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Items: 1 to 50 of 254

1.

Predictability of human differential gene expression.

Crow M, Lim N, Ballouz S, Pavlidis P, Gillis J.

Proc Natl Acad Sci U S A. 2019 Mar 7. pii: 201802973. doi: 10.1073/pnas.1802973116. [Epub ahead of print]

2.

Depressive symptoms in inflammatory bowel disease: an extraintestinal manifestation of inflammation?

Moulton CD, Pavlidis P, Norton C, Norton S, Pariante C, Hayee B, Powell N.

Clin Exp Immunol. 2019 Feb 14. doi: 10.1111/cei.13276. [Epub ahead of print] Review.

PMID:
30762873
3.

Conium maculatum intoxication: Literature review and case report on hemlock poisoning.

Karakasi MV, Tologkos S, Papadatou V, Raikos N, Lambropoulou M, Pavlidis P.

Forensic Sci Rev. 2019 Jan;31(1):23-36.

PMID:
30594904
4.

Comparisons of molecular diversity indices, selective sweeps and population structure of African rice with its wild progenitor and Asian rice.

Ndjiondjop MN, Alachiotis N, Pavlidis P, Goungoulou A, Kpeki SB, Zhao D, Semagn K.

Theor Appl Genet. 2018 Dec 21. doi: 10.1007/s00122-018-3268-2. [Epub ahead of print]

PMID:
30578434
5.

Human retinoic acid-regulated CD161+ regulatory T cells support wound repair in intestinal mucosa.

Povoleri GAM, Nova-Lamperti E, Scottà C, Fanelli G, Chen YC, Becker PD, Boardman D, Costantini B, Romano M, Pavlidis P, McGregor R, Pantazi E, Chauss D, Sun HW, Shih HY, Cousins DJ, Cooper N, Powell N, Kemper C, Pirooznia M, Laurence A, Kordasti S, Kazemian M, Lombardi G, Afzali B.

Nat Immunol. 2018 Dec;19(12):1403-1414. doi: 10.1038/s41590-018-0230-z. Epub 2018 Nov 5.

PMID:
30397350
6.

Assessing Transcriptome Quality in Patch-Seq Datasets.

Tripathy SJ, Toker L, Bomkamp C, Mancarci BO, Belmadani M, Pavlidis P.

Front Mol Neurosci. 2018 Oct 8;11:363. doi: 10.3389/fnmol.2018.00363. eCollection 2018.

7.

Complement receptor CD46 co-stimulates optimal human CD8+ T cell effector function via fatty acid metabolism.

Arbore G, West EE, Rahman J, Le Friec G, Niyonzima N, Pirooznia M, Tunc I, Pavlidis P, Powell N, Li Y, Liu P, Servais A, Couzi L, Fremeaux-Bacchi V, Placais L, Ferraro A, Walsh PR, Kavanagh D, Afzali B, Lavender P, Lachmann HJ, Kemper C.

Nat Commun. 2018 Oct 10;9(1):4186. doi: 10.1038/s41467-018-06706-z.

8.

RAiSD detects positive selection based on multiple signatures of a selective sweep and SNP vectors.

Alachiotis N, Pavlidis P.

Commun Biol. 2018 Jun 27;1:79. doi: 10.1038/s42003-018-0085-8. eCollection 2018.

9.

Transcriptomic Evidence for Alterations in Astrocytes and Parvalbumin Interneurons in Subjects With Bipolar Disorder and Schizophrenia.

Toker L, Mancarci BO, Tripathy S, Pavlidis P.

Biol Psychiatry. 2018 Dec 1;84(11):787-796. doi: 10.1016/j.biopsych.2018.07.010. Epub 2018 Jul 21.

10.

Systematic evaluation of isoform function in literature reports of alternative splicing.

Bhuiyan SA, Ly S, Phan M, Huntington B, Hogan E, Liu CC, Liu J, Pavlidis P.

BMC Genomics. 2018 Aug 28;19(1):637. doi: 10.1186/s12864-018-5013-2.

11.

Monitoring changes in the Gene Ontology and their impact on genomic data analysis.

Jacobson M, Sedeño-Cortés AE, Pavlidis P.

Gigascience. 2018 Aug 1;7(8). doi: 10.1093/gigascience/giy103.

