Abstract: A method of forming alignment marks includes providing a III-V compound substrate having a device region and an alignment mark region, forming a hardmask layer having a first set of openings on the alignment mark region exposing a first surface portion of the III-V compound substrate and a second set of openings on the device region exposing a second surface portion of the III-V compound substrate, etching the exposed surface of the III-V compound substrate using the hardmask layer as a mask to form a plurality of trenches, and epitaxially regrowing a semiconductor layer in the trenches to form the alignment marks extending to a predetermined height over the processing surface of the III-V compound substrate.

Abstract: The present invention includes a method and kit for single-primer tiled sequencing comprising: reverse transcribing a target nucleic acid with multiple tiled primers spaced along the genome, each only targeting one annealing site to form amplicons N in the presence of terminating 3? azido nucleotides to incorporate the terminating 3? azido nucleotides into the cDNA; click-ligating N a downstream primer onto tire 3? azido terminated cDNA such that a second template-specific primer is not required; amplifying the click-ligated cDNA; and sequencing the amplicons.

Abstract: The present invention includes a method and kit for cDNA synthesis of a 3?UTR/poly(A) tail junction of cellular RNA comprising: obtaining RNA comprising a 3?UTR/poly(A) junction and a poly(a) tail; combining the RNA with three terminating nucleotides of modified-deoxyGTP, modified-deoxyCTP and modified-deoxyATP, dNTPs, and adaptor sequence-oligo-dT; performing reverse transcription of the RNA with a reverse transcriptase primed with the adaptor sequence-oligo-dT to form terminated cDNA fragments that are stochastically terminated upstream of the 3?UTR/poly(A) junction, but not within the poly(A) tail; isolating the terminated cDNA fragments; chemically ligating a functionalized 5? adaptor to the terminated cDNA; and amplifying the chemically-ligated cDNA into an amplification product, wherein the cDNA is enriched for sequences at the 3?UTR/poly(A) tail junction without fragmentation or enzymatic ligation.

Abstract: The present invention includes a method and kit for cDNA synthesis of a 3?UTR/poly(A) tail junction of cellular RNA comprising: obtaining RNA comprising a 3?UTR/poly(A) junction and a poly(a) tail; combining the RNA with three terminating nucleotides of modified-deoxyGTP, modified-deoxyCTP and modified-deoxyATP, dNTPs, and adaptor sequence-oligo-dT; performing reverse transcription of the RNA with a reverse transcriptase primed with the adaptor sequence-oligo-dT to form terminated cDNA fragments that are stochastically terminated upstream of the 3?UTR/poly(A) junction, but not within the poly(A) tail; isolating the terminated cDNA fragments; chemically ligating a functionalized 5? adaptor to the terminated cDNA; and amplifying the chemically-ligated cDNA into an amplification product, wherein the cDNA is enriched for sequences at the 3?UTR/poly(A) tail junction without fragmentation or enzymatic ligation.

Abstract: The present invention includes a method and kit for cDNA synthesis of a 3?UTR/poly(A) tail junction of cellular RNA comprising: obtaining RNA comprising a 3?UTR/poly(A) junction and a poly(a) tail; combining the RNA with three terminating nucleotides of modified-deoxyGTP, modified-deoxyCTP and modified-deoxyATP, dNTPs, and adaptor sequence-oligo-dT; performing reverse transcription of the RNA with a reverse transcriptase primed with the adaptor sequence-oligo-dT to form terminated cDNA fragments that are stochastically terminated upstream of the 3?UTR/poly(A) junction, but not within the poly(A) tail; isolating the terminated cDNA fragments; chemically ligating a functionalized 5? adaptor to the terminated cDNA; and amplifying the chemically-ligated cDNA into an amplification product, wherein the cDNA is enriched for sequences at the 3?UTR/poly(A) tail junction without fragmentation or enzymatic ligation.