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Items: 1 to 50 of 124

1.

Computationally-Guided Development of a Stromal Inflammation Histologic Biomarker in Lung Squamous Cell Carcinoma.

Xia D, Casanova R, Machiraju D, McKee TD, Weder W, Beck AH, Soltermann A.

Sci Rep. 2018 Mar 2;8(1):3941. doi: 10.1038/s41598-018-22254-4.

2.

Diagnostic Assessment of Deep Learning Algorithms for Detection of Lymph Node Metastases in Women With Breast Cancer.

Ehteshami Bejnordi B, Veta M, Johannes van Diest P, van Ginneken B, Karssemeijer N, Litjens G, van der Laak JAWM; the CAMELYON16 Consortium, Hermsen M, Manson QF, Balkenhol M, Geessink O, Stathonikos N, van Dijk MC, Bult P, Beca F, Beck AH, Wang D, Khosla A, Gargeya R, Irshad H, Zhong A, Dou Q, Li Q, Chen H, Lin HJ, Heng PA, Haß C, Bruni E, Wong Q, Halici U, Öner MÜ, Cetin-Atalay R, Berseth M, Khvatkov V, Vylegzhanin A, Kraus O, Shaban M, Rajpoot N, Awan R, Sirinukunwattana K, Qaiser T, Tsang YW, Tellez D, Annuscheit J, Hufnagl P, Valkonen M, Kartasalo K, Latonen L, Ruusuvuori P, Liimatainen K, Albarqouni S, Mungal B, George A, Demirci S, Navab N, Watanabe S, Seno S, Takenaka Y, Matsuda H, Ahmady Phoulady H, Kovalev V, Kalinovsky A, Liauchuk V, Bueno G, Fernandez-Carrobles MM, Serrano I, Deniz O, Racoceanu D, Venâncio R.

JAMA. 2017 Dec 12;318(22):2199-2210. doi: 10.1001/jama.2017.14585.

PMID:
29234806
3.

Breast cancer risk factors in relation to estrogen receptor, progesterone receptor, insulin-like growth factor-1 receptor, and Ki67 expression in normal breast tissue.

Oh H, Eliassen AH, Beck AH, Rosner B, Schnitt SJ, Collins LC, Connolly JL, Montaser-Kouhsari L, Willett WC, Tamimi RM.

NPJ Breast Cancer. 2017 Oct 2;3:39. doi: 10.1038/s41523-017-0041-7. eCollection 2017.

4.

Revisiting inconsistency in large pharmacogenomic studies.

Safikhani Z, Smirnov P, Freeman M, El-Hachem N, She A, Rene Q, Goldenberg A, Birkbak NJ, Hatzis C, Shi L, Beck AH, Aerts HJWL, Quackenbush J, Haibe-Kains B.

Version 3. F1000Res. 2016 Sep 16 [revised 2017 Jan 1];5:2333. doi: 10.12688/f1000research.9611.3. eCollection 2016.

5.

Alcohol consumption and breast tumor gene expression.

Wang J, Heng YJ, Eliassen AH, Tamimi RM, Hazra A, Carey VJ, Ambrosone CB, de Andrade VP, Brufsky A, Couch FJ, King TA, Modugno F, Vachon CM, Hunter DJ, Beck AH, Hankinson SE.

Breast Cancer Res. 2017 Sep 12;19(1):108. doi: 10.1186/s13058-017-0901-y.

6.

Automated Classification of Benign and Malignant Proliferative Breast Lesions.

Radiya-Dixit E, Zhu D, Beck AH.

Sci Rep. 2017 Aug 29;7(1):9900. doi: 10.1038/s41598-017-10324-y.

7.

Prostate cancer-associated SPOP mutations confer resistance to BET inhibitors through stabilization of BRD4.

Dai X, Gan W, Li X, Wang S, Zhang W, Huang L, Liu S, Zhong Q, Guo J, Zhang J, Chen T, Shimizu K, Beca F, Blattner M, Vasudevan D, Buckley DL, Qi J, Buser L, Liu P, Inuzuka H, Beck AH, Wang L, Wild PJ, Garraway LA, Rubin MA, Barbieri CE, Wong KK, Muthuswamy SK, Huang J, Chen Y, Bradner JE, Wei W.

