011a; Haider et al. 2014; Kent et al. 2014).”

    From Toward the human cellular microRNAome (2017) · cites this paper as Haider et al. 2014

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Cites

Flagged first, then by citations

Research works printed but not linked: 46

  1. [1]Bartel DP (2004) MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116: 281– 297. 14744438
  2. [2]Griffiths-Jones S (2004) The microRNA Registry. Nucleic Acids Res 32: D109– 111. 14681370 PMC308757
  3. [3]McCall MN, Kent OA, Yu J, Fox-Talbot K, Zaiman AL, et al (2011) MicroRNA profiling of diverse endothelial cell types. BMC Med Genomics 4: 78. 22047531 PMC3223144
  4. [4]Zhan M, Miller CP, Papayannopoulou T, Stamatoyannopoulos G, Song CZ (2007) MicroRNA expression dynamics during murine and human erythroid differentiation. Exp Hematol 35: 1015– 1025. 17588470 PMC1955220
  5. [5]Jopling CL, Yi M, Lancaster AM, Lemon SM, Sarnow P (2005) Modulation of hepatitis C virus RNA abundance by a liver-specific MicroRNA. Science 309: 1577– 1581. 16141076
  6. [6]Chen JF, Mandel EM, Thomson JM, Wu Q, Callis TE, et al (2006) The role of microRNA-1 and microRNA-133 in skeletal muscle proliferation and differentiation. Nat Genet 38: 228– 233. 16380711 PMC2538576
  7. [7]Das S, Ferlito M, Kent OA, Fox Talbot K, Wang R, et al (2012) Nuclear miRNA Regulates the Mitochondrial Genome in the Heart. Circ Res. 110: 1596– 1603. 22518031 PMC3390752
  8. [8]Valadi H, Ekstrom K, Bossios A, Sjostrand M, Lee JJ, et al (2007) Exosome-mediated transfer of mRNAs and microRNAs is a novel mechanism of genetic exchange between cells. Nat Cell Biol 9: 654– 659. 17486113
  9. [9]Hunter MP, Ismail N, Zhang X, Aguda BD, Lee EJ, et al (2008) Detection of microRNA expression in human peripheral blood microvesicles. PLoS One 3: e3694. 19002258 PMC2577891
  10. [10]Mitchell PS, Parkin RK, Kroh EM, Fritz BR, Wyman SK, et al (2008) Circulating microRNAs as stable blood-based markers for cancer detection. Proc Natl Acad Sci U S A 105: 10513– 10518. 18663219 PMC2492472
  11. [11]Gilad S, Meiri E, Yogev Y, Benjamin S, Lebanony D, et al (2008) Serum microRNAs are promising novel biomarkers. PLoS One 3: e3148. 18773077 PMC2519789
  12. [12]Biomarkers Definitions Working G (2001) Biomarkers and surrogate endpoints: preferred definitions and conceptual framework. Clin Pharmacol Ther 69: 89– 95. 11240971
  13. [14]Lu M, Zhang Q, Deng M, Miao J, Guo Y, et al (2008) An analysis of human microRNA and disease associations. PLoS One 3: e3420. 18923704 PMC2559869
  14. [15]Wu Z, Aryee MJ (2010) Subset quantile normalization using negative control features. J Comput Biol 17: 1385– 1395. 20976876 PMC3122888
  15. [16]McCall MN, Bolstad BM, Irizarry RA (2010) Frozen robust multiarray analysis (fRMA). Biostatistics 11: 242– 253. 20097884 PMC2830579
  16. [17]Johnson WE, Li C, Rabinovic A (2007) Adjusting batch effects in microarray expression data using empirical Bayes methods. Biostatistics 8: 118– 127. 16632515
  17. [18]Munding JB, Adai AT, Maghnouj A, Urbanik A, Zollner H, et al (2011) Global microRNA expression profiling of microdissected tissues identifies miR-135b as a novel biomarker for pancreatic ductal adenocarcinoma. Int J Cancer 131: E86– 96. 21953293
  18. [19]Kotlabova K, Doucha J, Hromadnikova I (2011) Placental-specific microRNA in maternal circulation–identification of appropriate pregnancy-associated microRNAs with diagnostic potential. J Reprod Immunol 89: 185– 191. 21513988
  19. [20]Wang G, Tam LS, Li EK, Kwan BC, Chow KM, et al (2010) Serum and urinary cell-free MiR-146a and MiR-155 in patients with systemic lupus erythematosus. J Rheumatol 37: 2516– 2522. 20952466
  20. [21]Kuwabara Y, Ono K, Horie T, Nishi H, Nagao K, et al (2011) Increased microRNA-1 and microRNA-133a levels in serum of patients with cardiovascular disease indicate myocardial damage. Circ Cardiovasc Genet 4: 446– 454. 21642241
  21. [24]van Rooij E, Quiat D, Johnson BA, Sutherland LB, Qi X, et al (2009) A family of microRNAs encoded by myosin genes governs myosin expression and muscle performance. Dev Cell 17: 662– 673. 19922871 PMC2796371
  22. [25]Wu ZS, Wang CQ, Xiang R, Liu X, Ye S, et al (2012) Loss of miR-133a expression associated with poor survival of breast cancer and restoration of miR-133a expression inhibited breast cancer cell growth and invasion. BMC Cancer 12: 51. 22292984 PMC3297527
  23. [26]Zampetaki A, Kiechl S, Drozdov I, Willeit P, Mayr U, et al (2010) Plasma microRNA profiling reveals loss of endothelial miR-126 and other microRNAs in type 2 diabetes. Circ Res 107: 810– 817. 20651284
