Exhibit 107

Calculation of Filing Fee Tables

Form S-3

(Form Type)

Bionano Genomics, Inc.

(Exact Name of Registrant as Specified in its Charter)

Table 1: Newly Registered Securities

Security Type

Security Class Title

Fee Calculation Rule

Amount Registered(1)

Proposed Maximum Offering Price Per Share(2)

Maximum Aggregate Offering Price

Fee Rate

Amount of Registration Fee

Fees to Be Paid

Equity

Common Stock, par value $0.0001 per share

457(c)

35,026,272

$0.61

$21,366,026

0.00014760

$3,153.63

Total Offering Amounts

$21,366,026

$3,153.63

Total Fees Previously Paid

—

Total Fee Offsets

—

Net Fee Due

$3,153.63

(1) This Registration Statement registers the resale of up to 35,026,272 shares of common stock of the Registrant issuable upon the exercise of Series A warrants and Series B warrants to purchase shares of common stock held by the selling stockholders named in this Registration Statement on Form S-3 (“Registration Statement”). Pursuant to Rule 416 under the Securities Act of 1933, as amended (the “Securities Act”), this Registration Statement also covers any additional number of shares of common stock issuable upon stock splits, stock dividends, or other distribution, recapitalization or similar events with respect to the shares of common stock being registered pursuant to this registration statement.

(2) Estimated solely for purposes of calculating the registration fee pursuant to Rule 457(c) under the Securities Act, based on the average of the high and low price per share of the Registrant’s common stock as reported on The Nasdaq Capital Market on July 26, 2024.