12.

Golimumab: early experience and medium-term outcomes from two UK tertiary IBD centres.

Samaan MA, Pavlidis P, Digby-Bell J, Johnston EL, Dhillon A, Paramsothy R, Akintimehin AO, Medcalf L, Chung-Faye G, DuBois P, Koumoutsos I, Powell N, Anderson SHC, Sanderson J, Hayee BH, Irving PM.

Frontline Gastroenterol. 2018 Jul;9(3):221-231. doi: 10.1136/flgastro-2017-100895. Epub 2017 Oct 11.

PMID:
30047549
13.

Differential coexpression in human tissues and the confounding effect of mean expression levels.

Farahbod M, Pavlidis P.

Bioinformatics. 2019 Jan 1;35(1):55-61. doi: 10.1093/bioinformatics/bty538.

14.

C-terminal truncation of IFN-γ inhibits proinflammatory macrophage responses and is deficient in autoimmune disease.

Dufour A, Bellac CL, Eckhard U, Solis N, Klein T, Kappelhoff R, Fortelny N, Jobin P, Rozmus J, Mark J, Pavlidis P, Dive V, Barbour SJ, Overall CM.

Nat Commun. 2018 Jun 20;9(1):2416. doi: 10.1038/s41467-018-04717-4.

15.

Letter: vedolizumab for autoimmune liver disease associated inflammatory bowel disease.

Pavlidis P, Graham J, Gulati S, Dubois P, Heneghan M, Joshi D, Hayee B.

Aliment Pharmacol Ther. 2018 May;47(10):1422-1423. doi: 10.1111/apt.14603. No abstract available.

PMID:
29676010
16.

Bilateral taste disorders in patients with Ramsay Hunt syndrome and Bell palsy.

Pavlidis P, Cámara RJA, Kekes G, Gouveris H.

Ann Neurol. 2018 Apr;83(4):807-815. doi: 10.1002/ana.25210. Epub 2018 Apr 10.

PMID:
29537615
17.

Gastrointestinal toxicity of immune checkpoint inhibitors: from mechanisms to management.

Samaan MA, Pavlidis P, Papa S, Powell N, Irving PM.

Nat Rev Gastroenterol Hepatol. 2018 Apr;15(4):222-234. doi: 10.1038/nrgastro.2018.14. Epub 2018 Mar 7. Review.

PMID:
29512649
18.

Modeling sources of interlaboratory variability in electrophysiological properties of mammalian neurons.

Tebaykin D, Tripathy SJ, Binnion N, Li B, Gerkin RC, Pavlidis P.

J Neurophysiol. 2018 Apr 1;119(4):1329-1339. doi: 10.1152/jn.00604.2017. Epub 2017 Dec 20.

PMID:
29357465
19.

DNA methylation as a predictor of fetal alcohol spectrum disorder.

Lussier AA, Morin AM, MacIsaac JL, Salmon J, Weinberg J, Reynolds JN, Pavlidis P, Chudley AE, Kobor MS.

Clin Epigenetics. 2018 Jan 12;10:5. doi: 10.1186/s13148-018-0439-6. eCollection 2018.

20.

Is the Garden Gun (Flobert 9 mm) Capable of Inducing Fatal Injury?: Literature Review and Comparative Presentation of Two Cases.

Pavlidis P, Karakasi MV, Kouroupi M, Theodoropoulou E, Birbilis TA.

Am J Forensic Med Pathol. 2018 Mar;39(1):18-22. doi: 10.1097/PAF.0000000000000376. Review.

PMID:
29309279
21.

Complex suicide involving pyrethroid ingestion (mosquito coils) and fatal self-wounding by sharp force.

Karakasi M-, Pavlidis P, Vasilikos E, Anestakis D, Raikos N.

Soud Lek. 2017 Winter;62(4):45-50.

PMID:
29227118
22.

Cross-Laboratory Analysis of Brain Cell Type Transcriptomes with Applications to Interpretation of Bulk Tissue Data.

Mancarci BO, Toker L, Tripathy SJ, Li B, Rocco B, Sibille E, Pavlidis P.

eNeuro. 2017 Nov 30;4(6). pii: ENEURO.0212-17.2017. doi: 10.1523/ENEURO.0212-17.2017. eCollection 2017 Nov-Dec.

