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Article ; Online: Prediction of p

Lu, Yipin / Anand, Shankara / Shirley, William / Gedeck, Peter / Kelley, Brian P / Skolnik, Suzanne / Rodde, Stephane / Nguyen, Mai / Lindvall, Mika / Jia, Weiping

Journal of chemical information and modeling

2019 Volume 59, Issue 11, Page(s) 4706–4719

Abstract: The acid-base dissociation constant, p ...

Abstract	The acid-base dissociation constant, p
MeSH term(s)	Acids/chemistry ; Algorithms ; Amines/chemistry ; Hydrogen-Ion Concentration ; Machine Learning ; Models, Chemical
Chemical Substances	Acids ; Amines
Language	English
Publishing date	2019-11-05
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	190019-5
ISSN	1549-960X ; 0095-2338
ISSN (online)	1549-960X
ISSN	0095-2338
DOI	10.1021/acs.jcim.9b00498
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Article ; Online: Molecular Insights into the Mechanism of Modulatory Effects of Proton Pump Inhibitors on P-glycoprotein Mediated Drug Transport of Palbociclib and Ribociclib.

Desai, Mrunal Pradeep / Harish Patil, Prajakta / Vullendula, Sai Krishna Anand / Birangal, Sumit / Shenoy, G Gautham / Rao, Mahadev / Dengale, Swapnil Jayant / Bhat, Krishnamurthy / Channabasavaiah, Jagadish Puralae

Current drug metabolism

2023 Volume 24, Issue 6, Page(s) 458–465

Abstract: Background: Palbociclib and ribociclib are substrates of efflux transporter P-glycoprotein ... administered with them are known to show inhibitory effect on P-glycoprotein.: Objective ... Therefore, this study aims to investigate the role of proton pump inhibitors in inhibition of P-glycoprotein mediated ...

Abstract	Background: Palbociclib and ribociclib are substrates of efflux transporter P-glycoprotein which plays a key role in absorption and transport of these drugs. Proton pump inhibitors, when co-administered with them are known to show inhibitory effect on P-glycoprotein. Objective: Therefore, this study aims to investigate the role of proton pump inhibitors in inhibition of P-glycoprotein mediated efflux of palbociclib and ribociclib. Method: A combined approach of molecular docking and Results: Molecular docking studies revealed that omeprazole, rabeprazole and pantoprazole bound to the ATP site of nucleotide binding domain with binding energies of -27.53, -29.56 and -38.44 Kcal/mol respectively. In Conclusion: The experimental evidence presented highlights the fact that proton pump inhibitors have potential to inhibit P-glycoprotein, giving rise to drug interactions with palbociclib and ribociclib. Hence, monitoring is required while proton pump inhibitors and cyclin-dependent kinase inhibitors are being co-administered to avoid adverse events.
Language	English
Publishing date	2023-08-14
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	2064815-7
ISSN	1875-5453 ; 1389-2002
ISSN (online)	1875-5453
ISSN	1389-2002
DOI	10.2174/1389200224666230815122312
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Article ; Online: Response to: Letter from P. Gillard and B. Benninghoff.

Rathi, Niraj / Desai, Sajjad / Kawade, Anand / Venkatramanan, Padmasani / Kundu, Ritabrata / Lalwani, Sanjay K / Dubey, A P / Venkateswara Rao, J / Narayanappa, D / Ghildiyal, Radha / Gogtay, Nithya J / Venugopal, P / Palkar, Sonali / Munshi, Renuka / Kang, Gagandeep / Babji, Sudhir / Bavdekar, Ashish / Juvekar, Sanjay / Ganguly, Nupur /

Niyogi, Prabal / Uttam, Kheya Ghosh / Rajani, H S / Kondekar, Alpana / Kumbhar, Dipti / Mohanlal, Smilu / Agarwal, Mukesh C / Shetty, Parvan / Antony, Kalpana / Gunale, Bhagwat / Dharmadhikari, Abhijeet / Tang, Yuxiao / Kulkarni, Prasad S / Flores, Jorge

Vaccine

2019 Volume 37, Issue 23, Page(s) 2991–2992

MeSH term(s)	Animals ; Asian Continental Ancestry Group ; Cattle ; Humans ; Infant ; Research Design ; Rotavirus ; Vaccination
Language	English
Publishing date	2019-05-09
Publishing country	Netherlands
Document type	Letter ; Comment
ZDB-ID	605674-x
ISSN	1873-2518 ; 0264-410X
ISSN (online)	1873-2518
ISSN	0264-410X
DOI	10.1016/j.vaccine.2019.04.002
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Article ; Online: Peripheral ulcerative keratitis in children owing to P-ANCA-associated vasculitis.

