RNA In Situ Hybridization Core

This core performs non-radioactive, RNA in situ hybridization (ISH) on tissue sections. A unique high-throughput technology developed by the core (Yaylaoglu MB, Titmus A, Visel A, Alvarez-Bolado G, Thaller C, Eichele G. Dev Dyn. 2005 Oct;234(2):371-86) is used to determine gene expression patterns with an emphasis on tissues from rodent experimental models.

The core provides a full range of services including: collecting animal tissue specimens, preparation of frozen and paraffin sections, preparation of RNA probes from customer templates, conducting high-throughput ISH, and documentation and quantification of expression patterns by microscopy. We also do X-gal and Cresyl Violet staining on sections. For human studies, customers must provide tissue sections.

All users: We ask that you please acknowledge the support given to your research with the following statement: “This project was supported by the RNA In Situ Hybridization Core at Baylor College of Medicine, which is, in part, supported by a Shared Instrumentation grant from the NIH (S10OD016167).”

IDDRC members: We ask that all Intellectual and Developmental Disease Research Center users acknowledge the core as follows:

"The project described was supported in part by the RNA In Situ Hybridization Core facility at Baylor College of Medicine, which is supported by a Shared Instrumentation grant from the NIH (S10OD016167) and the NIH IDDRC grant U54HD083092 from the Eunice Kennedy Shriver National Institute Of Child Health & Human Development. The content is solely the responsibility of the authors and does not necessarily represent the official views of the Eunice Kennedy Shriver National Institute Of Child Health & Human Development or the National Institutes of Health.”

DDC members: We ask all Texas Medical Center Digestive Diseases Center users that used the core prior to March 2022 to acknowledge the core as follows:

"The project described was supported in part by the RNA In Situ Hybridization Core facility at Baylor College of Medicine, which is supported by a Shared Instrumentation grant from the NIH (S10OD016167) and the PHS grant DK056338.”

A copy of your publication would also be greatly appreciated.

Alevy J, Burger CA, Albrecht NE, Jiang D, Samuel MA. Progressive myoclonic epilepsy-associated gene Kctd7 regulates retinal neurovascular patterning and function. Neurochem Int. 2019, 129: 104486. PMID: 31175897, PMCID: PMC6702070

Candelaria NR, Padmanabhan A, Stossi F, Ljungberg MC, Shelly KE, Pew BK, Solis M, Rossano AM, McAllister JM, Wu S, Richards JS. VCAM1 is induced in ovarian theca and stromal cells in a mouse model of androgen excess. Endocrinology. 2019, 160: 1377-1393. PMID: 30951142, PMCID: PMC6507908

De Giorgi M, Li A, Hurley A, Barzi M, Doerfler AM, Cherayil NA, Smith HE, Brown JD, Lin CY, Bissig KD, Bao G, Lagor WR. Targeting the Apoa1 locus for liver-directed gene therapy. Mol Ther Methods Clin Dev. 2021 Apr 24;21:656-669. doi: 10.1016/j.omtm.2021.04.011. PMID: 34141821; PMCID: PMC8166646.

Han Y, Xia G, He Y, He Y, Farias M, Xu Y, Wu Q. A hindbrain dopaminergic neural circuit prevents weight gain by reinforcing food satiation. Sci Adv. 2021 May 26;7(22):eabf8719. doi: 10.1126/sciadv.abf8719. PMID: 34039606

Hanson E, Swanson J, Arenkiel BR. GABAergic input from the basal forebrain promotes the survival of adult-born neurons in the mouse olfactory bulb. Front Neural Circuits. 2020 Apr 23;14:17. doi: 10.3389/fncir.2020.00017. PMID: 32390805; PMCID: PMC7190813.

Hunt PJ, Kochukov M, Pekarek BT, Belfort BDW, Romero JM, Swanson JL, Arenkiel BR. Co-transmitting neurons in the lateral septal nucleus exhibit features of neurotransmitter switching. IBRO Neurosci Rep. 2022 May 12;12:390-398. doi: 10.1016/j.ibneur.2022.05.003. PMID: 35601692; PMCID: PMC9121281.

Jagirdar R, Fu CH, Park J, Corbett BF, Seibt FM, Beierlein M, Chin J. Restoring activity in the thalamic reticular nucleus improves sleep architecture and reduces Aβ accumulation in mice. Sci Transl Med. 2021 Nov 3;13(618):eabh4284. doi: 10.1126/scitranslmed.abh4284. Epub 2021 Nov 3. PMID: 34731016; PMCID: PMC8985235.

Jiang D, Burger CA, Casasent AK, Albrecht NE, Li F, Samuel MA. Spatiotemporal gene expression patterns reveal molecular relatedness between retinal laminae. J Comp Neurol. 2020 Apr 1;528(5):729-755. doi: 10.1002/cne.24784. PMID: 31609468; PMCID: PMC7147688.

Lavery LA, Ure K, Wan YW, Luo C, Trostle AJ, Wang W, Jin H, Lopez J, Lucero J, Durham MA, Castanon R, Nery JR, Liu Z, Goodell M, Ecker JR, Behrens MM, Zoghbi HY. Losing Dnmt3a dependent methylation in inhibitory neurons impairs neural function by a mechanism impacting Rett syndrome. Elife. 2020 Mar 11;9:e52981. doi: 10.7554/eLife.52981. PMID: 32159514; PMCID: PMC7065908.

