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Items: 43

1.

Screening and diagnosis of oral cancer: a critical quality appraisal of clinical guidelines.

Madera M, Franco J, Solà I, Bonfill X, Alonso-Coello P.

Clin Oral Investig. 2019 May;23(5):2215-2226. doi: 10.1007/s00784-018-2668-7. Epub 2018 Oct 3.

PMID:
30284100
2.

Strong succession in arbuscular mycorrhizal fungal communities.

Gao C, Montoya L, Xu L, Madera M, Hollingsworth J, Purdom E, Hutmacher RB, Dahlberg JA, Coleman-Derr D, Lemaux PG, Taylor JW.

ISME J. 2019 Jan;13(1):214-226. doi: 10.1038/s41396-018-0264-0. Epub 2018 Aug 31.

3.

Drought delays development of the sorghum root microbiome and enriches for monoderm bacteria.

Xu L, Naylor D, Dong Z, Simmons T, Pierroz G, Hixson KK, Kim YM, Zink EM, Engbrecht KM, Wang Y, Gao C, DeGraaf S, Madera MA, Sievert JA, Hollingsworth J, Birdseye D, Scheller HV, Hutmacher R, Dahlberg J, Jansson C, Taylor JW, Lemaux PG, Coleman-Derr D.

Proc Natl Acad Sci U S A. 2018 May 1;115(18):E4284-E4293. doi: 10.1073/pnas.1717308115. Epub 2018 Apr 16. Erratum in: Proc Natl Acad Sci U S A. 2018 May 14;:.

4.

The role of physical therapy and rehabilitation after lumbar fusion surgery for degenerative disease: a systematic review.

Madera M, Brady J, Deily S, McGinty T, Moroz L, Singh D, Tipton G, Truumees E;  for the Seton Spine Rehabilitation Study Group.

J Neurosurg Spine. 2017 Jun;26(6):694-704. doi: 10.3171/2016.10.SPINE16627. Epub 2017 Mar 10. Review.

PMID:
28291412
5.

Mentoring Hispanic undergraduate and graduate research assistants: building research capacity in nursing.

Aponte J, Figueroa BN, Madera M, Campos-Dominguez G, Panora E, Jaramillo D.

J Nurs Educ. 2015 Jun;54(6):328-34. doi: 10.3928/01484834-20150515-03.

PMID:
26057426
6.

Surgical management of metastatic spinal tumors.

Laufer I, Sciubba DM, Madera M, Bydon A, Witham TJ, Gokaslan ZL, Wolinsky JP.

Cancer Control. 2012 Apr;19(2):122-8. Review.

PMID:
22487974
7.

The importance of learning collaborative stage coding.

Stengel J, Madera M.

J Registry Manag. 2011 Autumn;38(3):171-2. No abstract available.

PMID:
22371995
8.

InterPro in 2011: new developments in the family and domain prediction database.

Hunter S, Jones P, Mitchell A, Apweiler R, Attwood TK, Bateman A, Bernard T, Binns D, Bork P, Burge S, de Castro E, Coggill P, Corbett M, Das U, Daugherty L, Duquenne L, Finn RD, Fraser M, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, McMenamin C, Mi H, Mutowo-Muellenet P, Mulder N, Natale D, Orengo C, Pesseat S, Punta M, Quinn AF, Rivoire C, Sangrador-Vegas A, Selengut JD, Sigrist CJ, Scheremetjew M, Tate J, Thimmajanarthanan M, Thomas PD, Wu CH, Yeats C, Yong SY.

Nucleic Acids Res. 2012 Jan;40(Database issue):D306-12. doi: 10.1093/nar/gkr948. Epub 2011 Nov 16.

9.

Glycomic Alterations in the Highly-abundant and Lesser-abundant Blood Serum Protein Fractions for Patients Diagnosed with Hepatocellular Carcinoma.

Kang P, Madera M, Alley WR Jr, Goldman R, Mechref Y, Novotny MV.

Int J Mass Spectrom. 2011 Aug 15;305(2-3):185-198.

10.

The evolution and structure prediction of coiled coils across all genomes.

Rackham OJ, Madera M, Armstrong CT, Vincent TL, Woolfson DN, Gough J.

J Mol Biol. 2010 Oct 29;403(3):480-93. doi: 10.1016/j.jmb.2010.08.032. Epub 2010 Sep 9.