Mahendradas, Padmamalini / Galiyugavaradhan, Sugaranjai / Shivanna, Yathish / Kumar, Sharath / Jois, Ramesh / Rao, Anand / Shetty, Rohit

Canadian journal of ophthalmology. Journal canadien d'ophtalmologie

2020 Volume 55, Issue 5, Page(s) e175–e178

MeSH term(s)	Anti-Neutrophil Cytoplasmic Antibody-Associated Vasculitis ; Antibodies, Antineutrophil Cytoplasmic ; Child ; Corneal Ulcer/diagnosis ; Corneal Ulcer/drug therapy ; Humans ; Peroxidase
Chemical Substances	Antibodies, Antineutrophil Cytoplasmic ; Peroxidase (EC 1.11.1.7)
Language	English
Publishing date	2020-05-25
Publishing country	England
Document type	Letter
ZDB-ID	80091-0
ISSN	1715-3360 ; 0008-4182
ISSN (online)	1715-3360
ISSN	0008-4182
DOI	10.1016/j.jcjo.2020.04.012
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Article ; Online: PAK4 inhibition significantly potentiates Gemcitabine activity in PDAC cells via inhibition of Wnt/β-catenin, p-ERK/MAPK and p-AKT/PI3K pathways.

Samant, Charudatt / Kale, Ramesh / Bokare, Anand / Verma, Mahip / Pai, K Sreedhara Ranganath / Bhonde, Mandar

Biochemistry and biophysics reports

2023 Volume 35, Page(s) 101544

Abstract: ... further inhibited levels of phosphorylated ERK (p-ERK); Gemcitabine-induced phosphorylated AKT (p-AKT ... phosphorylated and total c-Myc. These results suggest possible role of β-catenin, p-ERK and p-AKT, key effector ...

Abstract	Pancreatic Ductal Adenocarcinoma (PDAC) remains one of the most difficult to treat cancers. Gemcitabine is still the standard of care treatment for PDAC but with modest survival benefit and well reported resistance. Here we explored potential of inhibiting p21 activated kinase 4 (PAK4), a downstream protein of KRAS oncogenic pathway, in combination with Gemcitabine in PDAC cells. PAK4 inhibition by KPT-9274 led to significant potentiation of Gemcitabine activity in PDAC cells, with an increase in apoptosis, DNA damage and cell cycle arrest. At molecular level, PAK4 inhibition dose dependently inhibited Gemcitabine-induced β-catenin, c-JUN and Ribonucleotide Reductase subunit 2 (RRM2) levels. PAK4 inhibition further inhibited levels of phosphorylated ERK (p-ERK); Gemcitabine-induced phosphorylated AKT (p-AKT), phosphorylated and total c-Myc. These results suggest possible role of β-catenin, p-ERK and p-AKT, key effector proteins of Wnt/β-catenin, MAPK and PI3K pathways respectively, in sensitisation of Gemcitabine activity with PAK4 inhibition. Our data unravel probable molecular mechanisms behind combination of PAK4 inhibition with Gemcitabine to counter PDAC, which may be unequivocally proved further with knock down of PAK4. Our findings provide a strong rationale to exploit the combination therapy of Gemcitabine and PAK4 inhibitor for PDAC at pre-clinical and clinical levels.
Language	English
Publishing date	2023-09-09
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	2831046-9
ISSN	2405-5808 ; 2405-5808
ISSN (online)	2405-5808
ISSN	2405-5808
DOI	10.1016/j.bbrep.2023.101544
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Article ; Online: Identification of putative binding interface of PI(3,5)P

Liu, Haoqiu / Peck, Xin Yi / Choong, Yeu Khai / Ng, Woei Shyuan / Engl, Wilfried / Raghuvamsi, Palur Venkata / Zhao, Ziqing Winston / Anand, Ganesh S / Zhou, Yijun / Sivaraman, J / Xu, Qiufang / Wong, Sek-Man

Virology

2022 Volume 570, Page(s) 81–95

Abstract: ... and PI(3,5)P ...

