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Items: 1 to 50 of 135

1.

Computational pathology definitions, best practices, and recommendations for regulatory guidance: a white paper from the Digital Pathology Association.

Abels E, Pantanowitz L, Aeffner F, Zarella MD, van der Laak J, Bui MM, Vemuri VN, Parwani AV, Gibbs J, Agosto-Arroyo E, Beck AH, Kozlowski C.

J Pathol. 2019 Nov;249(3):286-294. doi: 10.1002/path.5331. Epub 2019 Sep 3. Review.

2.

The Combined Effect of FGFR Inhibition and PD-1 Blockade Promotes Tumor-Intrinsic Induction of Antitumor Immunity.

Palakurthi S, Kuraguchi M, Zacharek SJ, Zudaire E, Huang W, Bonal DM, Liu J, Dhaneshwar A, DePeaux K, Gowaski MR, Bailey D, Regan SN, Ivanova E, Ferrante C, English JM, Khosla A, Beck AH, Rytlewski JA, Sanders C, Laquerre S, Bittinger MA, Kirschmeier PT, Packman K, Janne PA, Moy C, Wong KK, Verona RI, Lorenzi MV.

Cancer Immunol Res. 2019 Sep;7(9):1457-1471. doi: 10.1158/2326-6066.CIR-18-0595. Epub 2019 Jul 22.

PMID:
31331945
3.

EN1 Is a Transcriptional Dependency in Triple-Negative Breast Cancer Associated with Brain Metastasis.

Peluffo G, Subedee A, Harper NW, Kingston N, Jovanović B, Flores F, Stevens LE, Beca F, Trinh A, Chilamakuri CSR, Papachristou EK, Murphy K, Su Y, Marusyk A, D'Santos CS, Rueda OM, Beck AH, Caldas C, Carroll JS, Polyak K.

Cancer Res. 2019 Aug 15;79(16):4173-4183. doi: 10.1158/0008-5472.CAN-18-3264. Epub 2019 Jun 25.

PMID:
31239270
4.

Predicting breast tumor proliferation from whole-slide images: The TUPAC16 challenge.

Veta M, Heng YJ, Stathonikos N, Bejnordi BE, Beca F, Wollmann T, Rohr K, Shah MA, Wang D, Rousson M, Hedlund M, Tellez D, Ciompi F, Zerhouni E, Lanyi D, Viana M, Kovalev V, Liauchuk V, Phoulady HA, Qaiser T, Graham S, Rajpoot N, Sjöblom E, Molin J, Paeng K, Hwang S, Park S, Jia Z, Chang EI, Xu Y, Beck AH, van Diest PJ, Pluim JPW.

Med Image Anal. 2019 May;54:111-121. doi: 10.1016/j.media.2019.02.012. Epub 2019 Feb 27. Erratum in: Med Image Anal. 2019 Aug;56:43.

PMID:
30861443
5.

SPOP Promotes Nanog Destruction to Suppress Stem Cell Traits and Prostate Cancer Progression.

Zhang J, Chen M, Zhu Y, Dai X, Dang F, Ren J, Ren S, Shulga YV, Beca F, Gan W, Wu F, Lin YM, Zhou X, DeCaprio JA, Beck AH, Lu KP, Huang J, Zhao C, Sun Y, Gao X, Pandolfi PP, Wei W.

Dev Cell. 2019 Feb 11;48(3):329-344.e5. doi: 10.1016/j.devcel.2018.11.035. Epub 2018 Dec 27.

6.

Androgen Receptor Expression and Breast Cancer Survival: Results From the Nurses' Health Studies.

Kensler KH, Poole EM, Heng YJ, Collins LC, Glass B, Beck AH, Hazra A, Rosner BA, Eliassen AH, Hankinson SE, Winer EP, Brown M, Tamimi RM.

J Natl Cancer Inst. 2018 Nov 15. doi: 10.1093/jnci/djy173. [Epub ahead of print]

7.

Molecular mechanisms linking high body mass index to breast cancer etiology in post-menopausal breast tumor and tumor-adjacent tissues.

Heng YJ, Wang J, Ahearn TU, Brown SB, Zhang X, Ambrosone CB, de Andrade VP, Brufsky AM, Couch FJ, King TA, Modugno F, Vachon CM, DuPre NC, Garcia-Closas M, Troester MA, Hunter DJ, Eliassen AH, Tamimi RM, Hankinson SE, Beck AH.

Breast Cancer Res Treat. 2019 Feb;173(3):667-677. doi: 10.1007/s10549-018-5034-1. Epub 2018 Nov 1.

PMID:
30387004
8.

Androgen receptor expression in normal breast tissue and subsequent breast cancer risk.

Kensler KH, Beca F, Baker GM, Heng YJ, Beck AH, Schnitt SJ, Hazra A, Rosner BA, Eliassen AH, Hankinson SE, Brown M, Tamimi RM.

NPJ Breast Cancer. 2018 Sep 21;4:33. doi: 10.1038/s41523-018-0085-3. eCollection 2018.

9.

Using deep convolutional neural networks to identify and classify tumor-associated stroma in diagnostic breast biopsies.

Ehteshami Bejnordi B, Mullooly M, Pfeiffer RM, Fan S, Vacek PM, Weaver DL, Herschorn S, Brinton LA, van Ginneken B, Karssemeijer N, Beck AH, Gierach GL, van der Laak JAWM, Sherman ME.

Mod Pathol. 2018 Oct;31(10):1502-1512. doi: 10.1038/s41379-018-0073-z. Epub 2018 Jun 13.

10.

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.

11.

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.

12.

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.

13.

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.

14.

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.

15.

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.

16.

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.

17.

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
18.

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.

19.

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.

20.

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
21.

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
22.

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-Ripoll 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.

23.

DEEP LEARNING-BASED ASSESSMENT OF TUMOR-ASSOCIATED STROMA FOR DIAGNOSING BREAST CANCER IN HISTOPATHOLOGY IMAGES.

Bejnordi BE, Lin J, Glass B, Mullooly M, Gierach GL, Sherman ME, Karssemeijer N, van der Laak J, Beck AH.

Proc IEEE Int Symp Biomed Imaging. 2017 Apr;2017:929-932. doi: 10.1109/ISBI.2017.7950668. Epub 2017 Jun 19.

24.

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.

25.

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.

26.

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
27.

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.

28.

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.

29.

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.

30.

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.

31.

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.

32.

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.

33.

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
34.

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
35.

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
36.

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.

37.

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.

38.

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.

39.

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.

40.

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.

41.

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.

42.

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.

43.

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.

44.

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.

45.

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.

46.

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.

47.

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.

48.

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.

49.

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.

50.

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.

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