Nat Med. 2017 Sep;23(9):1063-1071. doi: 10.1038/nm.4378. Epub 2017 Aug 14.

8.

Assessment of Ki67 expression for breast cancer subtype classification and prognosis in the Nurses' Health Study.

Healey MA, Hirko KA, Beck AH, Collins LC, Schnitt SJ, Eliassen AH, Holmes MD, Tamimi RM, Hazra A.

Breast Cancer Res Treat. 2017 Nov;166(2):613-622. doi: 10.1007/s10549-017-4421-3. Epub 2017 Aug 8.

PMID:
28791482
9.

Nanoscale imaging of clinical specimens using pathology-optimized expansion microscopy.

Zhao Y, Bucur O, Irshad H, Chen F, Weins A, Stancu AL, Oh EY, DiStasio M, Torous V, Glass B, Stillman IE, Schnitt SJ, Beck AH, Boyden ES.

Nat Biotechnol. 2017 Aug;35(8):757-764. doi: 10.1038/nbt.3892. Epub 2017 Jul 17.

10.

Interaction of mammographic breast density with menopausal status and postmenopausal hormone use in relation to the risk of aggressive breast cancer subtypes.

Yaghjyan L, Tamimi RM, Bertrand KA, Scott CG, Jensen MR, Pankratz VS, Brandt K, Visscher D, Norman A, Couch F, Shepherd J, Fan B, Chen YY, Ma L, Beck AH, Cummings SR, Kerlikowske K, Vachon CM.

Breast Cancer Res Treat. 2017 Sep;165(2):421-431. doi: 10.1007/s10549-017-4341-2. Epub 2017 Jun 17.

PMID:
28624977
11.

Straw Men, Deep Learning, and the Future of the Human Microscopist: Response to "Artificial Intelligence and the Pathologist: Future Frenemies?"

Granter SR, Beck AH, Papke DJ Jr.

Arch Pathol Lab Med. 2017 May;141(5):624. doi: 10.5858/arpa.2017-0023-ED. No abstract available.

PMID:
28447901
12.

AlphaGo, Deep Learning, and the Future of the Human Microscopist.

Granter SR, Beck AH, Papke DJ Jr.

Arch Pathol Lab Med. 2017 May;141(5):619-621. doi: 10.5858/arpa.2016-0471-ED. No abstract available.

PMID:
28447900
13.

Morphoproteomic Characterization of Lung Squamous Cell Carcinoma Fragmentation, a Histological Marker of Increased Tumor Invasiveness.

Casanova R, Xia D, Rulle U, Nanni P, Grossmann J, Vrugt B, Wettstein R, Ballester R, Astolfo A, Weder W, Moch H, Stampanoni M, Beck AH, Soltermann A.

Cancer Res. 2017 May 15;77(10):2585-2593. doi: 10.1158/0008-5472.CAN-16-2363. Epub 2017 Mar 31. Erratum in: Cancer Res. 2018 Feb 1;78(3):841.

14.

EZH2 protein expression in normal breast epithelium and risk of breast cancer: results from the Nurses' Health Studies.

Beca F, Kensler K, Glass B, Schnitt SJ, Tamimi RM, Beck AH.

Breast Cancer Res. 2017 Mar 2;19(1):21. doi: 10.1186/s13058-017-0817-6.

15.

Crowdsourcing scoring of immunohistochemistry images: Evaluating Performance of the Crowd and an Automated Computational Method.

Irshad H, Oh EY, Schmolze D, Quintana LM, Collins L, Tamimi RM, Beck AH.

Sci Rep. 2017 Feb 23;7:43286. doi: 10.1038/srep43286.

16.

Interobserver Reproducibility Among Gynecologic Pathologists in Diagnosing Heterologous Osteosarcomatous Component in Gynecologic Tract Carcinosarcomas.