Abstract	Rice black-streaked dwarf virus (RBSDV) is an important reovirus that infects both plants and its transmission vector small brown planthopper, causing severe crop loss. High affinity binding between RBSDV P10 and PI(3,5)P
MeSH term(s)	Animals ; Hemiptera ; Lipids ; Oryza ; Plant Diseases ; Plant Viruses/genetics ; Reoviridae
Chemical Substances	Lipids
Language	English
Publishing date	2022-04-01
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	200425-2
ISSN	1096-0341 ; 0042-6822
ISSN (online)	1096-0341
ISSN	0042-6822
DOI	10.1016/j.virol.2022.03.010
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Article ; Online: Fluorescence Sensing of pH and p-Nitrophenol Using an AIEE Active Pyridoxal Derived Schiff Base.

Patel, Dhvani A / Anand, Thangaraj / Sk, Ashok Kumar / Sahoo, Suban K

Journal of fluorescence

2023 Volume 33, Issue 4, Page(s) 1431–1441

Abstract: An easy-to-prepare aggregation-induced emission enhancement (AIEE) active Schiff base NPY was synthesized by condensing vitamin ... ...

Abstract	An easy-to-prepare aggregation-induced emission enhancement (AIEE) active Schiff base NPY was synthesized by condensing vitamin B
Language	English
Publishing date	2023-02-06
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	2016892-5
ISSN	1573-4994 ; 1053-0509
ISSN (online)	1573-4994
ISSN	1053-0509
DOI	10.1007/s10895-023-03167-6
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Article ; Online: A novel leishmanial copper P-type ATPase plays a vital role in parasite infection and intracellular survival.

Paul, Rupam / Banerjee, Sourav / Sen, Samarpita / Dubey, Pratiksha / Maji, Saptarshi / Bachhawat, Anand K / Datta, Rupak / Gupta, Arnab

The Journal of biological chemistry

2021 Volume 298, Issue 2, Page(s) 101539

Abstract: Copper (Cu) is essential for all life forms; however, in excess, it becomes toxic. Toxic properties of Cu are known to be utilized by host species against various pathogenic invasions. Leishmania, in both free-living and intracellular forms, exhibits ... ...

Abstract	Copper (Cu) is essential for all life forms; however, in excess, it becomes toxic. Toxic properties of Cu are known to be utilized by host species against various pathogenic invasions. Leishmania, in both free-living and intracellular forms, exhibits appreciable tolerance toward Cu stress. While determining the mechanism of Cu-stress evasion employed by Leishmania, we identified and characterized a hitherto unknown Cu-ATPase in Leishmania major and established its role in parasite survival in host macrophages. This novel L. major Cu-ATPase, LmATP7, exhibits homology with its orthologs at multiple motifs. In promastigotes, LmATP7 primarily localized at the plasma membrane. We also show that LmATP7 exhibits Cu-dependent expression patterns and complements Cu transport in a Cu-ATPase-deficient yeast strain. Promastigotes overexpressing LmATP7 exhibited higher survival upon Cu stress, indicating efficacious Cu export compared with Wt and heterozygous LmATP7 knockout parasites. We further explored macrophage-Leishmania interactions with respect to Cu stress. We found that Leishmania infection triggers upregulation of major mammalian Cu exporter, ATP7A, in macrophages, and trafficking of ATP7A from the trans-Golgi network to endolysosomes in macrophages harboring amastigotes. Simultaneously, in Leishmania, we observed a multifold increase in LmATP7 transcripts as the promastigote becomes established in macrophages and morphs to the amastigote form. Finally, overexpressing LmATP7 in parasites increases amastigote survivability within macrophages, whereas knocking it down reduces survivability drastically. Mice injected in their footpads with an LmATP7-overexpressing strain showed significantly larger lesions and higher amastigote loads as compared with controls and knockouts. These data establish the role of LmATP7 in parasite infectivity and intramacrophagic survivability.
MeSH term(s)	Animals ; Copper/metabolism ; Leishmania major/enzymology ; Leishmaniasis/metabolism ; Leishmaniasis/parasitology ; Mammals ; Mice ; P-type ATPases/metabolism
Chemical Substances	Copper (789U1901C5) ; P-type ATPases (EC 3.6.3.-)
Language	English
Publishing date	2021-12-25
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2997-x
ISSN	1083-351X ; 0021-9258
ISSN (online)	1083-351X
ISSN	0021-9258
DOI	10.1016/j.jbc.2021.101539
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Article ; Online: Evenness mediates the global relationship between forest productivity and richness [Correction: Sept. 2023, 111(9), p. 2090]