PMID:
20813113
11.

Effects of lead and mercury on the blood proteome of children.

Birdsall RE, Kiley MP, Segu ZM, Palmer CD, Madera M, Gump BB, MacKenzie JA, Parsons PJ, Mechref Y, Novotny MV, Bendinskas KG.

J Proteome Res. 2010 Sep 3;9(9):4443-53. doi: 10.1021/pr100204g.

12.

The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models.

Shi L, Campbell G, Jones WD, Campagne F, Wen Z, Walker SJ, Su Z, Chu TM, Goodsaid FM, Pusztai L, Shaughnessy JD Jr, Oberthuer A, Thomas RS, Paules RS, Fielden M, Barlogie B, Chen W, Du P, Fischer M, Furlanello C, Gallas BD, Ge X, Megherbi DB, Symmans WF, Wang MD, Zhang J, Bitter H, Brors B, Bushel PR, Bylesjo M, Chen M, Cheng J, Cheng J, Chou J, Davison TS, Delorenzi M, Deng Y, Devanarayan V, Dix DJ, Dopazo J, Dorff KC, Elloumi F, Fan J, Fan S, Fan X, Fang H, Gonzaludo N, Hess KR, Hong H, Huan J, Irizarry RA, Judson R, Juraeva D, Lababidi S, Lambert CG, Li L, Li Y, Li Z, Lin SM, Liu G, Lobenhofer EK, Luo J, Luo W, McCall MN, Nikolsky Y, Pennello GA, Perkins RG, Philip R, Popovici V, Price ND, Qian F, Scherer A, Shi T, Shi W, Sung J, Thierry-Mieg D, Thierry-Mieg J, Thodima V, Trygg J, Vishnuvajjala L, Wang SJ, Wu J, Wu Y, Xie Q, Yousef WA, Zhang L, Zhang X, Zhong S, Zhou Y, Zhu S, Arasappan D, Bao W, Lucas AB, Berthold F, Brennan RJ, Buness A, Catalano JG, Chang C, Chen R, Cheng Y, Cui J, Czika W, Demichelis F, Deng X, Dosymbekov D, Eils R, Feng Y, Fostel J, Fulmer-Smentek S, Fuscoe JC, Gatto L, Ge W, Goldstein DR, Guo L, Halbert DN, Han J, Harris SC, Hatzis C, Herman D, Huang J, Jensen RV, Jiang R, Johnson CD, Jurman G, Kahlert Y, Khuder SA, Kohl M, Li J, Li L, Li M, Li QZ, Li S, Li Z, Liu J, Liu Y, Liu Z, Meng L, Madera M, Martinez-Murillo F, Medina I, Meehan J, Miclaus K, Moffitt RA, Montaner D, Mukherjee P, Mulligan GJ, Neville P, Nikolskaya T, Ning B, Page GP, Parker J, Parry RM, Peng X, Peterson RL, Phan JH, Quanz B, Ren Y, Riccadonna S, Roter AH, Samuelson FW, Schumacher MM, Shambaugh JD, Shi Q, Shippy R, Si S, Smalter A, Sotiriou C, Soukup M, Staedtler F, Steiner G, Stokes TH, Sun Q, Tan PY, Tang R, Tezak Z, Thorn B, Tsyganova M, Turpaz Y, Vega SC, Visintainer R, von Frese J, Wang C, Wang E, Wang J, Wang W, Westermann F, Willey JC, Woods M, Wu S, Xiao N, Xu J, Xu L, Yang L, Zeng X, Zhang J, Zhang L, Zhang M, Zhao C, Puri RK, Scherf U, Tong W, Wolfinger RD; MAQC Consortium.

Nat Biotechnol. 2010 Aug;28(8):827-38. doi: 10.1038/nbt.1665. Epub 2010 Jul 30.

13.
14.

A quantitative investigation of fucosylated serum glycoproteins with application to esophageal adenocarcinoma.

Mann B, Madera M, Klouckova I, Mechref Y, Dobrolecki LE, Hickey RJ, Hammoud ZT, Novotny MV.

Electrophoresis. 2010 Jun;31(11):1833-41. doi: 10.1002/elps.201000046.

15.

Improving protein secondary structure prediction using a simple k-mer model.

Madera M, Calmus R, Thiltgen G, Karplus K, Gough J.