23.

Transcriptomic correlates of neuron electrophysiological diversity.

Tripathy SJ, Toker L, Li B, Crichlow CL, Tebaykin D, Mancarci BO, Pavlidis P.

PLoS Comput Biol. 2017 Oct 25;13(10):e1005814. doi: 10.1371/journal.pcbi.1005814. eCollection 2017 Oct.

24.

Single anterior cervical discectomy and fusion (ACDF) using self- locking stand-alone polyetheretherketone (PEEK) cage: evaluation of pain and health-related quality of life.

Kapetanakis S, Thomaidis T, Charitoudis G, Pavlidis P, Theodosiadis P, Gkasdaris G.

J Spine Surg. 2017 Sep;3(3):312-322. doi: 10.21037/jss.2017.06.21.

25.

An Unusual Case Report of Bertolotti's Syndrome: Extraforaminal Stenosis and L5 Unilateral Root Compression (Castellvi Type III an LSTV).

Kapetanakis S, Chaniotakis C, Paraskevopoulos C, Pavlidis P.

J Orthop Case Rep. 2017 May-Jun;7(3):9-12. doi: 10.13107/jocr.2250-0685.782.

26.

A p53-regulated apoptotic gene signature predicts treatment response and outcome in pediatric acute lymphoblastic leukemia.

Bainer RO, Trendowski MR, Cheng C, Pei D, Yang W, Paugh SW, Goss KH, Skol AD, Pavlidis P, Pui CH, Gilliam TC, Evans WE, Onel K.

Cancer Manag Res. 2017 Sep 13;9:397-410. doi: 10.2147/CMAR.S139864. eCollection 2017.

27.

Archaic Hominin Introgression in Africa Contributes to Functional Salivary MUC7 Genetic Variation.

Xu D, Pavlidis P, Taskent RO, Alachiotis N, Flanagan C, DeGiorgio M, Blekhman R, Ruhl S, Gokcumen O.

Mol Biol Evol. 2017 Oct 1;34(10):2704-2715. doi: 10.1093/molbev/msx206.

28.

VCFtoTree: a user-friendly tool to construct locus-specific alignments and phylogenies from thousands of anthropologically relevant genome sequences.

Xu D, Jaber Y, Pavlidis P, Gokcumen O.

BMC Bioinformatics. 2017 Sep 26;18(1):426. doi: 10.1186/s12859-017-1844-0.

29.

Concurrent lumbosacral and sacrococcygeal fusion: a rare aetiology of low back pain and coccygodynia?

Kapetanakis S, Gkasdaris G, Pavlidis P, Givissis P.

Folia Morphol (Warsz). 2018;77(2):397-399. doi: 10.5603/FM.a2017.0081. Epub 2017 Sep 21.

30.

Vedolizumab: early experience and medium-term outcomes from two UK tertiary IBD centres.

Samaan MA, Pavlidis P, Johnston E, Warner B, Digby-Bell J, Koumoutsos I, Fong S, Goldberg R, Patel K, Gulati S, Medcalf L, Sastrillo M, Brown-Clarke C, Bidewell-Sullivan J, Forsyth K, Lee E, Stanton A, Duncan J, Chung-Faye G, Dubois P, Powell N, Anderson S, Sanderson J, Hayee B, Irving PM.

Frontline Gastroenterol. 2017 Jul;8(3):196-202. doi: 10.1136/flgastro-2016-100720. Epub 2016 Aug 10.

31.

Can we predict protein from mRNA levels?

Fortelny N, Overall CM, Pavlidis P, Freue GVC.

Nature. 2017 Jul 26;547(7664):E19-E20. doi: 10.1038/nature22293. No abstract available.

PMID:
28748932
32.

An Atlas of Human Regulatory T Helper-like Cells Reveals Features of Th2-like Tregs that Support a Tumorigenic Environment.

Halim L, Romano M, McGregor R, Correa I, Pavlidis P, Grageda N, Hoong SJ, Yuksel M, Jassem W, Hannen RF, Ong M, Mckinney O, Hayee B, Karagiannis SN, Powell N, Lechler RI, Nova-Lamperti E, Lombardi G.

Cell Rep. 2017 Jul 18;20(3):757-770. doi: 10.1016/j.celrep.2017.06.079.

