A
system for analyzing biological components in a biological sample, wherein the
system comprises a planar surface, and wherein the
system is configured to perform a procedure comprising: (a) arranging a spatially connected biological sample adjacent to the planar surface, wherein: the spatially connected biological sample comprises a
tissue sample, the
tissue sample comprises a plurality of cells, the planar surface comprises glass, plastic, or a combination thereof, the planar surface further comprises a plurality of binding sites, the plurality of binding sites is arranged in a two-dimensional pattern on the planar surface, one of the numerous binding sites has a dimension of about 1
micrometer to about 20 micrometers, each of the numerous binding sites comprises a plurality of single-stranded oligonucleotides, and the plurality of single-stranded oligonucleotides is coupled to the planar surface.wherein at least one subset of the plurality of single-stranded oligonucleotides comprises: (i) a binding sequence comprising a plurality of
thymine bases configured to bind to poly-A sequences, (ii) a unique molecular identifier, (iii) a
barcode associated with a position on the planar surface, and (iv) a sequencing primer, and each
oligonucleotide of the subset of the plurality of single-stranded oligonucleotides comprises at least 50 nucleotides; (b) imaging at least a portion of the spatially linked biological sample, wherein the imaging comprises bright-field imaging, phase-
contrast imaging,
fluorescence imaging, or a combination thereof; (c) releasing nucleic acids from the spatially linked biological sample; and (d) capturing at least one subset of the nucleic acids on at least the subset of single-stranded oligonucleotides, thereby recovering the captured nucleic acids.the captured nucleic acids are immobilized on the flat surface.