Sangoi AR, Kshirsagar M, Roma AA, Horvai AE, Chivukula M, Ellenson LH, Fadare O, Folkins AK, Garg K, Hanley K, Longacre TA, Haas J, McCluggage WG, McKenney JK, Nucci MR, Oliva E, Park KJ, Parkash V, Quick CM, Rabban JT, Rutgers JKL, Soslow R, Vang R, Yemelyanova A, Zaloudek C, Beck AH.

Int J Gynecol Pathol. 2017 Jul;36(4):386-392. doi: 10.1097/PGP.0000000000000329.

PMID:
28221217
17.

Expression Quantitative Trait loci (QTL) in tumor adjacent normal breast tissue and breast tumor tissue.

Quiroz-Zárate A, Harshfield BJ, Hu R, Knoblauch N, Beck AH, Hankinson SE, Carey V, Tamimi RM, Hunter DJ, Quackenbush J, Hazra A.

PLoS One. 2017 Feb 2;12(2):e0170181. doi: 10.1371/journal.pone.0170181. eCollection 2017.

18.

Urinary Melatonin in Relation to Postmenopausal Breast Cancer Risk According to Melatonin 1 Receptor Status.

Devore EE, Warner ET, Eliassen AH, Brown SB, Beck AH, Hankinson SE, Schernhammer ES.

Cancer Epidemiol Biomarkers Prev. 2017 Mar;26(3):413-419. doi: 10.1158/1055-9965.EPI-16-0630. Epub 2016 Nov 9.

19.

Expression of estrogen receptor, progesterone receptor, and Ki67 in normal breast tissue in relation to subsequent risk of breast cancer.

Oh H, Eliassen AH, Wang M, Smith-Warner SA, Beck AH, Schnitt SJ, Collins LC, Connolly JL, Montaser-Kouhsari L, Polyak K, Tamimi RM.

NPJ Breast Cancer. 2016;2. pii: 16032. doi: 10.1038/npjbcancer.2016.32. Epub 2016 Oct 26.

20.

Proceedings of the third international molecular pathological epidemiology (MPE) meeting.

Campbell PT, Rebbeck TR, Nishihara R, Beck AH, Begg CB, Bogdanov AA, Cao Y, Coleman HG, Freeman GJ, Heng YJ, Huttenhower C, Irizarry RA, Kip NS, Michor F, Nevo D, Peters U, Phipps AI, Poole EM, Qian ZR, Quackenbush J, Robins H, Rogan PK, Slattery ML, Smith-Warner SA, Song M, VanderWeele TJ, Xia D, Zabor EC, Zhang X, Wang M, Ogino S.

Cancer Causes Control. 2017 Feb;28(2):167-176. doi: 10.1007/s10552-016-0845-z. Epub 2017 Jan 17. Review.

21.

Aspirin Suppresses Growth in PI3K-Mutant Breast Cancer by Activating AMPK and Inhibiting mTORC1 Signaling.

Henry WS, Laszewski T, Tsang T, Beca F, Beck AH, McAllister SS, Toker A.

Cancer Res. 2017 Feb 1;77(3):790-801. doi: 10.1158/0008-5472.CAN-16-2400. Epub 2016 Dec 9.

22.

Precision Cancer Diagnostics: Tracking Genomic Evolution in Clinical Trials.

Beca F, Beck AH.

PLoS Med. 2016 Dec 6;13(12):e1002177. doi: 10.1371/journal.pmed.1002177. eCollection 2016 Dec.

23.

Safikhani et al. reply.

Safikhani Z, El-Hachem N, Smirnov P, Freeman M, Goldenberg A, Birkbak NJ, Beck AH, Aerts HJ, Quackenbush J, Haibe-Kains B.

Nature. 2016 Nov 30;540(7631):E2-E4. doi: 10.1038/nature19839. No abstract available.

PMID:
27905430
24.

Safikhani et al. reply.

Safikhani Z, El-Hachem N, Smirnov P, Freeman M, Goldenberg A, Birkbak NJ, Beck AH, Aerts HJ, Quackenbush J, Haibe-Kains B.

Nature. 2016 Nov 30;540(7631):E11-E12. doi: 10.1038/nature20581. No abstract available.