33.

Gastric Lesion in a Patient With Lynch Syndrome.

Pavlidis P, Arqoub HA, Hayee B.

Gastroenterology. 2017 Aug;153(2):e5-e6. doi: 10.1053/j.gastro.2016.12.045. Epub 2017 Jun 29. No abstract available.

PMID:
28668450
34.

Prepartum Psychosis and Neonaticide: Rare Case Study and Forensic-Psychiatric Synthesis of Literature.

Karakasi MV, Markopoulou M, Tentes IK, Tsikouras PN, Vasilikos E, Pavlidis P.

J Forensic Sci. 2017 Jul;62(4):1097-1106. doi: 10.1111/1556-4029.13365. Epub 2017 Jun 5. Review.

PMID:
28580656
35.

Death due to fracture of thin calvarial bones after a fall: A forensic approach.

Sioutas G, Karakasi MV, Kapetanakis S, Pavlidis P.

Chin J Traumatol. 2017 Jun;20(3):180-182. doi: 10.1016/j.cjtee.2017.01.003. Epub 2017 Mar 16.

36.

A survey of methods and tools to detect recent and strong positive selection.

Pavlidis P, Alachiotis N.

J Biol Res (Thessalon). 2017 Apr 8;24:7. doi: 10.1186/s40709-017-0064-0. eCollection 2017 Dec. Review.

37.

Protease-Inhibitor Interaction Predictions: Lessons on the Complexity of Protein-Protein Interactions.

Fortelny N, Butler GS, Overall CM, Pavlidis P.

Mol Cell Proteomics. 2017 Jun;16(6):1038-1051. doi: 10.1074/mcp.M116.065706. Epub 2017 Apr 6.

38.

Electrogustometry Thresholds, Tongue Tip Vascularization, Density, and Form of the Fungiform Papillae Following Smoking Cessation.

Pavlidis P, Gouveris H, Kekes G.

Chem Senses. 2017 Jun 1;42(5):419-423. doi: 10.1093/chemse/bjx009.

PMID:
28379369
39.

Using predictive specificity to determine when gene set analysis is biologically meaningful.

Ballouz S, Pavlidis P, Gillis J.

Nucleic Acids Res. 2017 Feb 28;45(4):e20. doi: 10.1093/nar/gkw957.

40.

Greenish-blue gastric content: Literature review and case report on acute copper sulphate poisoning.

Nastoulis E, Karakasi MV, Couvaris CM, Kapetanakis S, Fiska A, Pavlidis P.

Forensic Sci Rev. 2017 Jan;29(1):77-91. Review.

PMID:
28119268
41.

Multi-rate Poisson tree processes for single-locus species delimitation under maximum likelihood and Markov chain Monte Carlo.

Kapli P, Lutteropp S, Zhang J, Kobert K, Pavlidis P, Stamatakis A, Flouri T.

Bioinformatics. 2017 Jun 1;33(11):1630-1638. doi: 10.1093/bioinformatics/btx025.

42.

The diagnostic yield of fluorine-18 fluorodeoxyglucose positron emission tomography-computed tomography in recurrent testicular seminoma.

Bantis A, Sountoulides P, Metaxa L, Pavlidis P, Aggelonidou E, Arif H, Zisimopoulos A.

Urol Ann. 2016 Oct-Dec;8(4):496-499. doi: 10.4103/0974-7796.192090.

43.

A comparative immunohistochemical investigation of the consequences of chorioamnionitis on the developing human fetal spleen.

Papadopoulos E, Nikolaidou C, Kotini A, Deftereou TE, Venizelos J, Pavlidis P, Gkantsinikoudis N, Papadopoulos N, Lambropoulou M.

Clin Exp Obstet Gynecol. 2017;44(1):30-38.

PMID:
29714862
44.

Sexual homicide: Brief review of the literature and case report involving rape, genital mutilation and human arson.

Karakasi MV, Vasilikos E, Voultsos P, Vlachaki A, Pavlidis P.

J Forensic Leg Med. 2017 Feb;46:1-10. doi: 10.1016/j.jflm.2016.12.005. Epub 2016 Dec 20. Review.

PMID:
28024267
45.

Fine-needle aspiration of skin metastasis in ovarian cancer-report of two cases and review of the literature.