Hordijk, Iris / Maynard, Daniel S. / Hart, Simon P. / Lidong, Mo / Steege, Hans ter / Liang, Jingjing / de‐Miguel, Sergio / Nabuurs, Gert‐Jan / Reich, Peter B. / Abegg, Meinrad / Adou Yao, C. Yves / Alberti, Giorgio / Almeyda Zambrano, Angelica M. / Alvarado, Braulio V. / Esteban, Alvarez‐Davila / Alvarez‐Loayza, Patricia / Alves, Luciana F. / Ammer, Christian / Antón‐Fernández, Clara /

Araujo‐Murakami, Alejandro / Arroyo, Luzmila / Avitabile, Valerio / Aymard C, Gerardo A. / Baker, Timothy / Bałazy, Radomir / Banki, Olaf / Barroso, Jorcely / Bastian, Meredith L. / Bastin, Jean‐Francois / Birigazzi, Luca / Birnbaum, Philippe / Bitariho, Robert / Boeckx, Pascal / Bongers, Frans / Bouriaud, Olivier / Brancalion, Pedro H. S. / Brandl, Susanne / Brienen, Roel / Broadbent, Eben N. / Bruelheide, Helge / Bussotti, Filippo / Cazzolla Gatti, Roberto / César, Ricardo G. / Cesljar, Goran / Chazdon, Robin / Chen, Han Y. H. / Chisholm, Chelsea / Cienciala, Emil / Clark, Connie J. / Clark, David B. / Colletta, Gabriel / Coomes, David / Cornejo Valverde, Fernando / Corral‐Rivas, Jose J. / Crim, Philip / Cumming, Jonathan / Dayanandan, Selvadurai / de Gasper, André L. / Decuyper, Mathieu / Derroire, Géraldine / DeVries, Ben / Djordjevic, Ilija / Iêda, Amaral / Dourdain, Aurélie / Nestor Laurier, Engone Obiang / Enquist, Brian / Eyre, Teresa / Fandohan, Adandé Belarmain / Fayle, Tom M. / Ferreira, Leandro V. / Feldpausch, Ted R. / Finér, Leena / Fischer, Markus / Fletcher, Christine / Frizzera, Lorenzo / Gamarra, Javier G. P. / Gianelle, Damiano / Glick, Henry B. / Harris, David / Hector, Andrew / Hemp, Andreas / Hengeveld, Geerten / Hérault, Bruno / Herbohn, John / Hillers, Annika / Honorio Coronado, Eurídice N. / Hui, Cang / Cho, Hyunkook / Ibanez, Thomas / Jung, Il Bin / Imai, Nobuo / Jagodziński, Andrzej M. / Jaroszewicz, Bogdan / Johanssen, Vivian / Joly, Carlos A. / Jucker, Tommaso / Karminov, Viktor / Kartawinata, Kuswata / Kearsley, Elizabeth / Kenfack, David / Kennard, Deborah / Kepfer‐Rojas, Sebastian / Keppel, Gunnar / Khan, Mohammed Latif / Killeen, Timothy / Kim, Hyun-Seok / Kitayama, Kanehiro / Köhl, Michael / Korjus, Henn / Kraxner, Florian / Laarmann, Diana / Lang, Mait / Lewis, Simon / Lu, Huicui / Lukina, Natalia / Maitner, Brian / Malhi, Y. / Marcon, Eric / Marimon, Beatriz Schwantes / Marimon‐Junior, Ben