  24. [27]Bonifacio LN, Jarstfer MB (2010) MiRNA profile associated with replicative senescence, extended cell culture, and ectopic telomerase expression in human foreskin fibroblasts. PLoS One 5: e12519. 20824140 PMC2931704
  25. [28]Boon RA, Seeger T, Heydt S, Fischer A, Hergenreider E, et al (2011) MicroRNA-29 in aortic dilation: implications for aneurysm formation. Circ Res 109: 1115– 1119. 21903938
  26. [30]Grueter CE, van Rooij E, Johnson BA, DeLeon SM, Sutherland LB, et al (2012) A cardiac microRNA governs systemic energy homeostasis by regulation of MED13. Cell 149: 671– 683. 22541436 PMC3340581
  27. [31]Mendell JT, Olson EN (2012) MicroRNAs in stress signaling and human disease. Cell 148: 1172– 1187. 22424228 PMC3308137
  28. [32]Ji R, Cheng Y, Yue J, Yang J, Liu X, et al (2007) MicroRNA expression signature and antisense-mediated depletion reveal an essential role of MicroRNA in vascular neointimal lesion formation. Circ Res 100: 1579– 1588. 17478730
  29. [33]Sayed D, Hong C, Chen IY, Lypowy J, Abdellatif M (2007) MicroRNAs play an essential role in the development of cardiac hypertrophy. Circ Res 100: 416– 424. 17234972
  30. [34]Liu G, Friggeri A, Yang Y, Milosevic J, Ding Q, et al (2010) miR-21 mediates fibrogenic activation of pulmonary fibroblasts and lung fibrosis. J Exp Med 207: 1589– 1597. 20643828 PMC2916139
  31. [35]Zarjou A, Yang S, Abraham E, Agarwal A, Liu G (2011) Identification of a microRNA signature in renal fibrosis: role of miR-21. Am J Physiol Renal Physiol 301: F793– 801. 21775484 PMC3191802
  32. [36]Haider KH, Idris NM, Kim HW, Ahmed RP, Shujia J, et al (2010) MicroRNA-21 is a key determinant in IL-11/Stat3 anti-apoptotic signalling pathway in preconditioning of skeletal myoblasts. Cardiovasc Res 88: 168– 178. 20498256 PMC2936124
  33. [37]Jazbutyte V, Thum T (2010) MicroRNA-21: from cancer to cardiovascular disease. Curr Drug Targets 11: 926– 935. 20415649
  34. [38]Fish JE, Santoro MM, Morton SU, Yu S, Yeh RF, et al (2008) miR-126 regulates angiogenic signaling and vascular integrity. Dev Cell 15: 272– 284. 18694566 PMC2604134
  35. [39]Wang S, Aurora AB, Johnson BA, Qi X, McAnally J, et al (2008) The endothelial-specific microRNA miR-126 governs vascular integrity and angiogenesis. Dev Cell 15: 261– 271. 18694565 PMC2685763
  36. [40]Harris TA, Yamakuchi M, Ferlito M, Mendell JT, Lowenstein CJ (2008) MicroRNA-126 regulates endothelial expression of vascular cell adhesion molecule 1. Proc Natl Acad Sci U S A 105: 1516– 1521. 18227515 PMC2234176
  37. [41]Kirschner MB, Kao SC, Edelman JJ, Armstrong NJ, Vallely MP, et al (2011) Haemolysis during sample preparation alters microRNA content of plasma. PLoS One 6: e24145. 21909417 PMC3164711
  38. [42]Cheng HH, Yi HS, Kim Y, Kroh EM, Chien JW, et al (2013) Plasma processing conditions substantially influence circulating microRNA biomarker levels. PLoS One 8: e64795. 23762257 PMC3676411
  39. [43]Wang K, Yuan Y, Cho JH, McClarty S, Baxter D, et al (2012) Comparing the MicroRNA spectrum between serum and plasma. PLoS One 7: e41561. 22859996 PMC3409228
  40. [44]Huang Z, Huang D, Ni S, Peng Z, Sheng W, et al (2010) Plasma microRNAs are promising novel biomarkers for early detection of colorectal cancer. Int J Cancer 127: 118– 126. 19876917
  41. [45]Shen J, Todd NW, Zhang H, Yu L, Lingxiao X, et al (2011) Plasma microRNAs as potential biomarkers for non-small-cell lung cancer. Lab Invest 91: 579– 587. 21116241 PMC3130190
  42. [47]McDonald JS, Milosevic D, Reddi HV, Grebe SK, Algeciras-Schimnich A (2011) Analysis of circulating microRNA: preanalytical and analytical challenges. Clin Chem 57: 833– 840. 21487102
  43. [48]Zheng HW, Wang YL, Lin JX, Li N, Zhao XQ, et al (2012) Circulating MicroRNAs as potential risk biomarkers for hematoma enlargement after intracerebral hemorrhage. CNS Neurosci Ther 18: 1003– 1011. 23190933 PMC6493543
  44. [49]Pritchard CC, Cheng HH, Tewari M (2012) MicroRNA profiling: approaches and considerations. Nat Rev Genet 13: 358– 369. 22510765 PMC4517822
  45. [50]Hua YJ, Tu K, Tang ZY, Li YX, Xiao HS (2008) Comparison of normalization methods with microRNA microarray. Genomics 92: 122– 128. 18514480
  46. [51]Witwer KW (2013) Data submission and quality in microarray-based microRNA profiling. Clin Chem 59: 392– 400. 23358751 PMC4037921

Cited by

Sorted by citations

Authors
Haider, B. A., Baras, A. S., McCall, M. N., Hertel, J. A., Cornish, T. C., & Halushka, M. K.
Venue
PLoS ONE
Published
2014-02-26
Volume
9
Issue
2
Pages
e89565
ISSN
1932-6203
Cited by
133
References
4
Language
en

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review