Bioinformatics. 2010 Mar 1;26(5):596-602. doi: 10.1093/bioinformatics/btq020. Epub 2010 Feb 3.

16.

Assigning glycosylation sites and microheterogeneities in glycoproteins by liquid chromatography/tandem mass spectrometry.

Mechref Y, Madera M, Novotny MV.

Methods Mol Biol. 2009;492:161-80. doi: 10.1007/978-1-59745-493-3_9.

PMID:
19241032
17.

SUPERFAMILY--sophisticated comparative genomics, data mining, visualization and phylogeny.

Wilson D, Pethica R, Zhou Y, Talbot C, Vogel C, Madera M, Chothia C, Gough J.

Nucleic Acids Res. 2009 Jan;37(Database issue):D380-6. doi: 10.1093/nar/gkn762. Epub 2008 Nov 26.

18.

ProteinQuant Suite: a bundle of automated software tools for label-free quantitative proteomics.

Mann B, Madera M, Sheng Q, Tang H, Mechref Y, Novotny MV.

Rapid Commun Mass Spectrom. 2008 Dec;22(23):3823-34. doi: 10.1002/rcm.3781.

PMID:
18985620
19.

InterPro: the integrative protein signature database.

Hunter S, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Das U, Daugherty L, Duquenne L, Finn RD, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Laugraud A, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Mulder N, Natale D, Orengo C, Quinn AF, Selengut JD, Sigrist CJ, Thimma M, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C.

Nucleic Acids Res. 2009 Jan;37(Database issue):D211-5. doi: 10.1093/nar/gkn785. Epub 2008 Oct 21.

20.

Profile Comparer: a program for scoring and aligning profile hidden Markov models.

Madera M.

Bioinformatics. 2008 Nov 15;24(22):2630-1. doi: 10.1093/bioinformatics/btn504. Epub 2008 Oct 9.

21.

Efficacy of glycoprotein enrichment by microscale lectin affinity chromatography.

Madera M, Mann B, Mechref Y, Novotny MV.

J Sep Sci. 2008 Aug;31(14):2722-32. doi: 10.1002/jssc.200800094.

22.

Management of severe cervical kyphosis in a patient with Larsen syndrome. Case report.

Madera M, Crawford A, Mangano FT.

J Neurosurg Pediatr. 2008 Apr;1(4):320-4. doi: 10.3171/PED/2008/1/4/320. Review.

PMID:
18377309
23.

Glycoprotein enrichment through lectin affinity techniques.

Mechref Y, Madera M, Novotny MV.

Methods Mol Biol. 2008;424:373-96. doi: 10.1007/978-1-60327-064-9_29. Review.

PMID:
18369876
24.

New developments in the InterPro database.

Mulder NJ, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Buillard V, Cerutti L, Copley R, Courcelle E, Das U, Daugherty L, Dibley M, Finn R, Fleischmann W, Gough J, Haft D, Hulo N, Hunter S, Kahn D, Kanapin A, Kejariwal A, Labarga A, Langendijk-Genevaux PS, Lonsdale D, Lopez R, Letunic I, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Nikolskaya AN, Orchard S, Orengo C, Petryszak R, Selengut JD, Sigrist CJ, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C.

Nucleic Acids Res. 2007 Jan;35(Database issue):D224-8.

25.

Discrimination of non-protein-coding transcripts from protein-coding mRNA.

Frith MC, Bailey TL, Kasukawa T, Mignone F, Kummerfeld SK, Madera M, Sunkara S, Furuno M, Bult CJ, Quackenbush J, Kai C, Kawai J, Carninci P, Hayashizaki Y, Pesole G, Mattick JS.

RNA Biol. 2006 Jan-Mar;3(1):40-8. Epub 2006 Apr 3.

PMID:
17114936
26.

The SUPERFAMILY database in 2007: families and functions.

Wilson D, Madera M, Vogel C, Chothia C, Gough J.

Nucleic Acids Res. 2007 Jan;35(Database issue):D308-13. Epub 2006 Nov 10.

27.

High-sensitivity profiling of glycoproteins from human blood serum through multiple-lectin affinity chromatography and liquid chromatography/tandem mass spectrometry.

Madera M, Mechref Y, Klouckova I, Novotny MV.

J Chromatogr B Analyt Technol Biomed Life Sci. 2007 Jan 1;845(1):121-37. Epub 2006 Sep 20.