PMID:
27905423
25.

Safikhani et al. reply.

Safikhani Z, El-Hachem N, Smirnov P, Freeman M, Goldenberg A, Birkbak NJ, Beck AH, Aerts HJ, Quackenbush J, Haibe-Kains B.

Nature. 2016 Nov 30;540(7631):E6-E8. doi: 10.1038/nature20172. No abstract available.

PMID:
27905416
26.

The molecular basis of breast cancer pathological phenotypes.

Heng YJ, Lester SC, Tse GM, Factor RE, Allison KH, Collins LC, Chen YY, Jensen KC, Johnson NB, Jeong JC, Punjabi R, Shin SJ, Singh K, Krings G, Eberhard DA, Tan PH, Korski K, Waldman FM, Gutman DA, Sanders M, Reis-Filho JS, Flanagan SR, Gendoo DM, Chen GM, Haibe-Kains B, Ciriello G, Hoadley KA, Perou CM, Beck AH.

J Pathol. 2017 Feb;241(3):375-391. doi: 10.1002/path.4847. Epub 2016 Dec 29.

27.

A BRCA1/2 Mutational Signature and Survival in Ovarian High-Grade Serous Carcinoma.

Dong F, Davineni PK, Howitt BE, Beck AH.

Cancer Epidemiol Biomarkers Prev. 2016 Nov;25(11):1511-1516. Epub 2016 Aug 5.

28.

Continuous measurement of breast tumour hormone receptor expression: a comparison of two computational pathology platforms.

Ahern TP, Beck AH, Rosner BA, Glass B, Frieling G, Collins LC, Tamimi RM.

J Clin Pathol. 2017 May;70(5):428-434. doi: 10.1136/jclinpath-2016-204107. Epub 2016 Oct 11.

29.

PHD3 Loss in Cancer Enables Metabolic Reliance on Fatty Acid Oxidation via Deactivation of ACC2.

German NJ, Yoon H, Yusuf RZ, Murphy JP, Finley LW, Laurent G, Haas W, Satterstrom FK, Guarnerio J, Zaganjor E, Santos D, Pandolfi PP, Beck AH, Gygi SP, Scadden DT, Kaelin WG Jr, Haigis MC.

Mol Cell. 2016 Sep 15;63(6):1006-20. doi: 10.1016/j.molcel.2016.08.014.

30.

LINC00520 is induced by Src, STAT3, and PI3K and plays a functional role in breast cancer.

Henry WS, Hendrickson DG, Beca F, Glass B, Lindahl-Allen M, He L, Ji Z, Struhl K, Beck AH, Rinn JL, Toker A.

Oncotarget. 2016 Dec 13;7(50):81981-81994. doi: 10.18632/oncotarget.11962.

31.

Height and Body Size in Childhood, Adolescence, and Young Adulthood and Breast Cancer Risk According to Molecular Subtype in the Nurses' Health Studies.

Warner ET, Hu R, Collins LC, Beck AH, Schnitt S, Rosner B, Eliassen AH, Michels KB, Willett WC, Tamimi RM.

Cancer Prev Res (Phila). 2016 Sep;9(9):732-8. doi: 10.1158/1940-6207.CAPR-16-0085.

32.

Plasma 25-Hydroxyvitamin D and Risk of Breast Cancer in Women Followed over 20 Years.

Eliassen AH, Warner ET, Rosner B, Collins LC, Beck AH, Quintana LM, Tamimi RM, Hankinson SE.

Cancer Res. 2016 Sep 15;76(18):5423-30. doi: 10.1158/0008-5472.CAN-16-0353. Epub 2016 Aug 16.

33.

Oncogenic Role of Fusion-circRNAs Derived from Cancer-Associated Chromosomal Translocations.

Guarnerio J, Bezzi M, Jeong JC, Paffenholz SV, Berry K, Naldini MM, Lo-Coco F, Tay Y, Beck AH, Pandolfi PP.

Cell. 2016 Aug 11;166(4):1055-1056. doi: 10.1016/j.cell.2016.07.035. No abstract available.