Charalampidis C, Lampaki S, Zarogoulidis P, Lazaridis G, Mpaka S, Kosmidis C, Tsakiridis K, Kioumis I, Pavlidis P, Karapantzos I, Karapantzou C, Hohenforst-Schmidt W, Zarogoulidis K.

Ann Transl Med. 2016 Nov;4(22):447. doi: 10.21037/atm.2016.11.02.

46.

EGAD: ultra-fast functional analysis of gene networks.

Ballouz S, Weber M, Pavlidis P, Gillis J.

Bioinformatics. 2017 Feb 15;33(4):612-614. doi: 10.1093/bioinformatics/btw695.

47.

Transforaminal Percutaneous Endoscopic Discectomy in Parkinson Disease: Preliminary Results and Short Review of the Literature.

Kapetanakis S, Giovannopoulou E, Thomaidis T, Charitoudis G, Pavlidis P, Kazakos K.

Korean J Spine. 2016 Sep;13(3):144-150. Epub 2016 Sep 30.

48.

Whose sample is it anyway? Widespread misannotation of samples in transcriptomics studies.

Toker L, Feng M, Pavlidis P.

Version 2. F1000Res. 2016 Aug 30 [revised 2016 Jan 1];5:2103. eCollection 2016.

49.

An expanded evaluation of protein function prediction methods shows an improvement in accuracy.

Jiang Y, Oron TR, Clark WT, Bankapur AR, D'Andrea D, Lepore R, Funk CS, Kahanda I, Verspoor KM, Ben-Hur A, Koo da CE, Penfold-Brown D, Shasha D, Youngs N, Bonneau R, Lin A, Sahraeian SM, Martelli PL, Profiti G, Casadio R, Cao R, Zhong Z, Cheng J, Altenhoff A, Skunca N, Dessimoz C, Dogan T, Hakala K, Kaewphan S, Mehryary F, Salakoski T, Ginter F, Fang H, Smithers B, Oates M, Gough J, Törönen P, Koskinen P, Holm L, Chen CT, Hsu WL, Bryson K, Cozzetto D, Minneci F, Jones DT, Chapman S, Bkc D, Khan IK, Kihara D, Ofer D, Rappoport N, Stern A, Cibrian-Uhalte E, Denny P, Foulger RE, Hieta R, Legge D, Lovering RC, Magrane M, Melidoni AN, Mutowo-Meullenet P, Pichler K, Shypitsyna A, Li B, Zakeri P, ElShal S, Tranchevent LC, Das S, Dawson NL, Lee D, Lees JG, Sillitoe I, Bhat P, Nepusz T, Romero AE, Sasidharan R, Yang H, Paccanaro A, Gillis J, Sedeño-Cortés AE, Pavlidis P, Feng S, Cejuela JM, Goldberg T, Hamp T, Richter L, Salamov A, Gabaldon T, Marcet-Houben M, Supek F, Gong Q, Ning W, Zhou Y, Tian W, Falda M, Fontana P, Lavezzo E, Toppo S, Ferrari C, Giollo M, Piovesan D, Tosatto SC, Del Pozo A, Fernández JM, Maietta P, Valencia A, Tress ML, Benso A, Di Carlo S, Politano G, Savino A, Rehman HU, Re M, Mesiti M, Valentini G, Bargsten JW, van Dijk AD, Gemovic B, Glisic S, Perovic V, Veljkovic V, Veljkovic N, Almeida-E-Silva DC, Vencio RZ, Sharan M, Vogel J, Kansakar L, Zhang S, Vucetic S, Wang Z, Sternberg MJ, Wass MN, Huntley RP, Martin MJ, O'Donovan C, Robinson PN, Moreau Y, Tramontano A, Babbitt PC, Brenner SE, Linial M, Orengo CA, Rost B, Greene CS, Mooney SD, Friedberg I, Radivojac P.

Genome Biol. 2016 Sep 7;17(1):184. doi: 10.1186/s13059-016-1037-6.

50.

Traumatic Brain Injury Due to Screwdriver Assaults: Literature Review and Case Report.

Pavlidis P, Karakasi MV, Birbilis TA.

Am J Forensic Med Pathol. 2016 Dec;37(4):291-298. Review.

PMID:
27571172

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