Hur / Marshall, Andrew Robert / Martin, Emanuel / Martynenko, Olga / Meave, Jorge A. / Melo‐Cruz, Omar / Mendoza, Casimiro / Merow, Cory / Miścicki, Stanisław / Mendoza, Abel Monteagudo / Moreno, Vanessa / Mukul, Sharif A. / Mundhenk, Philip / Nava‐Miranda, Maria G. / Neill, David / Neldner, Victor / Nevenic, Radovan / Ngugi, Michael / Niklaus, Pascal A. / Oleksyn, J. / Ontikov, Petr / Ortiz‐Malavasi, Edgar / Pan, Yude / Paquette, Alain / Parada‐Gutierrez, Alexander / Parfenova, Elena / Park, Minjee / Parren, Marc / Parthasarathy, Narayanaswamy / Peri, Pablo L. / Pfautsch, Sebastian / Phillips, Oliver L. / Picard, Nicolas / Piedade, Maria Teresa / Piotto, Daniel / Pitman, Nigel C. A. / Polo, Irina / Poorter, L. / Poulsen, Axel Dalberg / Poulsen, John R. / Pretzsch, Hans / Ramirez Arevalo, Freddy / Restrepo‐Correa, Zorayda / Rodeghiero, Mirco / Rolim, Samir / Roopsind, Anand / Rovero, Francesco / Rutishauser, Ervan / Saikia, Purabi / Salas‐Eljatib, Christian / Schall, Peter / Schepaschenko, Dmitry / Scherer‐Lorenzen, Michael / Schmid, Bernhard / Schöngart, Jochen / Searle, Eric B. / Šebeň, Vladimír / Serra‐Diaz, Josep M. / Sheil, Douglas / Shvidenko, Anatoly / Silva‐Espejo, Javier / Silveira, Marcos / Singh, James / Sist, Plinio / Slik, Ferry / Sonké, Bonaventure / Souza, Alexandre F. / Stereńczak, Krzysztof / Svenning, Jens‐Christian / Svoboda, Miroslav / Swanepoel, Ben / Targhetta, Natalia / Tchebakova, Nadja / Thomas, Raquel / Tikhonova, Elena / Umunay, Peter / Usoltsev, Vladimir / Valencia, Renato / Valladares, Fernando / van der Plas, Fons / Tran, Do Van / Van Nuland, Michael E. / Vásquez, Rodolfo / Verbeeck, Hans / Viana, Helder / Vibrans, Alexander C. / Vieira, Simone / Gadow, Klaus von / Wang, Hua‐Feng / Watson, James / Werner, Gijsbert D. A. / Wiser, Susan K. / Wittmann, Florian / Wortel, Verginia / Zagt, Roderick / Zawila‐Niedzwiecki, Tomasz / Zhang, Chunyu / Zhao, Xiuhai / Zhou, Mo / Zhu, Zhi‐Xin / Zo‐Bi, Irie Casimir / Crowther, Thomas W.

Journal of Ecology. 2023 June, v. 111, no. 6, p. 1308-1326

2023 , Page(s) 1308–1326

Abstract: 1. Biodiversity is an important component of natural ecosystems, with higher species richness often correlating with an increase in ecosystem productivity. Yet, this relationship varies substantially across environments, typically becoming less ... ...