34.

Antibody Therapy Targeting CD47 and CD271 Effectively Suppresses Melanoma Metastasis in Patient-Derived Xenografts.

Ngo M, Han A, Lakatos A, Sahoo D, Hachey SJ, Weiskopf K, Beck AH, Weissman IL, Boiko AD.

Cell Rep. 2016 Aug 9;16(6):1701-1716. doi: 10.1016/j.celrep.2016.07.004. Epub 2016 Jul 28.

35.

Region of interest identification and diagnostic agreement in breast pathology.

Nagarkar DB, Mercan E, Weaver DL, Brunyé TT, Carney PA, Rendi MH, Beck AH, Frederick PD, Shapiro LG, Elmore JG.

Mod Pathol. 2016 Sep;29(9):1004-11. doi: 10.1038/modpathol.2016.85. Epub 2016 May 20.

36.

DNA defects, epigenetics, and gene expression in cancer-adjacent breast: a study from The Cancer Genome Atlas.

Troester MA, Hoadley KA, D'Arcy M, Cherniack AD, Stewart C, Koboldt DC, Robertson AG, Mahurkar S, Shen H, Wilkerson MD, Sandhu R, Johnson NB, Allison KH, Beck AH, Yau C, Bowen J, Sheth M, Hwang ES, Perou CM, Laird PW, Ding L, Benz CC.

NPJ Breast Cancer. 2016 May 4;2:16007. doi: 10.1038/npjbcancer.2016.7. eCollection 2016.

37.

TNF-α expression, risk factors, and inflammatory exposures in ovarian cancer: evidence for an inflammatory pathway of ovarian carcinogenesis?

Gupta M, Babic A, Beck AH, Terry K.

Hum Pathol. 2016 Aug;54:82-91. doi: 10.1016/j.humpath.2016.03.006. Epub 2016 Apr 8.

38.

Oncogenic Role of Fusion-circRNAs Derived from Cancer-Associated Chromosomal Translocations.

Guarnerio J, Bezzi M, Jeong JC, Paffenholz SV, Berry K, Naldini MM, Lo-Coco F, Tay Y, Beck AH, Pandolfi PP.

Cell. 2016 Apr 7;165(2):289-302. doi: 10.1016/j.cell.2016.03.020. Epub 2016 Mar 31. Erratum in: Cell. 2016 Aug 11;166(4):1055-1056.

39.

Healthy dietary patterns and risk of breast cancer by molecular subtype.

Hirko KA, Willett WC, Hankinson SE, Rosner BA, Beck AH, Tamimi RM, Eliassen AH.

Breast Cancer Res Treat. 2016 Feb;155(3):579-88. doi: 10.1007/s10549-016-3706-2. Epub 2016 Feb 12.

40.

Systematic Analysis of Sex-Linked Molecular Alterations and Therapies in Cancer.

Ma J, Malladi S, Beck AH.

Sci Rep. 2016 Jan 12;6:19119. doi: 10.1038/srep19119.

41.

Reproductive risk factors in relation to molecular subtypes of breast cancer: Results from the nurses' health studies.

Sisti JS, Collins LC, Beck AH, Tamimi RM, Rosner BA, Eliassen AH.

Int J Cancer. 2016 May 15;138(10):2346-56. doi: 10.1002/ijc.29968. Epub 2016 Feb 8.

42.

PharmacoGx: an R package for analysis of large pharmacogenomic datasets.

Smirnov P, Safikhani Z, El-Hachem N, Wang D, She A, Olsen C, Freeman M, Selby H, Gendoo DM, Grossmann P, Beck AH, Aerts HJ, Lupien M, Goldenberg A, Haibe-Kains B.

Bioinformatics. 2016 Apr 15;32(8):1244-6. doi: 10.1093/bioinformatics/btv723. Epub 2015 Dec 9.

PMID:
26656004
43.

EMDomics: a robust and powerful method for the identification of genes differentially expressed between heterogeneous classes.

Nabavi S, Schmolze D, Maitituoheti M, Malladi S, Beck AH.