PMID:
16987717
29.

Affinity liquid chromatography and capillary electrophoresis of seminal plasma proteins.

Varilová T, Seménková H, Horák P, Madera M, Pacáková V, Tichá M, Stulík K.

J Sep Sci. 2006 May;29(8):1110-5.

PMID:
16830725
30.

A database of bacterial lipoproteins (DOLOP) with functional assignments to predicted lipoproteins.

Babu MM, Priya ML, Selvan AT, Madera M, Gough J, Aravind L, Sankaran K.

J Bacteriol. 2006 Apr;188(8):2761-73.

31.

The transcriptional landscape of the mammalian genome.

Carninci P, Kasukawa T, Katayama S, Gough J, Frith MC, Maeda N, Oyama R, Ravasi T, Lenhard B, Wells C, Kodzius R, Shimokawa K, Bajic VB, Brenner SE, Batalov S, Forrest AR, Zavolan M, Davis MJ, Wilming LG, Aidinis V, Allen JE, Ambesi-Impiombato A, Apweiler R, Aturaliya RN, Bailey TL, Bansal M, Baxter L, Beisel KW, Bersano T, Bono H, Chalk AM, Chiu KP, Choudhary V, Christoffels A, Clutterbuck DR, Crowe ML, Dalla E, Dalrymple BP, de Bono B, Della Gatta G, di Bernardo D, Down T, Engstrom P, Fagiolini M, Faulkner G, Fletcher CF, Fukushima T, Furuno M, Futaki S, Gariboldi M, Georgii-Hemming P, Gingeras TR, Gojobori T, Green RE, Gustincich S, Harbers M, Hayashi Y, Hensch TK, Hirokawa N, Hill D, Huminiecki L, Iacono M, Ikeo K, Iwama A, Ishikawa T, Jakt M, Kanapin A, Katoh M, Kawasawa Y, Kelso J, Kitamura H, Kitano H, Kollias G, Krishnan SP, Kruger A, Kummerfeld SK, Kurochkin IV, Lareau LF, Lazarevic D, Lipovich L, Liu J, Liuni S, McWilliam S, Madan Babu M, Madera M, Marchionni L, Matsuda H, Matsuzawa S, Miki H, Mignone F, Miyake S, Morris K, Mottagui-Tabar S, Mulder N, Nakano N, Nakauchi H, Ng P, Nilsson R, Nishiguchi S, Nishikawa S, Nori F, Ohara O, Okazaki Y, Orlando V, Pang KC, Pavan WJ, Pavesi G, Pesole G, Petrovsky N, Piazza S, Reed J, Reid JF, Ring BZ, Ringwald M, Rost B, Ruan Y, Salzberg SL, Sandelin A, Schneider C, Schönbach C, Sekiguchi K, Semple CA, Seno S, Sessa L, Sheng Y, Shibata Y, Shimada H, Shimada K, Silva D, Sinclair B, Sperling S, Stupka E, Sugiura K, Sultana R, Takenaka Y, Taki K, Tammoja K, Tan SL, Tang S, Taylor MS, Tegner J, Teichmann SA, Ueda HR, van Nimwegen E, Verardo R, Wei CL, Yagi K, Yamanishi H, Zabarovsky E, Zhu S, Zimmer A, Hide W, Bult C, Grimmond SM, Teasdale RD, Liu ET, Brusic V, Quackenbush J, Wahlestedt C, Mattick JS, Hume DA, Kai C, Sasaki D, Tomaru Y, Fukuda S, Kanamori-Katayama M, Suzuki M, Aoki J, Arakawa T, Iida J, Imamura K, Itoh M, Kato T, Kawaji H, Kawagashira N, Kawashima T, Kojima M, Kondo S, Konno H, Nakano K, Ninomiya N, Nishio T, Okada M, Plessy C, Shibata K, Shiraki T, Suzuki S, Tagami M, Waki K, Watahiki A, Okamura-Oho Y, Suzuki H, Kawai J, Hayashizaki Y; FANTOM Consortium; RIKEN Genome Exploration Research Group and Genome Science Group (Genome Network Project Core Group).

Science. 2005 Sep 2;309(5740):1559-63. Erratum in: Science. 2006 Mar 24;311(5768):1713.

32.
33.

The genome of the social amoeba Dictyostelium discoideum.