Abstract	1. Biodiversity is an important component of natural ecosystems, with higher species richness often correlating with an increase in ecosystem productivity. Yet, this relationship varies substantially across environments, typically becoming less pronounced at high levels of species richness. However, species richness alone cannot reflect all important properties of a community, including community evenness, which may mediate the relationship between biodiversity and productivity. If the evenness of a community correlates negatively with richness across forests globally, then a greater number of species may not always increase overall diversity and productivity of the system. Theoretical work and local empirical studies have shown that the effect of evenness on ecosystem functioning may be especially strong at high richness levels, yet the consistency of this remains untested at a global scale. 2. Here, we used a dataset of forests from across the globe, which includes composition, biomass accumulation and net primary productivity, to explore whether productivity correlates with community evenness and richness in a way that evenness appears to buffer the effect of richness. Specifically, we evaluated whether low levels of evenness in speciose communities correlate with the attenuation of the richness–productivity relationship. 3. We found that tree species richness and evenness are negatively correlated across forests globally, with highly speciose forests typically comprising a few dominant and many rare species. Furthermore, we found that the correlation between diversity and productivity changes with evenness: at low richness, uneven communities are more productive, while at high richness, even communities are more productive. 4. Synthesis. Collectively, these results demonstrate that evenness is an integral component of the relationship between biodiversity and productivity, and that the attenuating effect of richness on forest productivity might be partly explained by low evenness in speciose communities. Productivity generally increases with species richness, until reduced evenness limits the overall increases in community diversity. Our research suggests that evenness is a fundamental component of biodiversity–ecosystem function relationships, and is of critical importance for guiding conservation and sustainable ecosystem management decisions.
Keywords	biomass production ; data collection ; ecosystem management ; ecosystems ; forests ; net primary productivity ; rare species ; species richness ; trees
Language	English
Dates of publication	2023-06
Size	p. 1308-1326
Publishing place	John Wiley & Sons, Ltd
Document type	Article ; Online
Note	JOURNAL ARTICLE
ZDB-ID	3023-5
ISSN	0022-0477
ISSN	0022-0477
DOI	10.1111/1365-2745.14098
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Article ; Online: Delineating the Smith-Kingsmore syndrome phenotype: Investigation of 16 patients with the MTOR c.5395G > A p.(Glu1799Lys) missense variant.

Poole, Rebecca L / Curry, Philippa D K / Marcinkute, Ruta / Brewer, Carole / Coman, David / Hobson, Emma / Johnson, Diana / Lynch, Sally Ann / Saggar, Anand / Searle, Claire / Scurr, Ingrid / Turnpenny, Peter D / Vasudevan, Pradeep / Tatton-Brown, Katrina

American journal of medical genetics. Part A

2021 Volume 185, Issue 8, Page(s) 2445–2454

Abstract: ... patients with MTOR missense variants are published, including 14 (47%) with the MTOR c.5395G>A p ... of the SKS phenotype through the investigation of 16 further patients with the MTOR c.5395G>A p.(Glu1799Lys ...

Abstract	Smith-Kingsmore Syndrome (SKS) is a rare genetic syndrome associated with megalencephaly, a variable intellectual disability, autism spectrum disorder, and MTOR gain of function variants. Only 30 patients with MTOR missense variants are published, including 14 (47%) with the MTOR c.5395G>A p.(Glu1799Lys) variant. Limited phenotypic data impacts the quality of information delivered to families and the robustness of interpretation of novel MTOR missense variation. This study aims to improve our understanding of the SKS phenotype through the investigation of 16 further patients with the MTOR c.5395G>A p.(Glu1799Lys) variant. Through the careful phenotypic evaluation of these 16 patients and integration with data from 14 previously reported patients, we have defined major (100% patients) and frequent (>15%) SKS clinical characteristics and, using these data, proposed guidance for evidence-based management. In addition, in the absence of functional studies, we suggest that the combination of the SKS major clinical features of megalencephaly (where the head circumference is at least 3SD) and an intellectual disability with a de novo MTOR missense variant (absent from population databases) should be considered diagnostic for SKS.
MeSH term(s)	Adolescent ; Alleles ; Amino Acid Substitution ; Autism Spectrum Disorder/diagnosis ; Autism Spectrum Disorder/genetics ; Child ; Child, Preschool ; Facies ; Female ; Genetic Association Studies ; Genetic Loci ; Humans ; Intellectual Disability/diagnosis ; Intellectual Disability/genetics ; Male ; Megalencephaly/diagnosis ; Megalencephaly/genetics ; Mutation, Missense ; Phenotype ; Syndrome ; TOR Serine-Threonine Kinases/genetics
Chemical Substances	MTOR protein, human (EC 2.7.1.1) ; TOR Serine-Threonine Kinases (EC 2.7.11.1)
Language	English
Publishing date	2021-05-25
Publishing country	United States
Document type	Case Reports ; Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	2108614-X
ISSN	1552-4833 ; 0148-7299 ; 1552-4825
ISSN (online)	1552-4833
ISSN	0148-7299 ; 1552-4825
DOI	10.1002/ajmg.a.62350
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