RNA Detection

G

Gel electrophoresis
agarose gel electrophoresis.........................32, 38, 53,
92, 187, 189, 194, 456, 460
2D PAGE gel electrophoresis.................................432
urea PAGE electrophoresis.....................................432
G–I tailing of RNA ..............................................457, 463
Gradient fractionation................................421, 422, 425

H

Halo-tag................................................................374, 377
Harringtonine.................................. 88, 91, 93,388, 393
High-throughput sequencing................................ 49, 59,
60, 452, 455, 466, 468
Histogenes....................................97,101, 102, 106, 108
Hybridization chain reaction (HCR)........................6, 10,
187–196, 209
Hybridizations..........................................5, 35,129, 146,
165, 178, 200, 209, 232, 243, 260, 273, 316,
321, 452, 475

I

Image registration.......................................113, 114, 168
ImageJ................................................148, 166, 169, 220,
240, 254, 298, 333, 396
Immunoelectron microscopy (IEM)..................178, 183
Immunohistochemistry,seeAntibody staining
Immunoprecipitation........................................15, 51, 88,
90, 91, 420, 421, 423, 425, 428–430, 432, 438
Individual nucleotide resolution UV
cross-linking and immunoprecipitation
(iCLIP)............................................428, 431, 432,
434, 436–439, 441, 442, 444, 445, 447–452
In situ hybridization (ISH).......................................5, 18,
112, 127, 129, 132, 133, 143, 177, 225, 260
In situ hybridization (ISH)–Immuno-electron
microscopy (IEM)...................................177, 178,
180, 181, 184, 185
In vivo electroporation..............262, 264, 266, 268, 269
In vivo hybridization.............................................. 10, 473
Interactomes.....................................................15, 16, 405

K

KNIME.......................................................144, 148, 149,
152, 153, 160, 376, 380, 381, 383

L

Larval neuromuscular junction....................................164
Laser capture microscopy/microdissection
(LCM)................................................96–100, 103,
105, 106, 108–110

LCM-Seq.......................................................96–100, 103,

105, 106, 108–110

Live-cell RNA detection

of endogenous RNA................................................. 12

LiveFISH.......................................................................259

Locked nucleic acid (LNA).................................. 99,198,

210–213, 215, 219, 223, 228, 274, 278, 284

M

m^6 A sequencing,seeN^6 -methyladenosine (m^6 A)

sequencing

Mass spectrometry (MS)....................................... 16,278,

405–407, 410, 412–414, 416, 424, 474, 475,

478, 483–485, 487

Methylome ...................................................49–51, 53–57

Microinjection.....................................................245, 251,

252, 254, 256, 273, 274, 276, 280–283, 285,

286, 351

Microporation.....................................................233–236,

238–240, 245, 247, 249, 253–256

MicroRNA (miRNA)........................................10, 55, 59,

79, 197–201, 203–207, 269, 451

Microscopy-photon microscopy

brightfield microscopy ..........................206, 217, 354

point scanning confocal microscopy......................402

spinning disc confocal microscopy.........................402

TIRF microscopy....................................................402

wide-field epifluorescence microscopy..................148,

152, 220, 227, 294

Molecular beacon (MB) ....................................... 10,231,

243–250, 252, 254–256, 273, 305

Mouse

brain...........................................5,106, 260, 264–266

spinal cord......................................................101, 106

mRNA genotyping...............................................211, 221

mRNA localization......................................177, 303, 319

mRNA transport .............................................11, 13,320,

325, 327–329, 349

MS2-MCP system................................................284, 355

N

N^6 -methyladenosine (m^6 A) sequencing......................... 2,

30, 49–51, 53–57

Nascent mRNA.................................................6, 13,136,

141, 349, 389, 393

Nascent polypeptide............................................386, 387,

389, 393

Neurons.............................................................2, 4, 9, 11,

14, 16, 17, 85–93, 95, 102, 110, 164, 231, 389,

419, 423

Non coding RNA

long non-coding RNA (lncRNA)................... 16, 473

490
RNA DETECTION:METHODS ANDPROTOCOLS
Index