Li Q, Han Z, Singh N, Terré B, Fame RM, Arif U, Page TD, Zahran T, Abdeltawab A, Huang Y, Cao P, Wang J, Lu H, Lidov HGW, Surendran K, Wu L, Virga JQ, Zhao YT, Schüller U, Wechsler-Reya RJ, Lehtinen MK, Roy S, Liu Z, Stracker TH, Zhao H. Disruption of GMNC-MCIDAS multiciliogenesis program is critical in choroid plexus carcinoma development. Cell Death Differ. 2022 Mar 23. doi: 10.1038/s41418-022-00950-z. Epub ahead of print. PMID: 35322202.

Liang SQ, Walkey CJ, Martinez AE, Su Q, Dickinson ME, Wang D, Lagor WR, Heaney JD, Gao G, Xue W. AAV5 delivery of CRISPR-Cas9 supports effective genome editing in mouse lung airway. Mol Ther. 2022 Jan 5;30(1):238-243. doi: 10.1016/j.ymthe.2021.10.023. Epub 2021 Oct 23. PMID: 34695545; PMCID: PMC8753568.

Ljungberg, MC, Sadi, M, Wang, Y, Aronow, BJ, Xu, Y, Kao, RJ, Liu, Y, Gaddis, N, Ardini-Poleske, ME, Umrod, T, Ambalavanan, N, Nicola, T, Kaminski, N, Ahangari, F, Sontag, R, Corley, RA, Ansong, C, Carson, JP. Spatial distribution of marker gene activity in the mouse lung during alveolarization. Data in brief. 2018; 22, 365-372. PMCID: PMC6307338

Lotfi P, Tse DY, Di Ronza A, Seymore ML, Martano G, Cooper JD, Pereira FA, Passafaro M, Wu SM, Sardiello M. Trehalose reduces retinal degeneration, neuroinflammation and storage burden caused by lysosomal hydrolase deficiency. Autophagy. 2018;14(8):1419-34. PMCID: PMC6103706.

Meng X, McGraw CM, Wang W, Jing J, Yeh SY, Wang L, Lopez J, Brown AM, Lin T, Chen W, Xue M, Sillitoe RV, Jiang X, Zoghbi HY. 2019. Neurexophilin4 is a selectively expressed α-neurexin ligand that modulates specific cerebellar synapses and motor functions. Elife. 2019, 8: pii: e46773. doi: 10.7554/eLife.46773. PMCID: PMC6663662.

Nitschke L, Coffin SL, Xhako E, El-Najjar DB, Orengo JP, Alcala E, Dai Y, Wan YW, Liu Z, Orr HT, Zoghbi HY. Modulation of ATXN1 S776 phosphorylation reveals the importance of allele-specific targeting in SCA1. JCI Insight. 2021 Feb 8;6(3):e144955. doi: 10.1172/jci.insight.144955. PMID: 33554954; PMCID: PMC7934855.

Orengo JP, Nitschke L, van der Heijden ME, Ciaburri NA, Orr HT, Zoghbi HY. Reduction of mutant ATXN1 rescues premature death in a conditional SCA1 mouse model. JCI Insight. 2022 Apr 22;7(8):e154442. PMID: 35290244

Ren YA, Monkkonen T, Lewis MT, Bernard DJ, Christian HC, Jorgez CJ, Moore JA, Landua JD, Chin HM, Chen W, Singh S, Kim IS, Zhang XH, Xia Y, Phillips KJ, MacKay H, Waterland RA, Ljungberg MC, Saha PK, Hartig SM, Coll TF, Richards JS. S100a4-Cre-mediated deletion of Patched1 causes hypogonadotropic hypogonadism: role of pituitary hematopoietic cells in endocrine regulation. JCI Insight. 2019, 5. PMID: 31265437

Stoddard EG, Volk RF, Carson JP, Ljungberg CM, Murphree TA, Smith JN, Sadler NC, Shukla AK, Ansong C, Wright AT. Multifunctional activity-based protein profiling of the developing lung. J. Prot. Res. 2018; 17: 2623-2634. PMID:29972024

van der Heijden ME, Zoghbi HY. Loss of Atoh1 from neurons regulating hypoxic and hypercapnic chemoresponses causes neonatal respiratory failure in mice. eLife. 2018; Jul 4;7. PMCID: PMC6067883.

Zhang W, Bado IL, Hu J, Wan YW, Wu L, Wang H, Gao Y, Jeong HH, Xu Z, Hao X, Lege BM, Al-Ouran R, Li L, Li J, Yu L, Singh S, Lo HC, Niu M, Liu J, Jiang W, Li Y, Wong STC, Cheng C, Liu Z, Zhang XH. The bone microenvironment invigorates metastatic seeds for further dissemination. Cell. 2021 Apr 29;184(9):2471-2486.e20. doi: 10.1016/j.cell.2021.03.011. Epub 2021 Apr 19. PMID: 33878291; PMCID: PMC8087656.

Zhou W, He Y, Rehman AU, Kong Y, Hong S, Ding G, Yalamanchili HK, Wan YW, Paul B, Wang C, Gong Y, Zhou W, Liu H, Dean J, Scalais E, O'Driscoll M, Morton JEV; DDD study, Hou X, Wu Q, Tong Q, Liu Z, Liu P, Xu Y, Sun Z. Loss of function of NCOR1 and NCOR2 impairs memory through a novel GABAergic hypothalamus-CA3 projection. Nat Neurosci. 2019, 22: 205-217. PMID: 30664766, PMCID: PMC6361549