Bioinformatics. 2016 Feb 15;32(4):533-41. doi: 10.1093/bioinformatics/btv634. Epub 2015 Oct 29.

44.

Comprehensive Molecular Portraits of Invasive Lobular Breast Cancer.

Ciriello G, Gatza ML, Beck AH, Wilkerson MD, Rhie SK, Pastore A, Zhang H, McLellan M, Yau C, Kandoth C, Bowlby R, Shen H, Hayat S, Fieldhouse R, Lester SC, Tse GM, Factor RE, Collins LC, Allison KH, Chen YY, Jensen K, Johnson NB, Oesterreich S, Mills GB, Cherniack AD, Robertson G, Benz C, Sander C, Laird PW, Hoadley KA, King TA; TCGA Research Network, Perou CM.

Cell. 2015 Oct 8;163(2):506-19. doi: 10.1016/j.cell.2015.09.033.

45.

Alcohol Consumption and Risk of Breast Cancer by Tumor Receptor Expression.

Wang J, Zhang X, Beck AH, Collins LC, Chen WY, Tamimi RM, Hazra A, Brown M, Rosner B, Hankinson SE.

Horm Cancer. 2015 Dec;6(5-6):237-46. doi: 10.1007/s12672-015-0235-0. Epub 2015 Sep 18.

46.

Alcohol consumption and risk of breast cancer by molecular subtype: Prospective analysis of the nurses' health study after 26 years of follow-up.

Hirko KA, Chen WY, Willett WC, Rosner BA, Hankinson SE, Beck AH, Tamimi RM, Eliassen AH.

Int J Cancer. 2016 Mar 1;138(5):1094-101. doi: 10.1002/ijc.29861. Epub 2015 Oct 5.

47.

Corrigendum: genome-wide association study identifies multiple loci associated with both mammographic density and breast cancer risk.

Lindström S, Thompson DJ, Paterson AD, Li J, Gierach GL, Scott C, Stone J, Douglas JA, Dos-Santos-Silva I, Fernandez-Navarro P, Verghase J, Smith P, Brown J, Luben R, Wareham NJ, Loos RJ, Heit JA, Pankratz VS, Norman A, Goode EL, Cunningham JM, deAndrade M, Vierkant RA, Czene K, Fasching PA, Baglietto L, Southey MC, Giles GG, Shah KP, Chan HP, Helvie MA, Beck AH, Knoblauch NW, Hazra A, Hunter DJ, Kraft P, Pollan M, Figueroa JD, Couch FJ, Hopper JL, Hall P, Easton DF, Boyd NF, Vachon CM, Tamimi RM.

Nat Commun. 2015 Sep 9;6:8358. doi: 10.1038/ncomms9358. No abstract available.

PMID:
26349435
48.

SPOP Promotes Ubiquitination and Degradation of the ERG Oncoprotein to Suppress Prostate Cancer Progression.

Gan W, Dai X, Lunardi A, Li Z, Inuzuka H, Liu P, Varmeh S, Zhang J, Cheng L, Sun Y, Asara JM, Beck AH, Huang J, Pandolfi PP, Wei W.

Mol Cell. 2015 Sep 17;59(6):917-30. doi: 10.1016/j.molcel.2015.07.026. Epub 2015 Sep 3.

49.

Postmenopausal mammographic breast density and subsequent breast cancer risk according to selected tissue markers.

Yaghjyan L, Pettersson A, Colditz GA, Collins LC, Schnitt SJ, Beck AH, Rosner B, Vachon C, Tamimi RM.

Br J Cancer. 2015 Sep 29;113(7):1104-13. doi: 10.1038/bjc.2015.315. Epub 2015 Sep 3.

50.

Chromosomal copy number alterations for associations of ductal carcinoma in situ with invasive breast cancer.

Afghahi A, Forgó E, Mitani AA, Desai M, Varma S, Seto T, Rigdon J, Jensen KC, Troxell ML, Gomez SL, Das AK, Beck AH, Kurian AW, West RB.

Breast Cancer Res. 2015 Aug 13;17:108. doi: 10.1186/s13058-015-0623-y.

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