Eichinger L, Pachebat JA, Glöckner G, Rajandream MA, Sucgang R, Berriman M, Song J, Olsen R, Szafranski K, Xu Q, Tunggal B, Kummerfeld S, Madera M, Konfortov BA, Rivero F, Bankier AT, Lehmann R, Hamlin N, Davies R, Gaudet P, Fey P, Pilcher K, Chen G, Saunders D, Sodergren E, Davis P, Kerhornou A, Nie X, Hall N, Anjard C, Hemphill L, Bason N, Farbrother P, Desany B, Just E, Morio T, Rost R, Churcher C, Cooper J, Haydock S, van Driessche N, Cronin A, Goodhead I, Muzny D, Mourier T, Pain A, Lu M, Harper D, Lindsay R, Hauser H, James K, Quiles M, Madan Babu M, Saito T, Buchrieser C, Wardroper A, Felder M, Thangavelu M, Johnson D, Knights A, Loulseged H, Mungall K, Oliver K, Price C, Quail MA, Urushihara H, Hernandez J, Rabbinowitsch E, Steffen D, Sanders M, Ma J, Kohara Y, Sharp S, Simmonds M, Spiegler S, Tivey A, Sugano S, White B, Walker D, Woodward J, Winckler T, Tanaka Y, Shaulsky G, Schleicher M, Weinstock G, Rosenthal A, Cox EC, Chisholm RL, Gibbs R, Loomis WF, Platzer M, Kay RR, Williams J, Dear PH, Noegel AA, Barrell B, Kuspa A.

Nature. 2005 May 5;435(7038):43-57.

34.

InterPro, progress and status in 2005.

Mulder NJ, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bradley P, Bork P, Bucher P, Cerutti L, Copley R, Courcelle E, Das U, Durbin R, Fleischmann W, Gough J, Haft D, Harte N, Hulo N, Kahn D, Kanapin A, Krestyaninova M, Lonsdale D, Lopez R, Letunic I, Madera M, Maslen J, McDowall J, Mitchell A, Nikolskaya AN, Orchard S, Pagni M, Ponting CP, Quevillon E, Selengut J, Sigrist CJ, Silventoinen V, Studholme DJ, Vaughan R, Wu CH.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D201-5.

35.

VH gene segments in the mouse and human genomes.

de Bono B, Madera M, Chothia C.

J Mol Biol. 2004 Sep 3;342(1):131-43.

PMID:
15313612
36.

The SUPERFAMILY database in 2004: additions and improvements.

Madera M, Vogel C, Kummerfeld SK, Chothia C, Gough J.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D235-9.

37.

Integrated mapping, chromosomal sequencing and sequence analysis of Cryptosporidium parvum.

Bankier AT, Spriggs HF, Fartmann B, Konfortov BA, Madera M, Vogel C, Teichmann SA, Ivens A, Dear PH.

Genome Res. 2003 Aug;13(8):1787-99. Epub 2003 Jul 17. Erratum in: Genome Res. 2004 Feb;14(2):327.

38.

Determination of inorganic corrosion inhibitors in heat transfer systems by ion chromatography.

Kadnar R, Madera M, Schlifke R.

J Chromatogr A. 2003 May 16;997(1-2):285-90.

PMID:
12830903
39.

Ion chromatographic identification and quantification of glycol degradation products.

Madera M, Höflinger W, Kadnar R.

J Chromatogr A. 2003 May 16;997(1-2):279-84.

PMID:
12830902
40.

A comparison of profile hidden Markov model procedures for remote homology detection.

Madera M, Gough J.

Nucleic Acids Res. 2002 Oct 1;30(19):4321-8.

41.

[Dr. Władysław Prazmowski].

Madera M.

Przegl Epidemiol. 1992;46(3):285-7. Polish. No abstract available.

PMID:
1296256
42.

[Enterovirus meningitis in the Lódź Province in 1974].

Madera M, Wawreńczak J, Klimek H, Bocheńska J.

Przegl Epidemiol. 1975;29(4):419-22. Polish. No abstract available.

PMID:
175402
43.

[Tick-borne encephalitis and encephalomeningits in the Lodz Province].

Wróblewska-Mularczykowa, Zabicka J, Zukowski K, Madera M, Bocheńska J.

Przegl Epidemiol. 1974;28(1):17-22. Polish. No abstract available.

PMID:
4815530

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